Psyllid ID: psy16349

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-
Protein Sequence
MSVLRSLIFSSSVPRKVFSISEVVSFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIEKPKAKELDTGEEIDDEPKEMAAQKV
Secondary Structure (PSIPRED)
cHHHHHHHHcccccccccccccccccccccHHHHHHHccHHHHHcccHHHHHHccccccccccHHHHHHcccccccccccccccEEEEcccccccccHHHHHHHHHHHcccccccccccEEEEEEEEEEEccccccccccccccEEEEccccccccEEEEEEEEcccHHHHHHHHccccccccHHHHHHHHccccccccccEEEEccHHHHHHHHHHccccccccccccccccccHHHHHHHHHcccEEEEEcccccccccEEEEEEEEccccHHHHHHHHHHHHHHHHHcccccccccccEEEEEEEEcccccccEEEccccccccccccccccccccccccHHHHHccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHcccccccHcccccHHHEccccHHHHHHHHccHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEEEEccccccccHHHHHHHHHHccccccccccccEEEEEEEEEcccccccccccccccEEEEEccccccccEEEEEEEEccHHHHHHHHHccccEcccHHHHHHHHcccEEEccccEEEEcHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHcccEEEEccccccccccEEEEEEEEEcccHHHHHHHHHHHHHHHHHHccccccccccEEEEEEEEccccccccEEccHHHcccccHHHHcccccccccHHHHHHccc
Coil and Loop (DISEMBL)
msvlrslifsssvprkvfsiSEVVSfhtatpyyaarkgtrarkeGKKVRTEIKKvawtpdskkkkdiyasrkvdesnltypeddiylqKDYKLRIFQFQEALAAIREthhptmynlprafigaTVEISTTTHqkkvkymdpwtHIVEVehsfdhgedrsIIAFCSQHETAAQLQDMGVAlvgdsdtikgierglvtmptfqfvicNPKILADLMRIRGLLKkriptlksqtlGVDLIGIAKRLQTGIKysmkkdpqeqdfgysdfhigrldMSQEQLEDNLKRILADistmkppskpededFITRILlwsepspekfKLDLsgliekpkakeldtgeeiddepKEMAAQKV
Flexible Loop (DISEMBL)
msvlrslifsssvprkvfsisevvsfhtatpyyaarkgtrarkegkkvrteikkvawtpdskkkkdiyasrkvdesnltypedDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKkriptlksqtlgvdliGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADistmkppskpedEDFITRILLWSEPSPEKFKLDLsgliekpkakeldtgeeiddepkemaaqkv
Low Complexity Region (SEG)
MSVLRSLIFSSSVPRKVFSISEVVSFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIEKPKAKELDTGEEIDDEPKEMAAQKV
Disordered region (IsUnstruct)
******LIFSSSVPRKVFSISEVVSFHTATPYYAA******************************************LTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYS*********FGYSDFHIGR********************************FITRILLWS*****************************************
Disordered Region (DISOPRED)
********FSSSVPRKVFSISEVVSFHTATPY********************************************NLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGL***************************
Disordered Region (DISEMBL)
MSVLRSLIFSSSVPRKVFSISEVVSFHTATPYYAAR*************TEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIEKPKAKE*******************
Disordered Region (DISPRO)
*S***SLIFSSSVPRKVFSISEVVSFHTATPYYAARKGTRARKEGKKVRT****V****************KVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIEKP***********************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSVLRSLIFSSSVPRKVFSISEVVSFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIEKPKAKELDTGEEIDDEPKEMAAQKV
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	351	2.2.26 [Sep-21-2011]
Q99N96	336	39S ribosomal protein L1,	yes	N/A	0.623	0.651	0.240	4e-12
Q9BYD6	325	39S ribosomal protein L1,	yes	N/A	0.623	0.673	0.223	5e-10
A6QPQ5	325	39S ribosomal protein L1,	yes	N/A	0.660	0.713	0.230	6e-10
B3ETZ3	232	50S ribosomal protein L1	yes	N/A	0.373	0.564	0.298	2e-07
B0BSE7	229	50S ribosomal protein L1	yes	N/A	0.364	0.558	0.306	7e-06
C5CGE2	231	50S ribosomal protein L1	yes	N/A	0.470	0.714	0.251	2e-05
Q2GJ65	216	50S ribosomal protein L1	yes	N/A	0.356	0.578	0.278	3e-05
Q1WST3	230	50S ribosomal protein L1	yes	N/A	0.373	0.569	0.25	6e-05
P78035	226	50S ribosomal protein L1	yes	N/A	0.521	0.809	0.242	7e-05
A2BNZ8	235	50S ribosomal protein L1	yes	N/A	0.512	0.765	0.241	8e-05

>sp|Q99N96|RM01_MOUSE 39S ribosomal protein L1, mitochondrial OS=Mus musculus GN=Mrpl1 PE=1 SV=2

 Score = 72.8 bits (177), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 56/233 (24%), Positives = 111/233 (47%), Gaps = 14/233 (6%)

Query: 81  PEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMD 140
           PEDD+YL++ Y  RI++ ++A+  +++       N P+   G  ++++      K K ++
Sbjct: 87  PEDDVYLKRLYPRRIYEVEKAIHLLKKFQVLDFTN-PKQ--GVYLDLTLDMALGKKKTVE 143

Query: 141 PWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTF 200
           P+  ++ + H F   E   +  F +        ++ G A  G +D +K I    V +   
Sbjct: 144 PFASVIALPHLFS-SEVNKVAVFTANASEIKIAEENGAAFAGGTDLVKKIMDDEVVV--- 199

Query: 201 QFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDF 260
            F +  P+I+ +L  +R  LKKR P     ++G D+  + +  +T   + +  D + Q+F
Sbjct: 200 DFYVAVPEIMGELNPLRKKLKKRFPKATRNSIGRDIPKMLELFKTA--HEIMVDEERQNF 257

Query: 261 GYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPS 313
             +   I  LDM  +Q+  NL+ ++ ++   +P +      F+ R  L S  S
Sbjct: 258 LSTK--IATLDMPSDQIAANLQAVINEVCKHRPLNL---GPFVVRAFLRSSTS 305

Mus musculus (taxid: 10090)

>sp|Q9BYD6|RM01_HUMAN 39S ribosomal protein L1, mitochondrial OS=Homo sapiens GN=MRPL1 PE=1 SV=2

 Score = 65.9 bits (159), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 52/233 (22%), Positives = 111/233 (47%), Gaps = 14/233 (6%)

Query: 81  PEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMD 140
           PEDD+YL++ Y  +I++ ++A+  +++      +  P+  +   + +     +KK   ++
Sbjct: 82  PEDDVYLKRLYPRQIYEVEKAVHLLKK-FQILDFTSPKQSVYLDLTLDMALGKKK--NVE 138

Query: 141 PWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTF 200
           P+T ++ + + F   E   +  F          ++ G A  G +  I+ I    +     
Sbjct: 139 PFTSVLSLPYPF-ASEINKVAVFTENASEVKIAEENGAAFAGGTSLIQKIWDDEIVA--- 194

Query: 201 QFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDF 260
            F +  P+I+ +L R+R  L K+ P L   ++G D+  + +  + G  + +K D + ++F
Sbjct: 195 DFYVAVPEIMPELNRLRKKLNKKYPKLSRNSIGRDIPKMLELFKNG--HEIKVDEERENF 252

Query: 261 GYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPS 313
             +   I  LDMS +Q+  NL+ ++ ++   +P +      F+ R  L S  S
Sbjct: 253 LQT--KIATLDMSSDQIAANLQAVINEVCRHRPLNL---GPFVVRAFLRSSTS 300

Homo sapiens (taxid: 9606)

>sp|A6QPQ5|RM01_BOVIN 39S ribosomal protein L1, mitochondrial OS=Bos taurus GN=MRPL1 PE=1 SV=1

 Score = 65.5 bits (158), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 57/247 (23%), Positives = 117/247 (47%), Gaps = 15/247 (6%)

Query: 81  PEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMD 140
           PEDD+YL++ Y  +I++ ++A+  +++       N P+   G  ++++      K K ++
Sbjct: 82  PEDDVYLKRLYPRQIYEVEKAVNLLKKFQVLDFTN-PKQ--GVYLDLTLDMTLGKKKKVE 138

Query: 141 PWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTF 200
           P+  ++ + + F   E   +  F          ++ G A  G ++ I+ I    +     
Sbjct: 139 PFASVLSLPYPF-ISEMSKVAVFTGNASEIKIAEENGAAFAGGTNLIQKILDDEIQA--- 194

Query: 201 QFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDF 260
            F I  P+I+ +L  +R  LK R P     ++G D+  + +  +TG++  +K D + ++F
Sbjct: 195 DFYIAVPEIMPELNPLRKKLKTRFPKFNRNSVGRDIPKMLELFKTGLE--IKVDEERENF 252

Query: 261 GYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD 320
              +  I  LDM  +Q+  NL+ ++ ++   +P +      F+ R  L S  S E   L 
Sbjct: 253 --LETKIATLDMPSDQIAANLQAVINEVCRQRPLNL---GPFVVRAFLRSSTS-EGLLLK 306

Query: 321 LSGLIEK 327
           +  L+ K
Sbjct: 307 IEPLLPK 313

Bos taurus (taxid: 9913)

>sp|B3ETZ3|RL1_AMOA5 50S ribosomal protein L1 OS=Amoebophilus asiaticus (strain 5a2) GN=rplA PE=3 SV=1

 Score = 57.0 bits (136), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 43/144 (29%), Positives = 75/144 (52%), Gaps = 13/144 (9%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
           G+++ I+  C+  E   + ++ G   VG  D IK IE G V +     +I  P+I+A + 
Sbjct: 70  GKNKRILVLCTP-EKEKEAREAGADHVGLDDYIKKIEEGWVDI---DVIITMPEIMAKVG 125

Query: 215 RIRGLLKKR--IPTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFHIGRLD 271
           R+  +L  R  +P  K+ T+ V++    + +++G I+Y + K      +G     +GR+ 
Sbjct: 126 RLGKILGPRGLMPNPKTGTVTVEIAKAVQAVKSGKIEYKVDK------YGIVHASVGRVS 179

Query: 272 MSQEQLEDNLKRILADISTMKPPS 295
            S+E L DN K +LA +   KP S
Sbjct: 180 FSKEALRDNAKELLATLLKAKPAS 203

Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA.

Amoebophilus asiaticus (strain 5a2) (taxid: 452471)

>sp|B0BSE7|RL1_ACTPJ 50S ribosomal protein L1 OS=Actinobacillus pleuropneumoniae serotype 3 (strain JL03) GN=rplA PE=3 SV=1

 Score = 52.0 bits (123), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 45/147 (30%), Positives = 69/147 (46%), Gaps = 19/147 (12%)

Query: 154 HGEDRSI-IAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILAD 212
           HG  R+  +A  +Q E A   +  G  LVG  D  + I++G      F  VI +P    D
Sbjct: 67  HGTGRTARVAVFTQGENAEAAKAPGADLVGMEDLAEQIKKG---EKNFDVVIPSP----D 119

Query: 213 LMRIRGLL------KKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFH 266
            MR+ G L      +  IP LK  T+  +++   K  ++G     +  P+    G     
Sbjct: 120 AMRVVGQLGQVLGPRGLIPNLKVGTVTPNVVEAVKNAKSG-----QIRPRNAKNGIIHTT 174

Query: 267 IGRLDMSQEQLEDNLKRILADISTMKP 293
           IG+ D + EQL+DNL  +LA ++  KP
Sbjct: 175 IGKADFAPEQLKDNLVALLAALNKAKP 201

Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA.

Actinobacillus pleuropneumoniae serotype 3 (strain JL03) (taxid: 434271)

>sp|C5CGE2|RL1_KOSOT 50S ribosomal protein L1 OS=Kosmotoga olearia (strain TBF 19.5.1) GN=rplA PE=3 SV=1

 Score = 50.4 bits (119), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 45/179 (25%), Positives = 82/179 (45%), Gaps = 14/179 (7%)

Query: 151 SFDHGEDRSI-IAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKI 209
           S  HG  +++ +   ++ E   + +  G   VG  + I+ I++G      F   I  P +
Sbjct: 64  SLPHGTGKNVKVLVFTRGEKVEEAKAAGADFVGSDELIQQIQKGWTD---FDVAIATPDM 120

Query: 210 LADLMRIRGLLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHI 267
           + ++ R+  +L  R  +P+ K+ T+  D+    K  + G +  +K D      G   F I
Sbjct: 121 MREIGRLGRILGPRGLMPSPKAGTVTTDVAEAVKAFKAG-RVEIKNDKT----GNLHFPI 175

Query: 268 GRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIE 326
           G+     E+L++NL   L  IS MKP +      FI ++++     P   KLD   ++E
Sbjct: 176 GKKSFDSEKLKENLVSALEQISKMKPAA--AKGRFIVKVVVAPTMGP-GIKLDHQKVVE 231

Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA.

Kosmotoga olearia (strain TBF 19.5.1) (taxid: 521045)

>sp|Q2GJ65|RL1_ANAPZ 50S ribosomal protein L1 OS=Anaplasma phagocytophilum (strain HZ) GN=rplA PE=3 SV=1

 Score = 49.7 bits (117), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 39/140 (27%), Positives = 70/140 (50%), Gaps = 15/140 (10%)

Query: 161 IAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLL 220
           +A  ++ E A Q +D G  +VGDSD I+ I++G      F + I  P  ++ +  I  +L
Sbjct: 62  VAVLAKGEYAKQAKDAGADVVGDSDLIEEIKKG--RKLDFDWCIATPDFMSQVSAIAKIL 119

Query: 221 KKR--IPTLKSQTLGVD---LIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQE 275
             R  +P  K  T+  D   ++GI K  Q  +++   K      +G     IG +  S+E
Sbjct: 120 GPRGLMPNPKFGTVTFDIAKMVGIVKSGQ--VRFRSDK------YGIVHVKIGDVGFSRE 171

Query: 276 QLEDNLKRILADISTMKPPS 295
            L +NL+ +++ +  +KP +
Sbjct: 172 DLMENLRAVVSAVQGLKPAT 191

Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA.

Anaplasma phagocytophilum (strain HZ) (taxid: 212042)

>sp|Q1WST3|RL1_LACS1 50S ribosomal protein L1 OS=Lactobacillus salivarius (strain UCC118) GN=rplA PE=3 SV=1

 Score = 48.9 bits (115), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 36/144 (25%), Positives = 71/144 (49%), Gaps = 13/144 (9%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
           G+D++++ F ++   A + +D G  +VGD D +  I+ G +    F   I  P ++A + 
Sbjct: 71  GKDQTVVVF-AKGAKAQEAKDAGADVVGDDDLVARIQDGWL---DFDVAIATPDMMAQVG 126

Query: 215 RIRGLL--KKRIPTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFHIGRLD 271
           R+  +L  K  +P  K+ T+ +D+       ++G + Y   +D      G     +G++ 
Sbjct: 127 RLGRVLGPKGLMPNPKTGTVTMDVTKAVTDAKSGQVTYRTDRD------GNVHVPLGKVS 180

Query: 272 MSQEQLEDNLKRILADISTMKPPS 295
            ++E LE N K +   I+  +P S
Sbjct: 181 FTEEALEGNFKAVYDVIAKARPAS 204

Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA.

Lactobacillus salivarius (strain UCC118) (taxid: 362948)

>sp|P78035|RL1_MYCPN 50S ribosomal protein L1 OS=Mycoplasma pneumoniae (strain ATCC 29342 / M129) GN=rplA PE=3 SV=1

 Score = 48.5 bits (114), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 50/206 (24%), Positives = 94/206 (45%), Gaps = 23/206 (11%)

Query: 92  KLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHS 151
           K +++  QEA+  +++T   T +N     I  ++ + TT  +++++    + H V     
Sbjct: 17  KTKLYPLQEAVDLVKKTSI-TKFN-GSVDIAVSLNLDTTKAEQQLRGAIAFPHSV----- 69

Query: 152 FDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILA 211
              G+   I+A     + A +    G   VG  D I  I+ G +    F  +I +PK +A
Sbjct: 70  ---GKPIRILAITDDEKAALE---AGADFVGGIDKINDIKNGWLD---FDLIITSPKFMA 120

Query: 212 DLMRIRGLL--KKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGR 269
            L ++  LL  K  +P  K++T+  D+    +  + G     KK+ +   FG     +GR
Sbjct: 121 ALGKLGKLLGTKGLMPNPKTETVTDDVPAAVRAYKKG-----KKEYRADSFGNIHMSLGR 175

Query: 270 LDMSQEQLEDNLKRILADISTMKPPS 295
           +D +   L +N   +L  I + KP +
Sbjct: 176 VDSASNHLVENALALLDLIKSRKPAT 201

Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA.

Mycoplasma pneumoniae (strain ATCC 29342 / M129) (taxid: 272634)

>sp|A2BNZ8|RL1_PROMS 50S ribosomal protein L1 OS=Prochlorococcus marinus (strain AS9601) GN=rplA PE=3 SV=1

 Score = 48.5 bits (114), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 49/203 (24%), Positives = 84/203 (41%), Gaps = 23/203 (11%)

Query: 94  RIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFD 153
           RI+   EAL+ I+E  +        A I   ++   T  Q +   + P            
Sbjct: 18  RIYAPLEALSIIKENANAKFDETIEAHIRLGIDPKYTDQQLRTTVVLP------------ 65

Query: 154 HGEDRSI-IAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILAD 212
           HG  +SI IA  +  E  ++ +  G  L G+ D ++ I +G +    F  +I  P ++  
Sbjct: 66  HGTGQSIKIAVITSGENVSKAKAAGADLFGEEDLVESINKGNME---FDLLIATPDMMPK 122

Query: 213 LMRIRGLLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRL 270
           + ++  +L  R  +P  K+ T+  D+    K  + G K   + D      G      G+ 
Sbjct: 123 VAKLGRVLGPRGLMPNPKAGTVTNDIANAIKEFKAG-KLEFRADKA----GIVHVRFGKA 177

Query: 271 DMSQEQLEDNLKRILADISTMKP 293
             ++E L DNLK +   I   KP
Sbjct: 178 SFTKEALFDNLKTLQESIDKNKP 200

Protein L1 is also a translational repressor protein, it controls the translation of the L11 operon by binding to its mRNA.

Prochlorococcus marinus (strain AS9601) (taxid: 146891)

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	351
357603305	349	hypothetical protein KGM_12514 [Danaus p	0.968	0.974	0.344	7e-57
332374058	357	unknown [Dendroctonus ponderosae]	0.871	0.857	0.390	3e-53
194904031	354	GG24696 [Drosophila erecta] gi|190652691	0.829	0.822	0.392	4e-52
195394473	353	GJ10532 [Drosophila virilis] gi|19414257	0.831	0.827	0.384	5e-52
195499052	354	GE25864 [Drosophila yakuba] gi|194182885	0.829	0.822	0.389	7e-52
195108505	355	GI24185 [Drosophila mojavensis] gi|19391	0.831	0.822	0.381	2e-51
242247557	340	mitochondrial ribosomal protein L1 [Acyr	0.831	0.858	0.382	3e-51
17737843	354	mitochondrial ribosomal protein L1 [Dros	0.954	0.946	0.360	3e-51
195036398	356	GH18673 [Drosophila grimshawi] gi|193893	0.863	0.851	0.382	3e-51
195330752	354	GM23720 [Drosophila sechellia] gi|194121	0.954	0.946	0.355	6e-51

>gi|357603305|gb|EHJ63704.1| hypothetical protein KGM_12514 [Danaus plexippus]

 Score =  227 bits (578), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 121/351 (34%), Positives = 210/351 (59%), Gaps = 11/351 (3%)

Query: 3   VLRSLIFSSSVPRKVFSISEVVSFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSK 62
           + RSL F++S+     +I+ + S +    YYAARKGTRA+   KKV+ EI KV + P ++
Sbjct: 5   IFRSL-FNTSLTLNKTNITTIRSINIGAVYYAARKGTRAKARAKKVKVEITKVGFIPHNQ 63

Query: 63  KKKD----IYASRKVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPR 118
           + K+    I+ ++ +D+SN    +DD+Y  + Y+  ++  +EA+ A +ETHHPTMYN+P 
Sbjct: 64  RGKNKDTKIHVNKHLDDSNKQISKDDVYPMRYYRWVVYTAEEAVLAHKETHHPTMYNVPD 123

Query: 119 AFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGV 178
           A + A VE++     KK +Y+D ++ +  +   F   E+R+I+AFC   E   Q+ + G 
Sbjct: 124 ALVFAQVELNMEA-VKKNRYIDNFSRLTLLPRIFPRDEERTILAFCKGPELIKQVAEAGA 182

Query: 179 ALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIG 238
              G ++ +K I+ G + +  + +VI +P IL +L+ IRGL+K+R P+  + TL  ++  
Sbjct: 183 TTAGSTELVKKIQEGSLKLSDYDYVIAHPNILTELVPIRGLMKRRFPSPNNGTLDANICD 242

Query: 239 IAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPE 298
           + K+   G++Y + KD  +Q+FG  +  +GRLDM  + + +N+  +L DI + +P     
Sbjct: 243 LVKKFAAGVQYRVVKDEHQQNFGSVEVPVGRLDMDAQHIVENVDALLKDIQSARP---KR 299

Query: 299 DEDFITRILLWSEPSPEKFKLDLSGLIEKPKAKELDTGEEIDDEPKEMAAQ 349
           +  FITR  + S PS EK K+D    +++  +KE+   E+ DDE + +AA+
Sbjct: 300 EGLFITRCFITSPPSSEKLKIDPFVHVDRTLSKEVQ--EDSDDEDEAVAAR 348

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332374058|gb|AEE62170.1| unknown [Dendroctonus ponderosae]

 Score =  214 bits (546), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 123/315 (39%), Positives = 180/315 (57%), Gaps = 9/315 (2%)

Query: 33  YAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIY----ASRKVDESNLTYPEDDIYLQ 88
           YAARKGTR RK   KV+ E+KK+ + P + + ++      AS+K D+S    P DD+Y+ 
Sbjct: 42  YAARKGTRERKSKAKVKMEVKKIGFIPHNLRNREKMLASRASKKYDDSWKRDPIDDVYVM 101

Query: 89  KDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEV 148
           K YK  +  F +A+ A RETHHP +YN P A +  T++++    +KK +++D +  I  +
Sbjct: 102 KYYKWTVHSFVDAVKAHRETHHPEIYNRPNAELFVTIDLNMQG-EKKTRFVDNFKRIAGI 160

Query: 149 EHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPK 208
            H FD  E+R++IAF    E+  +    G  + G  D IK I+ G V +  FQ VI +P 
Sbjct: 161 PHKFDIKEERTVIAFAKNTESIQEAIKAGAQMSGGVDLIKQIQNGQVLLQDFQHVIAHPD 220

Query: 209 ILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIG 268
           ILA+L+ +RG++KK+ P  KS TL  +L  +  R   GI Y   KD  E DFG  +  IG
Sbjct: 221 ILAELLVLRGIMKKKFPNTKSGTLDANLGPVVDRFLNGIAYQALKDEYEHDFGQIETVIG 280

Query: 269 RLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSG-LIEK 327
            L+M  E LE N   ++ DI T KP  + +   F+TR LLWS PS EK K+  S  LI+ 
Sbjct: 281 TLNMDPEDLERNFIALINDIYTQKPKREGQ---FVTRCLLWSPPSDEKLKVGFSHYLIDN 337

Query: 328 PKAKELDTGEEIDDE 342
            K    +  +E+ +E
Sbjct: 338 KKKASEEAADEVIEE 352

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194904031|ref|XP_001980988.1| GG24696 [Drosophila erecta] gi|190652691|gb|EDV49946.1| GG24696 [Drosophila erecta]

 Score =  211 bits (537), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 117/298 (39%), Positives = 183/298 (61%), Gaps = 7/298 (2%)

Query: 26  FHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIY---ASRKVDESNLTYPE 82
            H +    AARKGTR +   KKV+ E+KKV + P +++ K I    A + VD+S    P+
Sbjct: 24  LHLSAVSEAARKGTREKARKKKVKVEVKKVGFIPHNQRNKKINMKRADKHVDDSWKQVPK 83

Query: 83  DDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPW 142
           DD Y+ + Y+  ++  QEA+   RETHHPTMYN+P A +   +E++    +K  +++D +
Sbjct: 84  DDCYVGRYYRWPVYSVQEAVQCHRETHHPTMYNVPNAPLNVDIELNMQA-EKITRFVDNF 142

Query: 143 THIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQF 202
             +  + H FDHGE+R II F   +    + ++ G +LVG  + IK I  G + +  +Q+
Sbjct: 143 QRMAMIPHKFDHGEERKIIVFTKGNNEVLEAREAGASLVGGVELIKDITNGELLLSDYQY 202

Query: 203 VICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGY 262
           +I +P ILA+L+ +RGL+K++ P  KS+TLG +L  +  +  +GI YS  KD  +Q+FG 
Sbjct: 203 IIAHPNILAELVALRGLMKRKFPNPKSETLGTNLAEMIVKFSSGISYSAAKDEYQQNFGL 262

Query: 263 SDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD 320
               +G LDM  ++LEDN+K +L DI+TM+P     +  FITR+LL S PS E+ K+D
Sbjct: 263 ITASVGTLDMDAQKLEDNIKFLLQDINTMRP---KREGRFITRVLLKSPPSSEQLKID 317

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195394473|ref|XP_002055867.1| GJ10532 [Drosophila virilis] gi|194142576|gb|EDW58979.1| GJ10532 [Drosophila virilis]

 Score =  211 bits (536), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 115/299 (38%), Positives = 181/299 (60%), Gaps = 7/299 (2%)

Query: 25  SFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIY---ASRKVDESNLTYP 81
             H      AARKGTR +   KKV+ E+KKV + P +++ K I    A + VD+S    P
Sbjct: 22  CLHLTAVTEAARKGTREKARKKKVKVEVKKVGFIPHNQRDKKINVKRADKHVDDSWKQVP 81

Query: 82  EDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDP 141
           +DD+Y+ + Y+  ++   EA+   RETHHP+MYN+P A +   +E++    +K  +++D 
Sbjct: 82  KDDVYVGRYYRWPVYTVAEAIQCHRETHHPSMYNVPNASLNVEIELNMQG-EKATRFVDN 140

Query: 142 WTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQ 201
           +  +  + H F HGEDR II F  ++E   + ++ G  LVG  + IK I  G + +  +Q
Sbjct: 141 FQRMAMIPHKFHHGEDRKIIVFTKENEEITKAREAGATLVGGVELIKDITNGELLLSDYQ 200

Query: 202 FVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFG 261
           F+I +P ILA+L+ +RGL+K++ P  KS+TLG +L  +  +   GI YS  KD  +Q+FG
Sbjct: 201 FIIAHPNILAELVALRGLMKRKFPNPKSETLGTNLAEMITKFSNGISYSATKDEYQQNFG 260

Query: 262 YSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD 320
               ++G LDM  + LE+N++ +L D++TM+P     D  FITR+LL S PS E+ K+D
Sbjct: 261 LIKANVGTLDMDAQHLEENIRFLLQDVNTMRP---KRDGRFITRVLLKSAPSSEQLKID 316

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195499052|ref|XP_002096784.1| GE25864 [Drosophila yakuba] gi|194182885|gb|EDW96496.1| GE25864 [Drosophila yakuba]

 Score =  210 bits (535), Expect = 7e-52,   Method: Compositional matrix adjust.
 Identities = 116/298 (38%), Positives = 183/298 (61%), Gaps = 7/298 (2%)

Query: 26  FHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIY---ASRKVDESNLTYPE 82
            H +    AARKGTR +   KKV+ E+KKV + P +++ K I    A + VD+S    P+
Sbjct: 24  LHLSAVSEAARKGTREKARKKKVKVEVKKVGFIPHNQRNKKINVKRADKHVDDSWKQVPK 83

Query: 83  DDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPW 142
           DD Y+ + Y+  ++  QEA+   RETHHP+MYN+P A +   +E++    +K  +++D +
Sbjct: 84  DDCYVGRYYRWPVYSVQEAIQCHRETHHPSMYNVPNAPLNVDIELNMQA-EKITRFVDNF 142

Query: 143 THIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQF 202
             +  + H FDHGE+R II F   +    + ++ G +LVG  + IK I  G + +  +Q+
Sbjct: 143 QRMAMIPHKFDHGEERKIIVFTKGNNEVLEAREAGASLVGGVELIKDITNGELLLSDYQY 202

Query: 203 VICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGY 262
           +I +P ILA+L+ +RGL+K++ P  KS+TLG +L  +  +  +GI YS  KD  +Q+FG 
Sbjct: 203 IIAHPNILAELVALRGLMKRKFPNPKSETLGTNLAEMIVKFSSGISYSAAKDEYQQNFGL 262

Query: 263 SDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD 320
               +G LDM  ++LEDN+K +L DI+TM+P     +  FITR+LL S PS E+ K+D
Sbjct: 263 ITASVGTLDMDAQKLEDNIKFLLQDINTMRP---KREGRFITRVLLKSPPSSEQLKID 317

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195108505|ref|XP_001998833.1| GI24185 [Drosophila mojavensis] gi|193915427|gb|EDW14294.1| GI24185 [Drosophila mojavensis]

 Score =  208 bits (530), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 114/299 (38%), Positives = 181/299 (60%), Gaps = 7/299 (2%)

Query: 25  SFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIY---ASRKVDESNLTYP 81
             H      AARKGTR +   KKV+ E+KKV + P +++ K I    A + VD+S    P
Sbjct: 23  CLHLTAVTEAARKGTREKARKKKVKVEVKKVGFIPHNQRDKKINVKRADKHVDDSWKQVP 82

Query: 82  EDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDP 141
           +DD+Y+ + Y+  ++   EA+   RETHHPTMYN+P A +   +E++    +K  +++D 
Sbjct: 83  KDDVYVGRYYRWPVYTVAEAIQCHRETHHPTMYNVPNASLNVEIELNMQG-EKATRFVDN 141

Query: 142 WTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQ 201
           +  +  + H FDHGE+R II F   ++   + ++ G  LVG  + IK I  G + +  +Q
Sbjct: 142 FQRMAMIPHKFDHGEERKIIVFTKGNDEIVEAREAGATLVGGVELIKDITAGELLLSDYQ 201

Query: 202 FVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFG 261
           F+I +P IL +L+ +RGL+K++ P  KS+TLGV+L  +  +   GI YS  KD  +Q+FG
Sbjct: 202 FIIAHPNILPELVALRGLMKRKFPNPKSETLGVNLAEMVVKFSNGISYSATKDEYQQNFG 261

Query: 262 YSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD 320
               ++G LDM  + LE+N++ +L D+++M+P     D  FITR+LL S PS E+ K+D
Sbjct: 262 LIKANVGTLDMDAQHLEENIRFLLQDVNSMRP---KRDGRFITRVLLKSAPSSEQLKID 317

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242247557|ref|NP_001156081.1| mitochondrial ribosomal protein L1 [Acyrthosiphon pisum] gi|239791057|dbj|BAH72044.1| ACYPI001497 [Acyrthosiphon pisum]

 Score =  208 bits (530), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 114/298 (38%), Positives = 171/298 (57%), Gaps = 6/298 (2%)

Query: 33  YAARKGTRARKEGKKVRTEIKKVA----WTPDSKKKKDIYASRKVDESNLTYPEDDIYLQ 88
           Y ARK TR RK     +     +A    + P  KKK+   +SR ++        DD+YL 
Sbjct: 22  YRARKCTRERKAKIHKKNRAANLAKARKYIPILKKKQLEKSSRTIETFPWRSSNDDVYLG 81

Query: 89  KDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEV 148
              ++R +   EA+ A RE HHPTM N+P A +   +EI  +T  KK K++D +  I+E+
Sbjct: 82  LFNQMRRYNLLEAILAHRELHHPTMINVPNAPLNVRLEIDLST-DKKNKFVDKYHKIIEL 140

Query: 149 EHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPK 208
            HS+DHGEDR+I+AFC   E   + ++ G  LVG  + IK IERGL+ +P FQ+V+ +P 
Sbjct: 141 PHSYDHGEDRTILAFCQSAEMMEEARNAGAMLVGGKEVIKSIERGLIMLPDFQYVLAHPD 200

Query: 209 ILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIG 268
           IL +L  IRGLL+KR P+L+  +L +DL+ + K    GIKY+M+ DP ++  G  +  IG
Sbjct: 201 ILTELPAIRGLLRKRYPSLQHGSLTLDLVAMVKHYIKGIKYNMQVDPFDEALGIVEMKIG 260

Query: 269 RLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIE 326
           +L      L +N + +  DI T K P + +   F+ R L  +  S EKF ++LS  + 
Sbjct: 261 QLSDEPNHLIENFETLFKDIMT-KAPKRAKPSPFVIRCLAQTPASREKFSINLSQFVN 317

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17737843|ref|NP_524275.1| mitochondrial ribosomal protein L1 [Drosophila melanogaster] gi|15291911|gb|AAK93224.1| LD31571p [Drosophila melanogaster] gi|23175907|gb|AAF54214.2| mitochondrial ribosomal protein L1 [Drosophila melanogaster] gi|220946058|gb|ACL85572.1| mRpL1-PA [synthetic construct] gi|220955810|gb|ACL90448.1| mRpL1-PA [synthetic construct]

 Score =  208 bits (530), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 127/352 (36%), Positives = 204/352 (57%), Gaps = 17/352 (4%)

Query: 1   MSVLRSLIFSSSVPRKVFSISEVVSFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPD 60
           +S +R+L    S      ++  +   H +    AARKGTR +   KKV+ E+KKV + P 
Sbjct: 5   LSSMRALALRQS------TVEPLRLLHLSAVSEAARKGTREKARKKKVKVEVKKVGFIPH 58

Query: 61  SKKKKDIY---ASRKVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLP 117
           +++ K I    A + VD+S    P+DD Y+ + Y+  ++  QEA+   RETHHP+MYN+P
Sbjct: 59  NQRNKKINVKRADKHVDDSWKQVPKDDCYVGRYYRWPVYSVQEAIQCHRETHHPSMYNVP 118

Query: 118 RAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMG 177
            A +   +E++    +K  +++D +  +  + H FDHGE+R II F   +    + ++ G
Sbjct: 119 NAPLNLDIELNMQA-EKITRFVDNFQRMAMIPHKFDHGEERKIIVFTKGNNEVLEAREAG 177

Query: 178 VALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLI 237
            +LVG  + IK I  G + +  +Q+VI +P ILA+L+ +RGL+K++ P  KS+TLG +L 
Sbjct: 178 ASLVGGVELIKDITSGELLLSDYQYVIAHPNILAELVALRGLMKRKFPNPKSETLGTNLA 237

Query: 238 GIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKP 297
            +  +  +GI YS  KD  +Q+FG     +G LDM  ++LE+N+K +L DI+TM+P    
Sbjct: 238 EMIVKFSSGISYSAAKDEYQQNFGLITASVGTLDMDVQKLEENIKFLLQDINTMRP---K 294

Query: 298 EDEDFITRILLWSEPSPEKFKLD----LSGLIEKPKAKELDTGEEIDDEPKE 345
            +  FITR+LL S PS E+ K+D    +  + +K  AK    G +   EP E
Sbjct: 295 REGRFITRVLLKSPPSSEQLKIDPFVYVPEMWDKSTAKVKRDGAKKQTEPAE 346

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195036398|ref|XP_001989657.1| GH18673 [Drosophila grimshawi] gi|193893853|gb|EDV92719.1| GH18673 [Drosophila grimshawi]

 Score =  208 bits (530), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 120/314 (38%), Positives = 187/314 (59%), Gaps = 11/314 (3%)

Query: 25  SFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIY---ASRKVDESNLTYP 81
             H      AARKGTR +   KKV+ E+KKV + P +++ K I    A + VD+S    P
Sbjct: 23  CLHLTAVAEAARKGTREKARKKKVKVEVKKVGFIPHNQRDKKINVKRADKHVDDSWKQVP 82

Query: 82  EDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDP 141
           +DD+Y+ + Y+  ++   EA+   RETHHP+MYN+P A +   +E++    +K  +++D 
Sbjct: 83  KDDVYVGRYYRWPVYTVAEAIQCHRETHHPSMYNVPNAPLNVEIELNMQG-EKATRFVDN 141

Query: 142 WTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQ 201
           +  +  + H F HGE+R II F   +E  A+ +  G +LVG  + IK I  G + +  +Q
Sbjct: 142 FQRMAMIPHKFHHGEERKIIVFTKGNEEIAEARGAGASLVGGVELIKDITGGELLLSDYQ 201

Query: 202 FVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFG 261
           F+I +P ILA+L+ +RGL+K++ P  KS+TLG +L  +  +   GI YS  KD  +Q+FG
Sbjct: 202 FIIAHPNILAELVALRGLMKRKFPNPKSETLGTNLAEMIVKFSNGIAYSAAKDEYQQNFG 261

Query: 262 YSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD- 320
                +G LDM  + LE+N++ +L D++TM+P     D  FITR+LL S PS E+ K+D 
Sbjct: 262 LITASVGTLDMDAQHLEENVRFLLQDVNTMRP---KRDGRFITRVLLKSAPSSEQLKIDP 318

Query: 321 ---LSGLIEKPKAK 331
              +S L +K  AK
Sbjct: 319 FVYISELYDKSAAK 332

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195330752|ref|XP_002032067.1| GM23720 [Drosophila sechellia] gi|194121010|gb|EDW43053.1| GM23720 [Drosophila sechellia]

 Score =  207 bits (527), Expect = 6e-51,   Method: Compositional matrix adjust.
 Identities = 125/352 (35%), Positives = 204/352 (57%), Gaps = 17/352 (4%)

Query: 1   MSVLRSLIFSSSVPRKVFSISEVVSFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPD 60
           +S +R+L    S      ++  +   H +    AARKGTR +   KKV+ E+KKV + P 
Sbjct: 5   LSSMRALALRQS------TVEPLRLLHLSAVSEAARKGTREKARKKKVKVEVKKVGFIPH 58

Query: 61  SKKKKDIY---ASRKVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLP 117
           +++ K I    A + VD+S    P+DD Y+ + Y+  ++  QEA+   RETHHP+MYN+P
Sbjct: 59  NQRNKKINVKRADKHVDDSWKQVPKDDCYVGRYYRWPVYSVQEAIQCHRETHHPSMYNVP 118

Query: 118 RAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMG 177
            A +   +E++    +K  +++D +  +  + H FDHGE+R II F   +    + ++ G
Sbjct: 119 NAPLNLNIELNMQA-EKITRFVDNFQRMAMIPHKFDHGEERKIIVFTKGNNEVLEAREAG 177

Query: 178 VALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLI 237
            +LVG  + IK I  G + +  +Q+VI +P ILA+L+ +RGL+K++ P  KS+TLG +L 
Sbjct: 178 ASLVGGVELIKDITSGELLLSDYQYVIAHPNILAELVALRGLMKRKFPNPKSETLGTNLA 237

Query: 238 GIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKP 297
            +  +  +GI YS  KD  +Q+FG     +G LDM  ++LE+N++ +L D++TM+P    
Sbjct: 238 EMIVKFSSGISYSAVKDEYQQNFGLITASVGTLDMDVQKLEENIRFLLQDVNTMRP---K 294

Query: 298 EDEDFITRILLWSEPSPEKFKLD----LSGLIEKPKAKELDTGEEIDDEPKE 345
            +  FITR+LL S PS E+ K+D    +  + +K  AK    G +   EP E
Sbjct: 295 REGRFITRVLLKSPPSSEQLKIDPFLYVPEMWDKSTAKVKRDGAKKQTEPAE 346

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	351
FB|FBgn0037566	354	mRpL1 "mitochondrial ribosomal	0.897	0.889	0.383	5.9e-57
WB|WBGene00017997	377	F33D4.5 [Caenorhabditis elegan	0.777	0.724	0.291	1.1e-30
UNIPROTKB|E1C7D6	332	MRPL1 "Uncharacterized protein	0.760	0.804	0.288	7e-22
MGI|MGI:2137202	336	Mrpl1 "mitochondrial ribosomal	0.817	0.854	0.256	1.5e-16
UNIPROTKB|D4AC74	331	Mrpl1 "Protein Mrpl1" [Rattus	0.777	0.824	0.255	1.1e-15
RGD|1306850	322	Mrpl1 "mitochondrial ribosomal	0.732	0.798	0.257	7.4e-15
UNIPROTKB|F1RYS1	278	MRPL1 "Uncharacterized protein	0.683	0.863	0.242	8.1e-14
UNIPROTKB|Q9BYD6	325	MRPL1 "39S ribosomal protein L	0.794	0.858	0.234	1.4e-13
UNIPROTKB|E2RQ67	328	MRPL1 "Uncharacterized protein	0.863	0.923	0.225	6e-13
UNIPROTKB|A6QPQ5	325	MRPL1 "39S ribosomal protein L	0.783	0.846	0.240	1.3e-12

FB|FBgn0037566 mRpL1 "mitochondrial ribosomal protein L1" [Drosophila melanogaster (taxid:7227)]

 Score = 586 (211.3 bits), Expect = 5.9e-57, P = 5.9e-57
 Identities = 125/326 (38%), Positives = 195/326 (59%)

Query:    27 HTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIY---ASRKVDESNLTYPED 83
             H +    AARKGTR +   KKV+ E+KKV + P +++ K I    A + VD+S    P+D
Sbjct:    25 HLSAVSEAARKGTREKARKKKVKVEVKKVGFIPHNQRNKKINVKRADKHVDDSWKQVPKD 84

Query:    84 DIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWT 143
             D Y+ + Y+  ++  QEA+   RETHHP+MYN+P A +   +E++    +K  +++D + 
Sbjct:    85 DCYVGRYYRWPVYSVQEAIQCHRETHHPSMYNVPNAPLNLDIELNMQA-EKITRFVDNFQ 143

Query:   144 HIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFV 203
              +  + H FDHGE+R II F   +    + ++ G +LVG  + IK I  G + +  +Q+V
Sbjct:   144 RMAMIPHKFDHGEERKIIVFTKGNNEVLEAREAGASLVGGVELIKDITSGELLLSDYQYV 203

Query:   204 ICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYS 263
             I +P ILA+L+ +RGL+K++ P  KS+TLG +L  +  +  +GI YS  KD  +Q+FG  
Sbjct:   204 IAHPNILAELVALRGLMKRKFPNPKSETLGTNLAEMIVKFSSGISYSAAKDEYQQNFGLI 263

Query:   264 DFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD--- 320
                +G LDM  ++LE+N+K +L DI+TM+P  K E   FITR+LL S PS E+ K+D   
Sbjct:   264 TASVGTLDMDVQKLEENIKFLLQDINTMRP--KREGR-FITRVLLKSPPSSEQLKIDPFV 320

Query:   321 -LSGLIEKPKAKELDTGEEIDDEPKE 345
              +  + +K  AK    G +   EP E
Sbjct:   321 YVPEMWDKSTAKVKRDGAKKQTEPAE 346

GO:0006412 "translation" evidence=ISS

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISS

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

GO:0003723 "RNA binding" evidence=IEA

WB|WBGene00017997 F33D4.5 [Caenorhabditis elegans (taxid:6239)]

 Score = 338 (124.0 bits), Expect = 1.1e-30, P = 1.1e-30
 Identities = 81/278 (29%), Positives = 145/278 (52%)

Query:    74 DESNLTY-PEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTH 132
             DE+NL   P  D++++  +K + +   EAL   RE   P++YN P A I   +E++ TT 
Sbjct:    89 DEANLPEKPTLDVFIKSHFKTQYYTVSEALDMHRELQSPSIYNNPNAPIRLRLELNMTT- 147

Query:   133 QKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIER 192
             +++ K +     IV V H F+H E R+I+AF +  +      + G  +    DTIK I +
Sbjct:   148 ERQTKMVTGSDEIVPVPHPFNHNEKRTILAFANDVKLQELAVESGAEMALGQDTIKKIIK 207

Query:   193 GLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMK 252
             G      + F + +  + + ++ +RG+LK R PT  +  LG +L  + ++ + G+K ++K
Sbjct:   208 GQFRTDDYDFCVSHSDMGSSILPLRGILKMRFPTRANGGLGENLPELIEKFKNGVKLNIK 267

Query:   253 KDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEP 312
              DP    +G SD  +GRL M  E +E N+  ++A     + P+      F+ R LL + P
Sbjct:   268 GDPVYPIWGLSDCVVGRLSMPNEHIEANIATVIAAACAHRNPALGS---FVNRALLMTIP 324

Query:   313 SPEKFKLDLSGLIEKPKAKELDTGEEIDDEPKEMAAQK 350
               E + +D+   I  P  +E++  E+  ++ K+   +K
Sbjct:   325 GEENYAIDVKPWIPIPTEEEIEKIEKRKNKKKKKDEKK 362

GO:0003723 "RNA binding" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

GO:0008340 "determination of adult lifespan" evidence=IMP

UNIPROTKB|E1C7D6 MRPL1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 255 (94.8 bits), Expect = 7.0e-22, P = 7.0e-22
 Identities = 84/291 (28%), Positives = 139/291 (47%)

Query:    60 DSKKKKDIYASRKVDESN---LTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNL 116
             DS+K K     +K        L+ P DD+YL   YK   +  +EA+  +++      +  
Sbjct:    52 DSQKAKQEETQKKKGRGRRPLLSKPVDDVYLTWYYKRPSYNVEEAVGMLKKFQELD-FTY 110

Query:   117 PRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDM 176
             P+ F+   V +     +KK   +D +  IV + + F   E   ++ F    + A   ++ 
Sbjct:   111 PKQFVYINVTLDMELPKKKK--VDQFASIVLLPYRFTD-ETNKVLVFTENEQEAEIAREN 167

Query:   177 GVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDL 236
             G A+VG  + IK I    + M    F I  P I+  L+ +R  LK++ P+ +  +LG D+
Sbjct:   168 GAAVVGGVELIKWILEDEIQM---DFYIAVPAIIPKLIPLRNKLKRKYPSTRRNSLGHDI 224

Query:   237 IGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSK 296
               + +  + G++Y++      QD       I RLDM  EQ+  NLK I+ DI   KP S 
Sbjct:   225 PKMLQFFREGLEYTV------QDERLIKTRIARLDMPTEQIVANLKTIIEDICKFKPSSA 278

Query:   297 PEDEDFITRILLWSEPSPEKFKLDLSGLI---EKPKAKELDTGEEIDDEPK 344
                  F+ ++++ S  S E   L+L GL+   EK + KE +  E+ DDE K
Sbjct:   279 GP---FVKKLVIRSSTS-EGLLLNLDGLLPEAEKVEEKEEEPAED-DDEEK 324

GO:0003723 "RNA binding" evidence=IEA

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

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

MGI|MGI:2137202 Mrpl1 "mitochondrial ribosomal protein L1" [Mus musculus (taxid:10090)]

 Score = 221 (82.9 bits), Expect = 1.5e-16, P = 1.5e-16
 Identities = 80/312 (25%), Positives = 141/312 (45%)

Query:    27 HTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIY 86
             H A    AA K  R  K+G K +T  +K     D +K K  Y   + D      PEDD+Y
Sbjct:    42 HFAAAAAAATKPARKIKKGAKEKTSDEKPV--DDIEKIKS-YTYMESD------PEDDVY 92

Query:    87 LQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIV 146
             L++ Y  RI++ ++A+  +++       N P+   G  ++++      K K ++P+  ++
Sbjct:    93 LKRLYPRRIYEVEKAIHLLKKFQVLDFTN-PKQ--GVYLDLTLDMALGKKKTVEPFASVI 149

Query:   147 EVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICN 206
              + H F   E   +  F +        ++ G A  G +D +K I    V +    F +  
Sbjct:   150 ALPHLFS-SEVNKVAVFTANASEIKIAEENGAAFAGGTDLVKKIMDDEVVV---DFYVAV 205

Query:   207 PKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFH 266
             P+I+ +L  +R  LKKR P     ++G D+  + +  +T   + +  D + Q+F      
Sbjct:   206 PEIMGELNPLRKKLKKRFPKATRNSIGRDIPKMLELFKTA--HEIMVDEERQNF--LSTK 261

Query:   267 IGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIE 326
             I  LDM  +Q+  NL+ ++ ++   +P +      F+ R  L S  S E   L    L+ 
Sbjct:   262 IATLDMPSDQIAANLQAVINEVCKHRPLNLGP---FVVRAFLRSSTS-EGLLLKTDSLLP 317

Query:   327 KP-KAKELDTGE 337
             K  K  E +T E
Sbjct:   318 KEAKTTEAETEE 329

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=ISO

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|D4AC74 Mrpl1 "Protein Mrpl1" [Rattus norvegicus (taxid:10116)]

 Score = 214 (80.4 bits), Expect = 1.1e-15, P = 1.1e-15
 Identities = 75/294 (25%), Positives = 133/294 (45%)

Query:    34 AARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDYKL 93
             AA K TR+ ++ KK   E  K   T D K   DI   +       + PEDD+YL++ Y  
Sbjct:    46 AAAKATRSARKNKKGAKE--K---TSDEKPVDDIEKIKSYTYME-SEPEDDVYLKRLYPR 99

Query:    94 RIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFD 153
             RI++ ++A+  +++       N P+   G  ++++      K K ++P+  ++ + H F 
Sbjct:   100 RIYEVEKAIHLLKKFQVLDFTN-PKQ--GVYLDLTLDMALGKKKKVEPFASVIALPHPFS 156

Query:   154 HGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADL 213
               E   +  F          ++ G A  G +D +K I    V +    F +  P+I+ +L
Sbjct:   157 -SEVNKVAVFTGNASEIKIAEENGAAFAGGADLVKKILDDEVVV---DFYVAVPEIMGEL 212

Query:   214 MRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMS 273
               +R  LKKR P     ++G D+  + +  +T   + +  D + Q+F      I  LDM 
Sbjct:   213 NPLRKKLKKRFPKATRNSIGRDIPKMLELFKTA--HEIMVDEERQNF--LSTKIATLDMP 268

Query:   274 QEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIEK 327
              +QL  NL+ ++ ++   +P +      F+ R  L S  S E   L    L+ K
Sbjct:   269 SDQLAANLQAVINEVCRHRPLNLGP---FVVRAFLRSSTS-EGLLLKTDSLLPK 318

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005739 "mitochondrion" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

RGD|1306850 Mrpl1 "mitochondrial ribosomal protein L1" [Rattus norvegicus (taxid:10116)]

 Score = 207 (77.9 bits), Expect = 7.4e-15, P = 7.4e-15
 Identities = 72/280 (25%), Positives = 128/280 (45%)

Query:    34 AARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDYKL 93
             AA K  R  K+G K +T  +K     D +K K  Y      ES    PEDD+YL++ Y  
Sbjct:    46 AAAKSARKNKKGAKEKTSDEKPV--DDIEKIKS-YTYM---ESE---PEDDVYLKRLYPR 96

Query:    94 RIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFD 153
             RI++ ++A+  +++       N P+   G  ++++      K K ++P+  ++ + H F 
Sbjct:    97 RIYEVEKAIHLLKKFQVLDFTN-PKQ--GVYLDLTLDMALGKKKKVEPFASVIALPHPFS 153

Query:   154 HGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADL 213
               E   +  F          ++ G A  G +D +K I    V +    F +  P+I+ +L
Sbjct:   154 -SEVNKVAVFTGNASEIKIAEENGAAFAGGADLVKKILDDEVVV---DFYVAVPEIMGEL 209

Query:   214 MRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMS 273
               +R  LKKR P     ++G D+  + +  +T   + +  D + Q+F      I  LDM 
Sbjct:   210 NPLRKKLKKRFPKATRNSIGRDIPKMLELFKTA--HEIMVDEERQNF--LSTKIATLDMP 265

Query:   274 QEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPS 313
              +QL  NL+ ++ ++   +P +      F+ R  L S  S
Sbjct:   266 SDQLAANLQAVINEVCRHRPLNLGP---FVVRAFLRSSTS 302

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

UNIPROTKB|F1RYS1 MRPL1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 194 (73.4 bits), Expect = 8.1e-14, P = 8.1e-14
 Identities = 62/256 (24%), Positives = 124/256 (48%)

Query:    81 PEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMD 140
             PEDD+YL++ Y  +I++ ++A+  +++       N P   +   + +  T  +KK   ++
Sbjct:    35 PEDDVYLKRLYPRQIYEVEKAIHLLKKFQVLDFTN-PNQGVYLDLTLDMTLGKKKK--VE 91

Query:   141 PWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTF 200
             P+  ++ + + F   E   +  F          ++ G A  G ++ I+ I    +  P F
Sbjct:    92 PFASVLSLPYPFT-SEINKVAVFTGNASEIKIAEEKGAAFAGGTNLIQKILDDEI-QPDF 149

Query:   201 QFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDF 260
                +  P+I+ +L  +R  LKKR P L   ++G D+  + +  +TG  + +K D + ++F
Sbjct:   150 YVAV--PEIMPELNPLRKKLKKRFPKLTRNSIGRDIPKMLELFKTG--HEIKVDEERENF 205

Query:   261 GYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD 320
                +  I  L+MS +Q+  NL+ ++ ++   +P +      F+ R  L S  S E   + 
Sbjct:   206 --LETKIATLNMSSDQIAANLQAVINEVCRQRPLNLGP---FVVRAFLRSSTS-EGLLIK 259

Query:   321 LSGLIEKP-KAKELDT 335
             +  L+ K  +AKE  T
Sbjct:   260 IEPLLPKEVEAKESGT 275

GO:0005739 "mitochondrion" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|Q9BYD6 MRPL1 "39S ribosomal protein L1, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 197 (74.4 bits), Expect = 1.4e-13, P = 1.4e-13
 Identities = 70/298 (23%), Positives = 135/298 (45%)

Query:    41 ARKEGKKVRTEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDYKLRIFQFQE 100
             A K  KK +   K+   TPD  +KKD     K        PEDD+YL++ Y  +I++ ++
Sbjct:    46 ATKSAKKTKKGAKEK--TPD--EKKDEIEKIKAYPYMEGEPEDDVYLKRLYPRQIYEVEK 101

Query:   101 ALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSI 160
             A+  +++      +  P+  +   + +     +KK   ++P+T ++ + + F   E   +
Sbjct:   102 AVHLLKK-FQILDFTSPKQSVYLDLTLDMALGKKK--NVEPFTSVLSLPYPFA-SEINKV 157

Query:   161 IAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLL 220
               F          ++ G A  G +  I+ I    +      F +  P+I+ +L R+R  L
Sbjct:   158 AVFTENASEVKIAEENGAAFAGGTSLIQKIWDDEIVA---DFYVAVPEIMPELNRLRKKL 214

Query:   221 KKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDN 280
              K+ P L   ++G D+  + +  + G  + +K D + ++F  +   I  LDMS +Q+  N
Sbjct:   215 NKKYPKLSRNSIGRDIPKMLELFKNG--HEIKVDEERENFLQTK--IATLDMSSDQIAAN 270

Query:   281 LKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIEKPKAKELDTGEE 338
             L+ ++ ++   +P +      F+ R  L S  S E   L +  L+ K    E    E+
Sbjct:   271 LQAVINEVCRHRPLNLGP---FVVRAFLRSSTS-EGLLLKIDPLLPKEVKNEESEKED 324

GO:0003723 "RNA binding" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

UNIPROTKB|E2RQ67 MRPL1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 192 (72.6 bits), Expect = 6.0e-13, P = 6.0e-13
 Identities = 75/332 (22%), Positives = 156/332 (46%)

Query:    12 SVPRKVFSISEVVSFHTATPYY--AARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIYA 69
             S+ +KV+ I      +  + Y   ++R    A K  KK +  +K  A    S +KKD   
Sbjct:    22 SLSKKVYQIP----LYPCSVYVQVSSRHFAAATKPAKKTKKSMKDKA----SDEKKDEIE 73

Query:    70 SRKVDESNLTYPEDDIYLQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEIST 129
               K        PEDD+YL+  Y  +I++ ++A+  +++       N P+   G  ++++ 
Sbjct:    74 KIKSYSFMEGEPEDDVYLKHLYPRQIYEVEKAIQLLKKFQTLDFTN-PKQ--GVYLDLTL 130

Query:   130 TTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQL-QDMGVALVGDSDTIK 188
                  K K ++P+  ++   + F    ++  +A  +++ +  ++ ++ G A  G ++ I+
Sbjct:   131 DMSLGKKKKVEPFASVLSFPYPFISEINK--VAVLTENASEIKIAEENGAAFAGGTNLIQ 188

Query:   189 GIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIK 248
              I    +      F +  P+I+ +L  ++  LKKR P L   ++G D+  + +  +TG  
Sbjct:   189 KILDDEIQS---DFYVAVPEIMPELNPLKKKLKKRFPKLTRNSIGRDIPKMLELFKTG-- 243

Query:   249 YSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILL 308
             + +K D + ++F   +  I  LDM  +Q+  NL+ +++++   +P +      F+ R  L
Sbjct:   244 HEIKVDEERENF--LETKIATLDMQSDQIAANLQAVISEVCKHRPLNLGP---FVVRAFL 298

Query:   309 WSEPSPEKFKLDLSGLIEKPKAKELDTGEEID 340
              +  S E   L +  L+  PK  E +   + D
Sbjct:   299 RTSTS-EGLLLKIKPLL--PKEVETEESNKED 327

GO:0005739 "mitochondrion" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|A6QPQ5 MRPL1 "39S ribosomal protein L1, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 189 (71.6 bits), Expect = 1.3e-12, P = 1.3e-12
 Identities = 71/295 (24%), Positives = 135/295 (45%)

Query:    41 ARKEGKKVRTEIKKVAWTPDSKKKKDIYASRKVDESNLTYPEDDIYLQKDYKLRIFQFQE 100
             A K  KK +   K+ A    S +KKD     K        PEDD+YL++ Y  +I++ ++
Sbjct:    46 AAKPAKKTKKGTKEKA----SNEKKDDIEKIKSYPFMEGEPEDDVYLKRLYPRQIYEVEK 101

Query:   101 ALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSI 160
             A+  +++       N P+  +   + +  T  +KK   ++P+  ++ + + F   E   +
Sbjct:   102 AVNLLKKFQVLDFTN-PKQGVYLDLTLDMTLGKKKK--VEPFASVLSLPYPFI-SEMSKV 157

Query:   161 IAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLL 220
               F          ++ G A  G ++ I+ I    +      F I  P+I+ +L  +R  L
Sbjct:   158 AVFTGNASEIKIAEENGAAFAGGTNLIQKILDDEIQA---DFYIAVPEIMPELNPLRKKL 214

Query:   221 KKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDN 280
             K R P     ++G D+  + +  +TG++  +K D + ++F   +  I  LDM  +Q+  N
Sbjct:   215 KTRFPKFNRNSVGRDIPKMLELFKTGLE--IKVDEERENF--LETKIATLDMPSDQIAAN 270

Query:   281 LKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIEKP-KAKELD 334
             L+ ++ ++   +P +      F+ R  L S  S E   L +  L+ K  + KE D
Sbjct:   271 LQAVINEVCRQRPLNLGP---FVVRAFLRSSTS-EGLLLKIEPLLPKEGETKESD 321

GO:0005739 "mitochondrion" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

GO:0003723 "RNA binding" 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 EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	351
cd00403	208	cd00403, Ribosomal_L1, Ribosomal protein L1	2e-09
TIGR01169	227	TIGR01169, rplA_bact, ribosomal protein L1, bacter	8e-08
COG0081	228	COG0081, RplA, Ribosomal protein L1 [Translation,	4e-07
TIGR01170	141	TIGR01170, rplA_mito, ribosomal protein L1, mitoch	4e-07
pfam00687	200	pfam00687, Ribosomal_L1, Ribosomal protein L1p/L10	8e-04

>gnl|CDD|238235 cd00403, Ribosomal_L1, Ribosomal protein L1

 Score = 56.4 bits (137), Expect = 2e-09
 Identities = 49/224 (21%), Positives = 89/224 (39%), Gaps = 29/224 (12%)

Query: 99  QEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDR 158
           +EA+ A+++T         R F   TVE+     +   K        V + H    G+D 
Sbjct: 2   EEAIKALKKTSVKK-----RKFD-ETVELQINLKKDDRKKDQRIRGTVILPHGL--GKDV 53

Query: 159 SIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQF--VICNPKILADLMRI 216
            +  F    E A + +  G  +VG  D  K I+ G        F   + +P     +M +
Sbjct: 54  KVCVFAKD-EQAKEAKAAGADVVGGEDLKKKIKNGEAKKLAKDFDLFLADP---RIMMLL 109

Query: 217 RGLL------KKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRL 270
             LL      + ++P  K+ T+  DL    +  ++ +++ + K       G     +G++
Sbjct: 110 PKLLGKVLGPRGKMPNPKTGTVTEDLAKAIEEAKSSVEFRLDKG------GCIHVPVGKV 163

Query: 271 DMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSP 314
            MS EQL +N++ ++  +    P  K      I  I L +   P
Sbjct: 164 SMSPEQLVENIEAVINALVKKLPSKKG---QNIKSIYLKTTMGP 204

The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds its own mRNA. Like several other large ribosomal subunit proteins, L1 displays RNA chaperone activity. L1 is one of the largest ribosomal proteins. It is composed of two domains that cycle between open and closed conformations via a hinge motion. The RNA-binding site of L1 is highly conserved, with both mRNA and rRNA binding the same binding site. Length = 208

>gnl|CDD|211630 TIGR01169, rplA_bact, ribosomal protein L1, bacterial/chloroplast

 Score = 51.9 bits (125), Expect = 8e-08
 Identities = 36/146 (24%), Positives = 69/146 (47%), Gaps = 13/146 (8%)

Query: 154 HGEDRSI-IAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILAD 212
           HG  +++ +A  ++ E A + +  G   VG  D I+ I++G +    F  VI  P ++  
Sbjct: 65  HGTGKTVRVAVFAKGEKAKEAKAAGADYVGSDDLIEKIKKGWLD---FDVVIATPDMMRV 121

Query: 213 LMRIRGLLKKR--IPTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFHIGR 269
           + ++  +L  R  +P  K+ T+  D+    K  + G +++   K       G     IG+
Sbjct: 122 VGKLGRILGPRGLMPNPKTGTVTTDVAKAVKNAKKGQVEFRADK------AGNIHAPIGK 175

Query: 270 LDMSQEQLEDNLKRILADISTMKPPS 295
           +    E+L++NL+ +L  I   KP  
Sbjct: 176 VSFDSEKLKENLEALLDAIKKAKPSG 201

This model describes bacterial (and chloroplast) ribosomal protein L1. The apparent mitochondrial L1 is sufficiently diverged to be the subject of a separate model [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 227

>gnl|CDD|223159 COG0081, RplA, Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]

 Score = 49.9 bits (120), Expect = 4e-07
 Identities = 35/151 (23%), Positives = 60/151 (39%), Gaps = 24/151 (15%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
           G+   +  F    E A + +  G   VG  D I+ I+ G      F   I  P    D+M
Sbjct: 70  GKTVRVAVFA-DGEKAEEAKAAGADYVGGEDLIELIKNGRAK--DFDVFIATP----DMM 122

Query: 215 RIRGLL------KKRIPTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFH- 266
            + G L      +  +P  K+ T+  D+    + L+ G +++   K            H 
Sbjct: 123 PLVGKLGKVLGPRGLMPNPKTGTVTDDVAKAVEELKKGTVEFRADKAGV--------IHV 174

Query: 267 -IGRLDMSQEQLEDNLKRILADISTMKPPSK 296
            IG++    E+L +N++ +L  I   KP   
Sbjct: 175 PIGKVSFDDEKLAENIEALLNAIVKAKPAGA 205

Length = 228

>gnl|CDD|233298 TIGR01170, rplA_mito, ribosomal protein L1, mitochondrial

 Score = 48.7 bits (116), Expect = 4e-07
 Identities = 31/150 (20%), Positives = 62/150 (41%), Gaps = 14/150 (9%)

Query: 99  QEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDR 158
            +A   ++         +P+  +   + +     ++ V+ M          H F      
Sbjct: 4   IKAFVYLKTKSISMY--VPKQSVNLDIGLLMELGKESVQGM------FSFPHPFGKEPK- 54

Query: 159 SIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRG 218
            I  F        + ++ G   VG  D IK IE G   +  F ++I +P I+ +L ++R 
Sbjct: 55  -IAVFTKGASEVEEAREAGADYVGGDDLIKKIEDG--EIKPFDYLIAHPDIVPELAQLRR 111

Query: 219 LLKKR--IPTLKSQTLGVDLIGIAKRLQTG 246
           LL  +  +P+ K  T+G +L+ + +  + G
Sbjct: 112 LLGPKGLMPSPKRGTVGDNLLSMIETFKKG 141

This model represents the mitochondrial homolog of bacterial ribosomal protein L1. Unlike chloroplast L1, this form was not sufficiently similar to bacterial forms to include in a single bacterial/organellar L1 model [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 141

>gnl|CDD|216061 pfam00687, Ribosomal_L1, Ribosomal protein L1p/L10e family

 Score = 39.9 bits (94), Expect = 8e-04
 Identities = 29/145 (20%), Positives = 62/145 (42%), Gaps = 12/145 (8%)

Query: 155 GEDRSIIAFCSQ-HETAAQLQDMGVALVGDSDTIK--GIERGLVTMPTFQFVICNPKILA 211
           G+D  +          A + +D G  +VG  D  +   I++G      F   + +P I+ 
Sbjct: 44  GKDVKVCVIAKDPEAKAKEAKDAGADVVGGEDLKEKYKIKKGRKLAKDFDVFLADPDIMP 103

Query: 212 DLMRI--RGL-LKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIG 268
            L ++  + L  + ++P  K+ T+  D+    +  ++G     K        G     +G
Sbjct: 104 LLPKLLGKVLGPRGKMPNPKT-TVTPDVAKAIEEAKSGTVEFRKDK-----GGCIHVKVG 157

Query: 269 RLDMSQEQLEDNLKRILADISTMKP 293
           ++ MS E+L +N++ ++  +    P
Sbjct: 158 KVSMSPEELVENIEAVINALVKKLP 182

This family includes prokaryotic L1 and eukaryotic L10. Length = 200

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	351
KOG1569|consensus	323		100.0
CHL00129	229	rpl1 ribosomal protein L1; Reviewed	100.0
COG0081	228	RplA Ribosomal protein L1 [Translation, ribosomal	100.0
TIGR01169	227	rplA_bact ribosomal protein L1, bacterial/chloropl	100.0
PRK05424	230	rplA 50S ribosomal protein L1; Validated	100.0
PRK04203	215	rpl1P 50S ribosomal protein L1P; Reviewed	100.0
PTZ00225	214	60S ribosomal protein L10a; Provisional	100.0
PTZ00029	216	60S ribosomal protein L10a; Provisional	100.0
cd00403	208	Ribosomal_L1 Ribosomal protein L1. The L1 protein,	100.0
TIGR01170	141	rplA_mito ribosomal protein L1, mitochondrial. Thi	100.0
PF00687	220	Ribosomal_L1: Ribosomal protein L1p/L10e family; I	99.97
KOG1570|consensus	218		99.81
PF13003	133	MRL1: Ribosomal protein L1; InterPro: IPR024663 Th	99.54
KOG1685|consensus	343		98.59

>KOG1569|consensus

Probab=100.00  E-value=9e-67  Score=494.39  Aligned_cols=298  Identities=28%  Similarity=0.454  Sum_probs=275.6

Q ss_pred             eeeecccchhHHhhhchhhhhhccccchhhhhcccccCcccccccc---cccccCcCCCCCCCCcceeecccccccCCHH
Q psy16349         23 VVSFHTATPYYAARKGTRARKEGKKVRTEIKKVAWTPDSKKKKDIY---ASRKVDESNLTYPEDDIYLQKDYKLRIFQFQ   99 (351)
Q Consensus        23 ~~~~~~~~~~~aark~tr~k~~k~~~~~~~~k~~~~~~~~~~~~~~---~~~~~~~~~~~~P~DdVy~~~~~~~~~ysl~   99 (351)
                      -...|+.+-..|||+++|..+.+++.+.+.+|.++++|+.+.+|.+   ...+.+++|..+|.||||+.++|+||.|++.
T Consensus        14 ~~l~~~s~~Sv~~r~~~r~~~~~~~~~~k~kk~~a~e~~~~~~kini~~~~~~~~~~~e~~pk~dv~lKr~~kr~~y~vq   93 (323)
T KOG1569|consen   14 DLLPTLSACSVAIRVPNRHFPAATKSAKKTKKLGAIEKKPAAKKINIERAKADLDMEGELEPKDDVYLKRLYKRQIYEVQ   93 (323)
T ss_pred             cccCCccceeEEeeccccchhhHhhhhhHHHhhhccccCchhhhhhhHhhhcccchhhccCccchhhhhhhcCcchhhHH
Confidence            3455566777799999999999989999999999999999988888   5666777788889999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHHHcCCC
Q psy16349        100 EALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVA  179 (351)
Q Consensus       100 EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~AkeaGA~  179 (351)
                      +|+.++|+++||++||.|+++.+..++++|. .++-+++..++.+++.+||||.||+.++|+||++|.+.+++|+++||+
T Consensus        94 ~a~~~~ke~~~~sa~~~pk~~~~l~i~l~~~-a~~~~k~~~~~~~~v~vP~Pf~~ge~r~IavFtn~~~kveeArEaGA~  172 (323)
T KOG1569|consen   94 KAVHLHKELQILSAYNVPKQPVNLRIELNML-AEKETKGVAPLQGSVTVPHPFAHGEIRKIAVFTNDASKVEEAREAGAA  172 (323)
T ss_pred             HHHHHHHHhccchhhhCCCCceeeeEEeeee-eeeeccccCCCceeEeccccCCCCceEEEEEecCChHHHHHHHhcccc
Confidence            9999999999999999999999999999998 566668899999999999999999999999999998889999999999


Q ss_pred             eeccHHHHHHHHcCCccCCCccEEEEchhhHHHhHHhhchhccCCCcCCCCCCccCHHHHHHHHhcc--cEEEeecCCCC
Q psy16349        180 LVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTG--IKYSMKKDPQE  257 (351)
Q Consensus       180 ~VGg~eLI~kI~~g~i~~~~fD~~IAtpd~m~~L~~lrGLMkkk~P~~K~GTv~~DI~~~V~~~k~g--i~~r~~k~~~~  257 (351)
                      +|||.|||++|.+|++.+ |||+|||||||||.|.+|||+|+.||||+++||||.||++||+.|++|  ++|+.++    
T Consensus       173 l~GG~dLIkkI~~Gei~~-Dyd~~vA~Pdim~~l~~Lr~iL~~r~Pn~k~gtvg~nipemieeFk~G~~i~~d~~~----  247 (323)
T KOG1569|consen  173 LAGGTDLIKKIKSGEIVA-DYDFYVAHPDIMPELNRLRKILGPRFPNPKRGTVGRNIPEMIEEFKNGHEIKFDEER----  247 (323)
T ss_pred             ccccHHHHHHhhcCeEEE-eeceeeecchHHHHHHHHHHHhcccCCCcccCccccchHHHHHHhhCCccccccccc----
Confidence            999999999999999977 499999999999999999999999999999999999999999999999  6666555    


Q ss_pred             CCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEeccCCccCcccccc
Q psy16349        258 QDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLIEKPKAKE  332 (351)
Q Consensus       258 ~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~~~~~~~~~~~~  332 (351)
                        .++++++||+|+|+.+||++||.++++++|+++|++   +|.||.|++|+|+||| |+.||+.+++|.+.-+|
T Consensus       248 --~~~~~~~vGkl~mt~e~i~~Ni~a~i~av~t~rp~~---~G~fv~ra~L~Ss~g~-~i~l~i~p~i~~k~k~~  316 (323)
T KOG1569|consen  248 --ENILQIKVGKLDMTSEQILANIQAVIAAVCTHRPKA---LGPFVVRALLRSSPGE-GILLKIDPLIPKKVKNE  316 (323)
T ss_pred             --CceeeeeeeeecCCHHHHHHHHHHHHHHHHhcCCcc---cCceeeeeEeecCCCC-ceeEecccccceeccCC
Confidence              667999999999999999999999999999999986   8999999999999999 89999999999953333

>CHL00129 rpl1 ribosomal protein L1; Reviewed

Probab=100.00  E-value=4e-56  Score=415.80  Aligned_cols=205  Identities=23%  Similarity=0.424  Sum_probs=196.5

Q ss_pred             cccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHH
Q psy16349         93 LRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQ  172 (351)
Q Consensus        93 ~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~  172 (351)
                      .+.|+++|||+++|+.+        .++|.+||||+++|+.|++++++++||+|.|||++  |+..+|||||++ +.+++
T Consensus        17 ~~~y~l~eAi~~~k~~~--------~~kF~esvel~i~L~id~kk~~~~irg~v~LP~~~--gk~~kV~Vfa~~-~~~~e   85 (229)
T CHL00129         17 KKLYSPEEAINLLKETA--------TAKFIETAEAHISLNIDPKYADQQLRTTVTLPKGT--GKTIRIAVLTNE-EKITE   85 (229)
T ss_pred             ccccCHHHHHHHHHHhC--------cCCCCccEEEEEEECCCCCCCCCceeeEEECCCCC--CCCcEEEEECCh-HhHHH
Confidence            57999999999999876        88999999999999889988999999999999999  999999999999 56999


Q ss_pred             HHHcCCCeeccHHHHHHHHcCCccCCCccEEEEchhhHHHhHHh------hchhccCCCcCCCCCCccCHHHHHHHHhcc
Q psy16349        173 LQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRI------RGLLKKRIPTLKSQTLGVDLIGIAKRLQTG  246 (351)
Q Consensus       173 AkeaGA~~VGg~eLI~kI~~g~i~~~~fD~~IAtpd~m~~L~~l------rGLMkkk~P~~K~GTv~~DI~~~V~~~k~g  246 (351)
                      |++|||++|||+|||++|++|++   +||+||||||||++|++|      ||||    |+|++|||++||.++|+++++|
T Consensus        86 Ak~aGad~vg~edLi~~ik~~~~---~fd~~iAt~d~m~~l~kLgriLGprGlM----P~pk~gTvt~di~~~V~~~k~G  158 (229)
T CHL00129         86 AKNAGADIVGSDDLIEEITKGNL---DFDLLIATPDMMPKLAKLGRVLGPRGLM----PSPKSGTVTTDLASAINEFKKG  158 (229)
T ss_pred             HHHcCCCEeCHHHHHHHHHcCcc---cCCEEEECHHHHHHHHHhcCcccccCCC----CCCCCCCccccHHHHHHHHhcC
Confidence            99999999999999999999998   899999999999999998      9999    9999999999999999999997


Q ss_pred             -cEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEeccCCc
Q psy16349        247 -IKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGL  324 (351)
Q Consensus       247 -i~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~~~~  324 (351)
                       ++||+++      +|+||++||+++|+++||.|||.+++++|.+++|.++  +|.||+++|||||||| |++||+..+
T Consensus       159 ~v~~r~dk------~g~i~~~VG~~~m~~~~l~eNi~a~l~~i~~~~p~~~--kg~~ik~v~issTMGp-~v~i~~~~~  228 (229)
T CHL00129        159 KLEYRADK------TGIVHVLFGKSNFTEEDLLENLQAIYESIEQNRPSGV--KGKYWKSFYICSTMGP-SIQIDISLL  228 (229)
T ss_pred             cEEEEecC------CcEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCcccc--cCceEEEEEEECCCCC-CEEeccccc
Confidence             9999999      9999999999999999999999999999999999887  8889999999999999 999998754

>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.5e-55  Score=407.62  Aligned_cols=204  Identities=24%  Similarity=0.422  Sum_probs=196.3

Q ss_pred             cccccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhH
Q psy16349         91 YKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETA  170 (351)
Q Consensus        91 ~~~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a  170 (351)
                      .....|+++|||+++++.+        .++|++|||+.++|++|++|.++++||+|.|||++  |+..||||||++ +.+
T Consensus        16 d~~~~~~i~eai~~~ke~~--------~~kF~etVevav~L~vD~~k~dq~vrg~VvLP~g~--gk~vrV~Vfa~g-~~~   84 (228)
T COG0081          16 DRNKLYSLEEAVKLLKETS--------KRKFDETVEVAVNLKVDPRKPDQRVRGSVVLPNGT--GKTVRVAVFADG-EKA   84 (228)
T ss_pred             hhhhhhhHHHHHHHHHhcc--------ccCcceEEEEEEEcccCCCCcccccceeEECCCCC--CCccEEEEEcCh-HhH
Confidence            4568899999999999998        69999999999999999999999999999999999  999999999998 669


Q ss_pred             HHHHHcCCCeeccHHHHHHHHcC-CccCCCccEEEEchhhHHHhHHh------hchhccCCCcCCCCCCccCHHHHHHHH
Q psy16349        171 AQLQDMGVALVGDSDTIKGIERG-LVTMPTFQFVICNPKILADLMRI------RGLLKKRIPTLKSQTLGVDLIGIAKRL  243 (351)
Q Consensus       171 ~~AkeaGA~~VGg~eLI~kI~~g-~i~~~~fD~~IAtpd~m~~L~~l------rGLMkkk~P~~K~GTv~~DI~~~V~~~  243 (351)
                      ++|++||||+||++||++.|++| |.   +||+|||||||||.+++|      ||||    |+|++||++.||.++|+++
T Consensus        85 ~~A~~AGad~Vg~edl~e~ik~~r~~---~fD~~IAtpdmM~~v~~LG~vLGPRGlM----P~Pk~gTvt~Dv~~av~~~  157 (228)
T COG0081          85 EEAKAAGADYVGGEDLIELIKNGRAK---DFDVFIATPDMMPLVGKLGKVLGPRGLM----PNPKTGTVTDDVAKAVEEL  157 (228)
T ss_pred             HHHHHcCCCEecHHHHHHHHhCcchh---cCCEEEECchHHHHHHHHhhhcCCCCCC----CCCCCCCCCcCHHHHHHHH
Confidence            99999999999999999999999 77   999999999999999777      9999    9999999999999999999


Q ss_pred             hcc-cEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEecc
Q psy16349        244 QTG-IKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDL  321 (351)
Q Consensus       244 k~g-i~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~  321 (351)
                      |+| ++||+++      .|+||++||+++|++++|.|||.++++.|.+.+|..+  +|+||+++|||||||| |++|++
T Consensus       158 K~g~v~~R~dk------~g~ih~~iGk~sf~~e~L~eNi~a~l~~i~~~~p~~~--kg~~ik~v~vstTMGP-~v~v~~  227 (228)
T COG0081         158 KKGTVEFRADK------AGVIHVPIGKVSFDDEKLAENIEALLNAIVKAKPAGA--KGQYIKSVYVSTTMGP-GVKVDL  227 (228)
T ss_pred             hcCcEEEEECC------CceEEEEecCCCCCHHHHHHHHHHHHHHHHHhCcCCc--ccceEeEEEEecCCCC-CEEecc
Confidence            998 9999999      9999999999999999999999999999999999887  8999999999999999 999986

>TIGR01169 rplA_bact ribosomal protein L1, bacterial/chloroplast

Probab=100.00  E-value=9.5e-55  Score=406.27  Aligned_cols=206  Identities=28%  Similarity=0.463  Sum_probs=196.4

Q ss_pred             cccccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhH
Q psy16349         91 YKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETA  170 (351)
Q Consensus        91 ~~~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a  170 (351)
                      ...+.|++.|||++||+.+        .++|.++|||+++|+.+++|++++|||+|.|||++  |+..+|||||++ +.+
T Consensus        14 ~~~~~y~l~eAi~~lk~~~--------~~~f~esvel~i~L~id~kK~~~~irg~v~LP~~~--gk~~kV~Vfa~~-~~~   82 (227)
T TIGR01169        14 DRNKLYSLDEAIALLKETA--------TAKFDETVEVAIRLGIDPRKSDQQVRGTVVLPHGT--GKTVRVAVFAKG-EKA   82 (227)
T ss_pred             ccCCccCHHHHHHHHHhhc--------cCCCCCCEEEEEEECcCCCcCCCeeeEEEECCCCC--CCCcEEEEEcCc-hhH
Confidence            3467999999999999876        78999999999999889988899999999999999  999999999998 569


Q ss_pred             HHHHHcCCCeeccHHHHHHHHcCCccCCCccEEEEchhhHHHhHHh------hchhccCCCcCCCCCCccCHHHHHHHHh
Q psy16349        171 AQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRI------RGLLKKRIPTLKSQTLGVDLIGIAKRLQ  244 (351)
Q Consensus       171 ~~AkeaGA~~VGg~eLI~kI~~g~i~~~~fD~~IAtpd~m~~L~~l------rGLMkkk~P~~K~GTv~~DI~~~V~~~k  244 (351)
                      ++|++|||++|||+||+++|++|++   +||+|||||+|||+|++|      ||||    |++++|||++||.++|++++
T Consensus        83 ~~Ak~aGa~~vg~~eLi~~ik~~~~---~fd~~iat~~~m~~l~~Lg~iLGPrGlM----P~~k~gtv~~di~~~I~~~k  155 (227)
T TIGR01169        83 EEAKAAGADYVGSDDLIEKIKKGWL---DFDVVIATPDMMRVVGKLGRILGPRGLM----PNPKTGTVTADVAKAVKNAK  155 (227)
T ss_pred             HHHHHcCCCEeCHHHHHHHHHcCCc---cCCEEEECHHHHHHHHHhccccccccCC----CCCCCCCccccHHHHHHHHH
Confidence            9999999999999999999999998   899999999999999987      9999    99999999999999999999


Q ss_pred             cc-cEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEeccCC
Q psy16349        245 TG-IKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSG  323 (351)
Q Consensus       245 ~g-i~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~~~  323 (351)
                      +| ++||+++      +|+||++||+++|+++||+|||.++|++|.+++|.++  +|+||++||||||||| |++|++..
T Consensus       156 ~g~v~~r~~k------~g~i~~~VG~~~m~~e~i~eNi~a~l~~i~~~~p~~~--kg~~Ik~v~lssTmGp-~~~i~~~~  226 (227)
T TIGR01169       156 KGQVEFRADK------AGNIHASIGKVSFDSEKLKENLEALLDAIKKAKPSGA--KGQYIKNIALSSTMGP-GIKVDLSS  226 (227)
T ss_pred             cCcEEEEeCC------CCEEEEEEecCCCCHHHHHHHHHHHHHHHHHhCcccc--CCCEEEEEEEECCCCC-CEEeccCC
Confidence            98 9999999      9999999999999999999999999999999999887  8899999999999999 99999864

This model describes bacterial (and chloroplast) ribosomal protein L1. The apparent mitochondrial L1 is sufficiently diverged to be the subject of a separate model.

>PRK05424 rplA 50S ribosomal protein L1; Validated

Probab=100.00  E-value=7.3e-55  Score=407.76  Aligned_cols=209  Identities=26%  Similarity=0.458  Sum_probs=198.5

Q ss_pred             ccccccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhh
Q psy16349         90 DYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHET  169 (351)
Q Consensus        90 ~~~~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~  169 (351)
                      ...++.|++.|||+.+|+.+        .++|.|+|||+++|+.+++|++++|||+|.|||++  |+..+|||||++ +.
T Consensus        14 ~~~~~~y~l~eAi~~lk~~~--------~~kF~esvel~v~L~id~kK~~~~irg~v~LP~~~--gk~~kI~Vfa~~-~~   82 (230)
T PRK05424         14 VDRTKLYSLEEAIALVKETA--------TAKFDETVDVAVNLGVDPRKADQQVRGAVVLPHGT--GKTVRVAVFAKG-EK   82 (230)
T ss_pred             ccccCccCHHHHHHHHHhhc--------cCCCCCcEEEEEEeCCCCCCCCCeeeEEEECCCCC--CCCcEEEEECCh-Hh
Confidence            35678999999999999876        78999999999999889988899999999999999  999999999988 56


Q ss_pred             HHHHHHcCCCeeccHHHHHHHHcCCccCCCccEEEEchhhHHHhHHh------hchhccCCCcCCCCCCccCHHHHHHHH
Q psy16349        170 AAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRI------RGLLKKRIPTLKSQTLGVDLIGIAKRL  243 (351)
Q Consensus       170 a~~AkeaGA~~VGg~eLI~kI~~g~i~~~~fD~~IAtpd~m~~L~~l------rGLMkkk~P~~K~GTv~~DI~~~V~~~  243 (351)
                      +++|++|||++|||+||+++|++|++   +||+|||||+|||+|++|      ||||    |+|+.|||++||.++|+++
T Consensus        83 ~~~Ak~aGa~~vg~eeLi~~ik~~~~---~fd~~iat~~~m~~l~~Lg~iLGPrGlM----P~pk~gTv~~di~~~I~~~  155 (230)
T PRK05424         83 AEEAKAAGADIVGGEDLIEKIKGGWL---DFDVVIATPDMMGKVGKLGRILGPRGLM----PNPKTGTVTMDVAKAVKEA  155 (230)
T ss_pred             HHHHHHcCCCEeCHHHHHHHHhcCCC---cCCEEEECHHHHHHHHHhccccccccCC----CCCCCCCcchhHHHHHHHH
Confidence            99999999999999999999999998   899999999999999888      9999    9999999999999999999


Q ss_pred             hcc-cEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEeccC
Q psy16349        244 QTG-IKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLS  322 (351)
Q Consensus       244 k~g-i~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~~  322 (351)
                      ++| ++||+++      +|+||++||+++|+++||.|||.+++++|.+++|.++  +|+||++||||||||| |++|++.
T Consensus       156 k~g~v~~r~~k------~g~i~~~IG~~~m~~e~i~eNi~a~l~~i~~~~p~~~--kg~~Ik~v~lssTmGp-~~~i~~~  226 (230)
T PRK05424        156 KAGKVEFRVDK------AGIIHAPIGKVSFDAEKLKENLKALIDAIKKAKPATA--KGTYIKSVSLSSTMGP-GVKVDPS  226 (230)
T ss_pred             hcCcEEEEecC------CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCcccc--CCCEEEEEEEECCCCC-CEEechH
Confidence            998 9999999      9999999999999999999999999999999999887  8999999999999999 9999998


Q ss_pred             Ccc
Q psy16349        323 GLI  325 (351)
Q Consensus       323 ~~~  325 (351)
                      ++.
T Consensus       227 ~~~  229 (230)
T PRK05424        227 SLA  229 (230)
T ss_pred             Hhc
Confidence            653

>PRK04203 rpl1P 50S ribosomal protein L1P; Reviewed

Probab=100.00  E-value=2.3e-45  Score=340.57  Aligned_cols=197  Identities=19%  Similarity=0.288  Sum_probs=181.1

Q ss_pred             CHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEe-CCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHHH
Q psy16349         97 QFQEALAAIRETHHPTMYNLPRAFIGATVEISTTT-HQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQD  175 (351)
Q Consensus        97 sl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L-~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ake  175 (351)
                      .+.|||+.+++.+       +.++|.|||||+++| +.|++++++++||+|.|||++  |+..+|||||++ +.+++|++
T Consensus         6 ~~~eai~~~k~~~-------~~~kf~esvel~v~Lk~id~~k~~~~irg~i~LP~~~--~k~~~V~vf~~~-~~~~~Ak~   75 (215)
T PRK04203          6 KIEEAVKEALEEA-------PKRNFTQSVDLIVNLKDIDLKKPENRIDEEVVLPHGR--GKEVKIAVIAKG-ELALQAKE   75 (215)
T ss_pred             HHHHHHHHHHHhc-------ccCCCCceEEEEEEecCCCCCccCceeeEEEECCCCC--CCCcEEEEEcCh-HhHHHHHH
Confidence            4889999999854       489999999999999 779988899999999999999  899999999999 56999999


Q ss_pred             cCCCeeccHHHHHHHHcCCc----cCCCccEEEEchhhHHHhHHh-------hchhccCCCcCCCCCCccCHHHHHHHHh
Q psy16349        176 MGVALVGDSDTIKGIERGLV----TMPTFQFVICNPKILADLMRI-------RGLLKKRIPTLKSQTLGVDLIGIAKRLQ  244 (351)
Q Consensus       176 aGA~~VGg~eLI~kI~~g~i----~~~~fD~~IAtpd~m~~L~~l-------rGLMkkk~P~~K~GTv~~DI~~~V~~~k  244 (351)
                      |||++|||.|+|++|.+|..    ++.+||+|||||+||+.|+++       ||+|    |+|++||+  |+.++|++++
T Consensus        76 aGa~~v~~~e~L~~i~~~~k~~rkl~~~fD~~lA~~~im~~l~k~LGk~lgprgkm----P~p~~~t~--di~~~i~~~~  149 (215)
T PRK04203         76 AGADYVITREELEELGGDKRAAKKLANEYDFFIAEADLMPLIGRYLGPVLGPRGKM----PTPLPPNA--DIKPLVERLK  149 (215)
T ss_pred             cCCCEEeCHHHHHHHhcChHHHhhhhhcCCEEEECHHHHHHHHHHHhhhcCcCCCC----CCCcCCCC--CHHHHHHHHh
Confidence            99999999999999988722    244899999999999999884       7888    99999996  9999999999


Q ss_pred             cccEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEec
Q psy16349        245 TGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD  320 (351)
Q Consensus       245 ~gi~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~  320 (351)
                      +++.||+++      .|+++++||+++|+++||.|||.+++++|.+.+|..    ++||+++||+||||| |++|-
T Consensus       150 ~~~~~r~~k------~~~i~v~VG~~~m~~e~l~eNi~avl~~i~~~~p~g----~~~Iksi~lktTmgp-~i~i~  214 (215)
T PRK04203        150 NTVRIRTKD------QPTFHVRVGTEDMSPEELAENIDAVLNRIESKLEKG----RQNIKSVYVKTTMGP-AVKVE  214 (215)
T ss_pred             hceEEEeCC------CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCccc----cccEEEEEEECCCCC-CEEee
Confidence            999999988      899999999999999999999999999999999954    369999999999999 99874

>PTZ00225 60S ribosomal protein L10a; Provisional

Probab=100.00  E-value=6.6e-44  Score=330.62  Aligned_cols=200  Identities=13%  Similarity=0.204  Sum_probs=177.1

Q ss_pred             CCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEe-CCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHH
Q psy16349         96 FQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTT-HQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQ  174 (351)
Q Consensus        96 ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L-~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ak  174 (351)
                      -.++|||+.+.+..       +.++|+|||||+++| +.|+++ ++++||+|.|||++  |+..+|||||++ +.+++|+
T Consensus         7 ~~i~~Av~~~lk~~-------~~~kF~Etvdl~v~Lk~iDp~k-d~~irg~v~LPhg~--gk~~kV~v~~~~-~~~~~Ak   75 (214)
T PTZ00225          7 QTLSEAIQAVLKVD-------KERKFKESIDLQVNLKNYDPQK-DKRFSGSLKLPNVC--RPRMTVCLLCDL-VHEDIAK   75 (214)
T ss_pred             HHHHHHHHHHHHhc-------ccCCCCceEEEEEeccCcCCCc-CcccceeEECCCCC--CCCcEEEEECCh-HHHHHHH
Confidence            35889999976443       488999999999999 669976 99999999999999  999999999999 5589999


Q ss_pred             HcCCCeeccHHHHHHHHcCCc---cCCCccEEEEchhhHHHhHHh--hchh-ccCCCcCCCCCCccCHHHHHHHHhcccE
Q psy16349        175 DMGVALVGDSDTIKGIERGLV---TMPTFQFVICNPKILADLMRI--RGLL-KKRIPTLKSQTLGVDLIGIAKRLQTGIK  248 (351)
Q Consensus       175 eaGA~~VGg~eLI~kI~~g~i---~~~~fD~~IAtpd~m~~L~~l--rGLM-kkk~P~~K~GTv~~DI~~~V~~~k~gi~  248 (351)
                      ++||+++|.+||++.+++++.   ++.+||+|||+|+|||.|+++  ++++ +.|||++  ++++.||.++|+++++.++
T Consensus        76 ~aGad~v~~e~l~~l~k~~~~~kkl~~~fD~fiA~~~~m~~lgk~LGp~~~p~gK~P~~--~~~~~dl~~~i~~~k~~v~  153 (214)
T PTZ00225         76 KEGVPTMNQEELKKLNKNKKLVKKMCNQYDAFLCSESIIKTVPRLVGPHMHRMGKFPTV--CSPSESLPDKVVELRSTVK  153 (214)
T ss_pred             HCCCCEECHHHHHHHHhccHHHHHHHhhCCEEEECHHHHHhhhhhcCCCCCcCCCCCcc--cCCccCHHHHHHHHhheeE
Confidence            999999999999999999873   345899999999999999998  3334 2234663  4457899999999999999


Q ss_pred             EEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEe
Q psy16349        249 YSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKL  319 (351)
Q Consensus       249 ~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I  319 (351)
                      ||+++      .|++|++||+++|+++||.||+.++++.|.+.+|.    +|+||+++||+||||| +++|
T Consensus       154 ~r~~k------~~~~~~~VGk~~m~~e~i~eNi~a~l~~l~~~~p~----k~~nIksv~iktTMGp-~~~~  213 (214)
T PTZ00225        154 FQLKK------VLCLGTCVGHVEMTEEQLRQNVVMAINFLVSLLKK----NWQNLKSAYIKSTMGK-PQRI  213 (214)
T ss_pred             EEecC------ccEEEeEEccCCCCHHHHHHHHHHHHHHHHHhCCc----CCceEeEEEEECCCCC-CEeC
Confidence            99999      99999999999999999999999999999999994    5789999999999999 9875

>PTZ00029 60S ribosomal protein L10a; Provisional

Probab=100.00  E-value=7.5e-44  Score=330.77  Aligned_cols=198  Identities=16%  Similarity=0.202  Sum_probs=176.9

Q ss_pred             CHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEe-CCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHHH
Q psy16349         97 QFQEALAAIRETHHPTMYNLPRAFIGATVEISTTT-HQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQD  175 (351)
Q Consensus        97 sl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L-~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ake  175 (351)
                      .+++||+.+++..     +.+.++|.||||++++| +.|+++ ++++||+|.|||++  |+..+|||||++ +.+++|++
T Consensus         8 ~~~~av~~~~~~~-----~~~~~~f~esv~~~i~Lk~id~~~-~~~ir~~v~LP~~~--gk~~~v~V~a~~-~~~~~Ak~   78 (216)
T PTZ00029          8 ALRKAIAEILEGS-----EEKKRKFVETVELQIGLKDYDTQK-DKRFSGSVKLPNVP--KPNLKVCVLGDA-VHCDEAKK   78 (216)
T ss_pred             HHHHHHHHHHhhc-----cccccCCceEEEEEEEcCCCCCCc-CcccceeEecCCCC--CCCcEEEEECCc-HHHHHHHH
Confidence            4789999999732     34799999999999999 568976 99999999999999  999999999999 56999999


Q ss_pred             cCCCeeccHHHHHHHHcCCc---cCCCccEEEEchhhHHHhHHh--hchhccCCCcCCCCCC---ccCHHHHHHHHhccc
Q psy16349        176 MGVALVGDSDTIKGIERGLV---TMPTFQFVICNPKILADLMRI--RGLLKKRIPTLKSQTL---GVDLIGIAKRLQTGI  247 (351)
Q Consensus       176 aGA~~VGg~eLI~kI~~g~i---~~~~fD~~IAtpd~m~~L~~l--rGLMkkk~P~~K~GTv---~~DI~~~V~~~k~gi  247 (351)
                      |||+++|++||++.++++++   ++.+||+|||+|+|||.|+++  +|||    |++|.|++   +.|+..+|+++++++
T Consensus        79 aGa~vvg~edL~~~~k~~k~~kkl~~~fD~flA~~~im~~l~riLGp~l~----p~~K~P~~v~~~~d~~~~i~~~k~~v  154 (216)
T PTZ00029         79 LGLDFMDIEGLKKFNKNKKLVKKLAKKYDAFLASQSLLPQIPRLLGPGLN----KAGKFPTLITHNDDIEDKINELKSSV  154 (216)
T ss_pred             cCCCEecHHHHHHhhhhHHHHhcccccCCEEEECHHHHHHHHHHhccccc----cCCCCCCcccCccCHHHHHHHHHheE
Confidence            99999999999995544432   234899999999999999998  9999    66666644   789999999999999


Q ss_pred             EEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCC-CceeEEEEEcCCCCCceEe
Q psy16349        248 KYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDE-DFITRILLWSEPSPEKFKL  319 (351)
Q Consensus       248 ~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg-~fI~~v~LsSTmGpe~i~I  319 (351)
                      +||+++      .|++|++||+++|+++||.|||.++++.|.+.++     +| .||+++||+||||| +++|
T Consensus       155 ~~r~~k------~~~i~v~VG~~~~~~e~l~eNi~avl~~i~~~~~-----kg~~~Iksv~lktTmgp-~v~v  215 (216)
T PTZ00029        155 KFQLKK------VLCLGVAVGNVEMTEEQLRQNIVLSINFLVSLLK-----KNWQNIKTLHIKSTMGK-PQRI  215 (216)
T ss_pred             EEEECC------CCEEEEEEcCCCCCHHHHHHHHHHHHHHHHHHhc-----cccccEeEEEEECCCCC-CEeC
Confidence            999999      8999999999999999999999999999999987     55 79999999999999 9886

>cd00403 Ribosomal_L1 Ribosomal protein L1

Probab=100.00  E-value=2.6e-38  Score=289.94  Aligned_cols=199  Identities=24%  Similarity=0.409  Sum_probs=179.8

Q ss_pred             HHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHHHcC
Q psy16349         98 FQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMG  177 (351)
Q Consensus        98 l~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~AkeaG  177 (351)
                      +.+||+.|++.++      ....+.++|+|+++|+....+..+++++.|.|||++  ++..+|||||++ ++++.|+++|
T Consensus         1 ~~~Ai~~l~~~~~------~~~~~~~~v~l~i~l~~~~~~~~~~~~~~i~LPh~~--~~~~~i~v~~~d-~~~~~a~~~~   71 (208)
T cd00403           1 LEEAIKALKKTSV------KKRKFDETVELQINLKKDDRKKDQRIRGTVILPHGL--GKDVKVCVFAKD-EQAKEAKAAG   71 (208)
T ss_pred             CHHHHHHHHHhcc------ccCCCCceEEEEEEeCCCCCccccccceeEECCCCC--CCCeEEEEEcCh-HhHHHHHHcC
Confidence            3699999998874      366888999999998776556789999999999999  789999999998 5588999999


Q ss_pred             CCeeccHHHHHHHHcCCc--cCCCccEEEEchhhHHHhHHh-------hchhccCCCcCCCCCCccCHHHHHHHHhcccE
Q psy16349        178 VALVGDSDTIKGIERGLV--TMPTFQFVICNPKILADLMRI-------RGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIK  248 (351)
Q Consensus       178 A~~VGg~eLI~kI~~g~i--~~~~fD~~IAtpd~m~~L~~l-------rGLMkkk~P~~K~GTv~~DI~~~V~~~k~gi~  248 (351)
                      |+++|+++|++++++++.  ++.+||+|||++++|+.+.+.       ||+|    |+++.||+++|+.++|+++++++.
T Consensus        72 a~vig~~~L~~~~~~~~~~~l~~~~D~fla~~~~~~~~~~~lgk~~~~k~k~----P~~~~~t~~~~l~~~i~~~~~~~~  147 (208)
T cd00403          72 ADVVGGEDLKKKIKNGEAKKLAKDFDLFLADPRIMMLLPKLLGKVLGPRGKM----PNPKTGTVTEDLAKAIEEAKSSVE  147 (208)
T ss_pred             CCEEcHHHHHHHhhcchhhhhhhcCCEEEECHHHHHHHHHHhccccccCCCC----CcCCCCCCcccHHHHHHHHHhCeE
Confidence            999999999999999984  355999999999999887765       6666    999999999999999999999999


Q ss_pred             EEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEe
Q psy16349        249 YSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKL  319 (351)
Q Consensus       249 ~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I  319 (351)
                      |+.++      .|+++++||+++|+++||+||+.++++.|.+++|..   .+.+|+++||+||||| ++.|
T Consensus       148 ~~~~~------~~~~~v~VG~~~m~~~~l~eNi~~vi~~i~~~~~~~---~~~~i~~v~lktt~~~-~lpI  208 (208)
T cd00403         148 FRLDK------GGCIHVPVGKVSMSPEQLVENIEAVINALVKKLPSK---KGQNIKSIYLKTTMGP-SLPI  208 (208)
T ss_pred             EEECC------CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCcc---cCeEEEEEEEECCCCC-CeEC
Confidence            99988      889999999999999999999999999999999953   5789999999999999 8875

The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds its own mRNA. Like several other large ribosomal subunit proteins, L1 displays RNA chaperone activity. L1 is one of the largest ribosomal proteins. It is composed of two domains that cycle between open and closed conformations via a hinge motion. The RNA-binding site of L1 is highly conserved, with both mRNA and rRNA binding the same binding site.

>TIGR01170 rplA_mito ribosomal protein L1, mitochondrial

Probab=100.00  E-value=1.4e-35  Score=258.86  Aligned_cols=134  Identities=22%  Similarity=0.446  Sum_probs=122.3

Q ss_pred             CCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHHH
Q psy16349         96 FQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQD  175 (351)
Q Consensus        96 ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ake  175 (351)
                      |++.||+++||+++++.    |  +|++|||++++|+.++++.  .|||+|.|||++  |++.||||||++++.+++|++
T Consensus         1 y~i~eA~~~lk~~~~~~----~--~~~etvel~i~L~~~~~~~--~irg~v~LP~~~--~k~~kV~Vf~~~~~~~~~Ak~   70 (141)
T TIGR01170         1 YKVIKAFVYLKTKSISM----Y--VPKQSVNLDIGLLMELGKE--SVQGMFSFPHPF--GKEPKIAVFTKGASEVEEARE   70 (141)
T ss_pred             CCHHHHHHHHHHhcccC----C--CCCceEEEEEEECCCCCCC--CceEEEECCCCC--CCCCEEEEECCChHHHHHHHH
Confidence            89999999999998432    2  8999999999997766443  499999999999  899999999999665788999


Q ss_pred             cCCCeeccHHHHHHHHcCCccCCC-ccEEEEchhhHHHhHHh------hchhccCCCcCCCCCCccCHHHHHHHHhcc
Q psy16349        176 MGVALVGDSDTIKGIERGLVTMPT-FQFVICNPKILADLMRI------RGLLKKRIPTLKSQTLGVDLIGIAKRLQTG  246 (351)
Q Consensus       176 aGA~~VGg~eLI~kI~~g~i~~~~-fD~~IAtpd~m~~L~~l------rGLMkkk~P~~K~GTv~~DI~~~V~~~k~g  246 (351)
                      |||+++||+|||++|++|++   + ||+|||||+|||+|+.|      ||||    |++++|||++||.++|+++++|
T Consensus        71 aGa~~vg~edLi~~i~~g~~---~~fd~~iA~~~~m~~l~~Lg~iLGprGlM----P~~k~gTv~~di~~~I~~~k~G  141 (141)
T TIGR01170        71 AGADYVGGDDLIKKIEDGEI---KPFDYLIAHPDIVPELAQLRRLLGPKGLM----PSPKRGTVGDNLLSMIETFKKG  141 (141)
T ss_pred             cCCCEeCHHHHHHHHhcCCc---ccccEEEECHHHHHHHHHhhcccccCcCC----CCCCCCCcccCHHHHHHHHhCc
Confidence            99999999999999999999   6 99999999999999987      8888    9999999999999999999987

This model represents the mitochondrial homolog of bacterial ribosomal protein L1. Unlike chloroplast L1, this form was not sufficiently similar to bacterial forms to include in a single bacterial/organellar L1.

>PF00687 Ribosomal_L1: Ribosomal protein L1p/L10e family; InterPro: IPR002143 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.97  E-value=9.9e-30  Score=234.65  Aligned_cols=185  Identities=19%  Similarity=0.312  Sum_probs=155.9

Q ss_pred             CccceeEEEEEEEeCCCcCCCCCce-eEEEEecCCCCCCCceEEEEEcCChhhHH--------HHHHcCCCeeccHHHHH
Q psy16349        118 RAFIGATVEISTTTHQKKVKYMDPW-THIVEVEHSFDHGEDRSIIAFCSQHETAA--------QLQDMGVALVGDSDTIK  188 (351)
Q Consensus       118 ~~~f~esveL~m~L~~k~~K~~~~~-rg~V~LPh~~~~gk~~kVlVFa~~~e~a~--------~AkeaGA~~VGg~eLI~  188 (351)
                      ...+.++|+|.+.+..-+.+...++ ++.|.|||++. .+..+|||||++++...        .|.++|+.++|+++|++
T Consensus        17 ~~~~~~~v~l~i~~~~~~~~~~~~~~~~~i~LPh~~~-~~~~~vcli~~d~~~~~~~~~~~~~~~~~~~~~vi~~~~L~~   95 (220)
T PF00687_consen   17 DDNFDESVYLQITLKKIPKKKDKSFKPGRIPLPHPLY-IKNSKVCLIVKDPQKKAKEKEKLEEKAVEAGAKVIGGEELKK   95 (220)
T ss_dssp             CSSSSTEEEEEEEESSSTTSSCTST-EEEEEBSTSSS--SSSBEEEEESCHHHHHH-------HHHHTTCSEEECHHHHH
T ss_pred             cCCCCcEEEEEEEeCcCCCccccccccceeeecCCCC-CCccEEEEEecCcchhhhhhhhhhhhhhhcccceecHHHHHH
Confidence            6688899999999877555566777 99999999993 27899999998865222        35789999999999999


Q ss_pred             H---HHcCCccCCCccEEEEchhhHHHhHH-hhchh---ccCCCcCCCCCCccCHHHHHHHHhcccEEEee-cCCCCCCc
Q psy16349        189 G---IERGLVTMPTFQFVICNPKILADLMR-IRGLL---KKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMK-KDPQEQDF  260 (351)
Q Consensus       189 k---I~~g~i~~~~fD~~IAtpd~m~~L~~-lrGLM---kkk~P~~K~GTv~~DI~~~V~~~k~gi~~r~~-k~~~~~~~  260 (351)
                      +   +..++.++.+||+|||++++|+.|.+ |.+.+   |.++|++..-+ .+||.+.|+.+.+|+.|+.. +      +
T Consensus        96 ~~~~~~~~r~l~~~~d~flad~~i~~~l~~~Lgk~~~~~k~k~P~~v~~~-~~~l~~~i~~~~~~~~~~~~~~------~  168 (220)
T PF00687_consen   96 KYKTIEAKRKLAKSYDFFLADPRIMPKLPKLLGKIFYGKKGKMPIPVTLS-KEDLKEQIEKALNSTKFRLSGK------G  168 (220)
T ss_dssp             HHCHHHHCHHHHHCSSEEEEEGGGHHHHHHHTHHHH-CCTTTSCEEBSSH-TSCHHHHHHHHHTEEEEEETBT------S
T ss_pred             HHHHHHHHHHHHhhcCEEEECHHHHHHHHHhhhhheecccCCcceEEecc-chhHHHHHHHHHCCEEEEeecc------C
Confidence            9   89999777799999999999999999 42233   23669994322 37999999999999888887 6      9


Q ss_pred             ceEEEEeeCCCCCHHHHHHHHHHHHHHHHhc-CCCCCCCCCCceeEEEEEcCCCC
Q psy16349        261 GYSDFHIGRLDMSQEQLEDNLKRILADISTM-KPPSKPEDEDFITRILLWSEPSP  314 (351)
Q Consensus       261 G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~-~p~~~~~kg~fI~~v~LsSTmGp  314 (351)
                      |+++++||+++|+++||+|||.++++.|.++ .|.    ...+|+++||+|||||
T Consensus       169 ~~~~v~VG~~~~~~~~i~eNi~~~i~~i~~~~~~~----g~~~I~~i~ikst~s~  219 (220)
T PF00687_consen  169 GCISVKVGHLSMTDEQIVENIKAVIKAIVSKPLPK----GWKNIKSIYIKSTMSP  219 (220)
T ss_dssp             SEEEEEEEETTSCHHHHHHHHHHHHHHHHHTTTSS----SSGSEEEEEEEESSSE
T ss_pred             CeeecCccCCCCCHHHHHHHHHHHHHHHHHhhhcc----CcceEEEEEEECCCCC
Confidence            9999999999999999999999999999999 552    2359999999999998

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L1 is the largest protein from the large ribosomal subunit. The L1 protein contains two domains: 2-layer alpha/beta domain and a 3-layer alpha/beta domain (interrupts the first domain). In Escherichia coli, L1 is known to bind to the 23S rRNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ], groups: Eubacterial L1. Algal and plant chloroplast L1. Cyanelle L1. Archaebacterial L1. Vertebrate L10A. Yeast SSM1. ; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3QOY_A 3BBO_D 1VSA_A 1VSP_A 2NOQ_G 3IZS_A 1S1I_A 3O5H_A 3O58_A 2WRL_C ....

>KOG1570|consensus

Probab=99.81  E-value=6e-20  Score=167.65  Aligned_cols=204  Identities=16%  Similarity=0.224  Sum_probs=170.9

Q ss_pred             ccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCC-CcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHH
Q psy16349         94 RIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQ-KKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQ  172 (351)
Q Consensus        94 ~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~-k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~  172 (351)
                      ..+++.+||..+.-.+.  -  ..++.|.+||+++++|+. ++ +.+.+|.+++.|||..  .+..++|||++..+ ..+
T Consensus         6 ~~~~l~~~v~~i~~~~~--~--~k~~~~~~tielQi~Lk~ydp-~Kdkr~s~~~~l~~~~--~p~~k~cv~gd~~h-~~~   77 (218)
T KOG1570|consen    6 EEEALREAVAEILLRSK--E--FKNRNFVETIELQINLKNYDP-QKDKRFSGSVKLPHAP--RPKMKVCVIGDQQH-CDE   77 (218)
T ss_pred             hHHHHHHHHHHHHhccc--c--ccCccceeeeeeeecccccCh-hHhCcccceEecCCCC--CccceeeeechHHH-HHH
Confidence            34566667666552210  0  136799999999999977 88 4689999999999999  78999999999954 899


Q ss_pred             HHHcCCCeeccHHHHHHHHcCCc----cCCCccEEEEchhhHHHhHHh--hchhcc-CCCcCCCCCCccCHHHHHHHHhc
Q psy16349        173 LQDMGVALVGDSDTIKGIERGLV----TMPTFQFVICNPKILADLMRI--RGLLKK-RIPTLKSQTLGVDLIGIAKRLQT  245 (351)
Q Consensus       173 AkeaGA~~VGg~eLI~kI~~g~i----~~~~fD~~IAtpd~m~~L~~l--rGLMkk-k~P~~K~GTv~~DI~~~V~~~k~  245 (351)
                      |++.|..+.- -|.+++.-.++-    .++.||+|||..++..+|.++  .||-+. +||++....  +|+.+.+++.+.
T Consensus        78 ak~~~~p~m~-~d~lkklnk~Kklvkklakky~~flase~~ikQlpr~lgp~l~kaGkfps~l~~~--d~l~akv~evk~  154 (218)
T KOG1570|consen   78 AKAIDLPAMD-IDALKKLNKNKKLVKKLAKKYDAFLASESLIKQLPRILGPGLSKAGKFPSLLVHG--DSLYAKVEEVKS  154 (218)
T ss_pred             hhcCCCCCcC-HHHHhcCcccchHHHHHHHHhhhHHhhHHHHHHhhhhhcccccccccCCccccch--HHHHHHHHHHHh
Confidence            9999999776 555677766443    567899999999999999998  667766 899999654  899999999999


Q ss_pred             ccEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEe
Q psy16349        246 GIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKL  319 (351)
Q Consensus       246 gi~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I  319 (351)
                      +++|+..+      .-++.+.||...|++++|.+||.--++++.+.+.++    +++++..+|+||||| ..++
T Consensus       155 t~k~q~kk------vKOGavaVGhv~M~d~el~~nI~l~vnFlVSlLKkn----wQNvral~iKst~g~-p~~l  217 (218)
T KOG1570|consen  155 TIKFQMKK------VLCLAVAVGHVGMTDEELVYNIHLAVNFLVSLLKKN----WQNVRALYIKSTMGK-PQRL  217 (218)
T ss_pred             hHHHHHHh------hhheeeeecCCCCCHHHHHHhhhhhhhhHHHHHhhc----ccchhheeeccCCCC-ceec
Confidence            99999998      667999999999999999999999999999998754    589999999999999 6654

>PF13003 MRL1: Ribosomal protein L1; InterPro: IPR024663 This entry represents a ribosomal protein L1 domain found mainly in chordates

Probab=99.54  E-value=1e-14  Score=125.19  Aligned_cols=122  Identities=14%  Similarity=0.199  Sum_probs=94.4

Q ss_pred             eeeecccchhHHhhhchhhh---hhccccchhhhhcccccCcccccccccccccC-cCCCCCCCCcceeecccccccCCH
Q psy16349         23 VVSFHTATPYYAARKGTRAR---KEGKKVRTEIKKVAWTPDSKKKKDIYASRKVD-ESNLTYPEDDIYLQKDYKLRIFQF   98 (351)
Q Consensus        23 ~~~~~~~~~~~aark~tr~k---~~k~~~~~~~~k~~~~~~~~~~~~~~~~~~~~-~~~~~~P~DdVy~~~~~~~~~ysl   98 (351)
                      +++.+++.|-|||...-+.|   +.++..+.+...++.  +++      .+++.+ +++.|+       .++|++++|.+
T Consensus         8 ~vn~~~~~R~yaAa~k~~~k~~kk~kk~~~~k~~~ek~--~d~------~ek~k~y~~~e~~-------~~lyPr~Iyev   72 (133)
T PF13003_consen    8 SVNDFVPYRHYAAAAKKKKKPAKKTKKGNKEKKNDEKK--VDN------IEKIKSYSYMEWE-------KRLYPRPIYEV   72 (133)
T ss_pred             eeeeccchHHHHHHHhhhccchhhccchhhcccccccc--ccc------ccccccccccccc-------ceeccccHHHH
Confidence            67888999999999432222   222222233322222  233      778888 778887       78999999999


Q ss_pred             HHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEE
Q psy16349         99 QEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAF  163 (351)
Q Consensus        99 ~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVF  163 (351)
                      ++||.+|+.++ +++|+.|+++++..+.|+|.|. ++ +.+++|.+.|.|||+|. .+..+|+||
T Consensus        73 e~Ai~mLKkfQ-~lDfT~pkQ~VYldL~Ldm~l~-KK-kkVePF~s~i~lPypF~-~eiNKv~VF  133 (133)
T PF13003_consen   73 EKAIDMLKKFQ-ILDFTSPKQPVYLDLTLDMKLE-KK-KKVEPFASVILLPYPFT-SEINKVLVF  133 (133)
T ss_pred             HHHHHHHHhcc-cccCCCCCCcEEEeeeehhhhc-cc-cccCCCccceecccccc-cccceeeeC
Confidence            99999999999 9999999999999999999853 43 57999999999999996 457789987

>KOG1685|consensus

Probab=98.59  E-value=2.2e-07  Score=91.66  Aligned_cols=170  Identities=16%  Similarity=0.265  Sum_probs=124.7

Q ss_pred             ceeEEEEecCCCCC----CCceEEEEEcCChhhH--------HHHHHcCCC----eeccHHHHHHHHc---CCccCCCcc
Q psy16349        141 PWTHIVEVEHSFDH----GEDRSIIAFCSQHETA--------AQLQDMGVA----LVGDSDTIKGIER---GLVTMPTFQ  201 (351)
Q Consensus       141 ~~rg~V~LPh~~~~----gk~~kVlVFa~~~e~a--------~~AkeaGA~----~VGg~eLI~kI~~---g~i~~~~fD  201 (351)
                      ..+-.+.+||++.+    .....||+|.+|.++-        +.-.+.|..    ++++.+|-.....   ..-+++.||
T Consensus        68 ~n~~~IP~k~~~~~~~~~~~~~~vcLIvkD~~~~~~t~~~~~d~l~~~gi~~itkVI~~~~LK~~yksyeaKr~L~~sfD  147 (343)
T KOG1685|consen   68 TNKLKIPLKHLLKKLLLKHDDTDVCLIVKDLQQSYLTEEDAEDLLESEGIKSITKVISLSKLKRDYKSYEAKRKLLSSFD  147 (343)
T ss_pred             cccccccCcchhcccccCCCCCceEEEecCchhccccHHHHHHHHHHcCCccceeeeehHHHHHHHHHHHHHHHHHhhcc
Confidence            33444445555432    1467899999986521        233567877    6677776443322   222677899


Q ss_pred             EEEEchhhHHHhHHhhchh---ccCCCcCCCCCCccC--HHHHHHHHhcccEEEeecCCCCCCcceEEEEeeCCCCCHHH
Q psy16349        202 FVICNPKILADLMRIRGLL---KKRIPTLKSQTLGVD--LIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQ  276 (351)
Q Consensus       202 ~~IAtpd~m~~L~~lrGLM---kkk~P~~K~GTv~~D--I~~~V~~~k~gi~~r~~k~~~~~~~G~I~v~IGkl~m~~eq  276 (351)
                      +|||.--+++.|.++=|.-   +++.|-+.+=. -.+  +...|++..+++-|++-.      .-.+-+.+|.++|+.++
T Consensus       148 lflaD~RV~~~LP~llGK~f~q~kk~Pv~i~l~-k~~~~l~~qi~~a~~~t~~~~~~------g~~~~i~vg~l~~~~~~  220 (343)
T KOG1685|consen  148 LFLADDRVIPLLPKLLGKEFYQKKKVPVSIRLS-KKNELLKQQIENACGSTYFRLRK------GTSSAIKVGHLGNTSEE  220 (343)
T ss_pred             EEEEcchhHhHHHHHhhhhhcccccCceEEEec-ccchHHHHHHHHHhhhheeeccC------CceeEEEeccccccHHH
Confidence            9999999999999985542   34778776421 123  799999999999999865      55777899999999999


Q ss_pred             HHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEeccC
Q psy16349        277 LEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLS  322 (351)
Q Consensus       277 L~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~~  322 (351)
                      |.|||.++++.|....|.+    +.+|.++||++.-|+ ++.|=.+
T Consensus       221 l~ENv~~vlk~l~e~~P~~----~~~Irsl~lKt~~s~-aLPly~s  261 (343)
T KOG1685|consen  221 LAENVVAVLKGLSEILPGG----WKNIRSLHLKTSRSP-ALPLYVS  261 (343)
T ss_pred             HHHHHHHHHHHHHHHccch----HhHhHHHhhhccCCc-ccceeec
Confidence            9999999999999888843    368999999999988 7766443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	351
2ftc_A	189	Structural Model For The Large Subunit Of The Mamma		2e-07

>pdb|2FTC|A Chain A, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 189

Iteration: 1
 Score = 53.5 bits (127), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 42/179 (23%), Positives = 83/179 (46%), Gaps = 11/179 (6%)
Query: 135 KVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGL 194
           K K ++P+T ++ + + F   E   +  F          ++ G A  G +  I+ I    
Sbjct: 11  KKKNVEPFTSVLSLPYPF-ASEINKVAVFTENASEVKIAEENGAAFAGGTSLIQKIWDDE 69
Query: 195 VTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKD 254
           +      F +  P+I+ +L R+R  L K+ P L   ++G D+  + +  + G  + +K D
Sbjct: 70  IVA---DFYVAVPEIMPELNRLRKKLNKKYPKLSRNSIGRDIPKMLELFKNG--HEIKVD 124
Query: 255 PQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPS 313
            + ++F  +   I  LDMS +Q+  NL+ ++ ++   +P +      F+ R  L S  S
Sbjct: 125 EERENFLQT--KIATLDMSSDQIAANLQAVINEVCRHRPLNLGP---FVVRAFLRSSTS 178

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	351
2ftc_A	189	Mitochondrial ribosomal protein L1; mitochondrial	1e-11
1mzp_A	217	50S ribosomal protein L1P; ribosome, RNA-protein c	6e-08
3iz5_A	216	60S ribosomal protein L1 (L1P); eukaryotic ribosom	1e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
3o58_A	217	L10A, 60S ribosomal protein L1; ribosomal RNA and	7e-06
4f9t_A	229	50S ribosomal protein L1; rossman fold, RNA; HET:	5e-05
1i2a_A	219	50S ribosomal protein L1P; primary rRNA-binding pr	1e-04
2wwq_5	234	50S ribosomal protein L1; ribosomal protein, ribon	2e-04
3qoy_A	242	50S ribosomal protein L1; beta-alpha-beta, structu	3e-04
2zkr_5	212	60S ribosomal protein L10A; protein-RNA complex, 6	3e-04
3bbo_D	352	Ribosomal protein L1; large ribosomal subunit, spi	9e-04

>2ftc_A Mitochondrial ribosomal protein L1; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Length = 189

 Score = 61.9 bits (151), Expect = 1e-11
 Identities = 35/166 (21%), Positives = 71/166 (42%), Gaps = 11/166 (6%)

Query: 160 IIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGL 219
           +  F          ++ G A  G +  I+ I    +      F +  P+I+ +L R+R  
Sbjct: 35  VAVFTENASEVKIAEENGAAFAGGTSLIQKIWDDEIV---ADFYVAVPEIMPELNRLRKK 91

Query: 220 LKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLED 279
           L K+ P L   ++G D+  + +  + G +  + ++ +     +    I  LDMS +Q+  
Sbjct: 92  LNKKYPKLSRNSIGRDIPKMLELFKNGHEIKVDEERE----NFLQTKIATLDMSSDQIAA 147

Query: 280 NLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLI 325
           NL+ ++ ++   +P +      F+ R  L S  S     L +  L+
Sbjct: 148 NLQAVINEVCRHRPLNL---GPFVVRAFLRSSTSE-GLLLKIDPLL 189

>1mzp_A 50S ribosomal protein L1P; ribosome, RNA-protein complex; 2.65A {Sulfolobus acidocaldarius} SCOP: e.24.1.1 PDB: 1pnu_5 1pny_5 1vor_7 1vou_7 1vow_7 1voy_7 1vp0_7 3e1b_Z 3e1d_Z Length = 217

 Score = 51.6 bits (124), Expect = 6e-08
 Identities = 28/146 (19%), Positives = 49/146 (33%), Gaps = 16/146 (10%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERG----LVTMPTFQFVICNPKIL 210
            + + ++   S  E     +     +V   + ++ ++             ++ + N + +
Sbjct: 59  SKAKRVLVVPSS-EQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESM 117

Query: 211 ADLMRIRG-LLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHI 267
           A   RI G  L  R   PT    T   D+     R +  +    K  PQ Q        I
Sbjct: 118 ALAGRILGPALGPRGKFPTPLPNT--ADISEYINRFKRSVLVKTKDQPQVQ------VFI 169

Query: 268 GRLDMSQEQLEDNLKRILADISTMKP 293
           G  DM  E L +N   +L  I     
Sbjct: 170 GTEDMKPEDLAENAIAVLNAIENKAK 195

>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 = 48.3 bits (114), Expect = 2e-06
 Identities = 45/370 (12%), Positives = 103/370 (27%), Gaps = 119/370 (32%)

Query: 68  YASRKVDESNLTYPEDDIYLQKDYKLRIF---QFQEALAAIRETHHPTMYNLPRAF-IGA 123
           + SR    SN+      I   +    R+     ++  L  +    +   +N   AF +  
Sbjct: 213 WTSRSDHSSNIKLRIHSI---QAELRRLLKSKPYENCLLVLLNVQNAKAWN---AFNLSC 266

Query: 124 TVEISTTTHQKKV-KYMDP--WTHIVEVEHS--FDHGEDRSIIAFCSQHET------AAQ 172
            + +  TT  K+V  ++     THI    HS      E +S++                 
Sbjct: 267 KILL--TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLT 324

Query: 173 LQDMGVALVGDS-----DTIKG------------IERGL--------------------- 194
                ++++ +S      T               IE  L                     
Sbjct: 325 TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPS 384

Query: 195 --VTMPTFQFVICNPK------ILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTG 246
             +       +  +        ++  L +   L++K+    K  T+ +  I +  +++  
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHK-YSLVEKQ---PKESTISIPSIYLELKVKLE 440

Query: 247 IKYSM-----------KKDPQE-----QDFGYSDFHIGR--LDMSQEQLEDNLKRILADI 288
            +Y++           K    +         Y   HIG    ++   +     + +  D 
Sbjct: 441 NEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF 500

Query: 289 STMK-----------PPSKPED--------EDFITRILLWSEPSPEKFKLDLSGLIEKP- 328
             ++                 +        + +I      ++P  E+    +   + K  
Sbjct: 501 RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD----NDPKYERLVNAILDFLPKIE 556

Query: 329 ----KAKELD 334
                +K  D
Sbjct: 557 ENLICSKYTD 566

>3o58_A L10A, 60S ribosomal protein L1; ribosomal RNA and proteins, ribosome; 4.00A {Saccharomyces cerevisiae} PDB: 3izc_A 3izs_A 1s1i_A 3o5h_A 2noq_G 3j0l_B 3j0o_B 3j0p_B 3j0q_B 3jyw_A Length = 217

 Score = 45.5 bits (108), Expect = 7e-06
 Identities = 26/146 (17%), Positives = 52/146 (35%), Gaps = 17/146 (11%)

Query: 155 GEDRSIIAFCSQ-HETAAQLQDMGVALVGDSDTIKGIERGLVT---MPTFQFVICNPKIL 210
             + SI  F        A+    GV  +   D  K  +   +       +   I +  ++
Sbjct: 60  RPNMSICIFGDAFDVDRAK--SCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLI 117

Query: 211 ADLMRIRG-LLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHI 267
             + R+ G  L K    PT  S     DL G    +++ IK+ +KK             +
Sbjct: 118 KQVPRLLGPQLSKAGKFPTPVSHN--DDLYGKVTDVRSTIKFQLKKVLCLA------VAV 169

Query: 268 GRLDMSQEQLEDNLKRILADISTMKP 293
           G ++M ++ L + +   +    ++  
Sbjct: 170 GNVEMEEDVLVNQILMSVNFFVSLLK 195

>4f9t_A 50S ribosomal protein L1; rossman fold, RNA; HET: MPD; 1.46A {Thermus thermophilus} PDB: 3u4m_A 1eg0_N 1vsp_A 2hgj_C 2hgq_C 2hgu_C 1vsa_A 4abs_C 3zvp_C 1zho_A 1ml5_c* 1yl3_C 1giy_C 2hw8_A 2j01_C 2j03_C 2jl6_C 2jl8_C 2om7_K* 2v47_C ... Length = 229

 Score = 43.1 bits (102), Expect = 5e-05
 Identities = 33/149 (22%), Positives = 61/149 (40%), Gaps = 22/149 (14%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
           G+   ++A   + E   + ++ G   VG  + I+ I  G +    F  V+  P    D+M
Sbjct: 70  GKQVRVLAIA-KGEKIKEAEEAGADYVGGEEIIQKILDGWMD---FDAVVATP----DVM 121

Query: 215 RIRGLLKKRI-------PTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFH 266
              G    RI       P  K+ T+G ++  I + ++ G I++   K       G     
Sbjct: 122 GAVGSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKT------GAIHAP 175

Query: 267 IGRLDMSQEQLEDNLKRILADISTMKPPS 295
           +G+     E+L DN++  +  +   KP  
Sbjct: 176 VGKASFPPEKLADNIRAFIRALEAHKPEG 204

>1i2a_A 50S ribosomal protein L1P; primary rRNA-binding protein, translation repressor, ribosome; 1.85A {Methanocaldococcus jannaschii} SCOP: e.24.1.1 PDB: 1cjs_A 1u63_A 1dwu_A Length = 219

 Score = 42.0 bits (99), Expect = 1e-04
 Identities = 24/149 (16%), Positives = 56/149 (37%), Gaps = 23/149 (15%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVT---MPTFQFVICNPKILA 211
           G++  I    +  + A Q +++G+ ++   +  +  +             F I       
Sbjct: 55  GKEAKIAVIGTG-DLAKQAEELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQA---- 109

Query: 212 DLMRIRG-----LLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSD 264
           DLM + G     +L  R  +P         ++  + +RL+  +  + +         Y  
Sbjct: 110 DLMPLIGRYMGVILGPRGKMPKPVPAN--ANIKPLVERLKKTVVINTRDK------PYFQ 161

Query: 265 FHIGRLDMSQEQLEDNLKRILADISTMKP 293
             +G   M+ EQ+ DN++ +L  ++    
Sbjct: 162 VLVGNEKMTDEQIVDNIEAVLNVVAKKYE 190

>2wwq_5 50S ribosomal protein L1; ribosomal protein, ribonucleoprotein, nucleotide-binding, protein biosynthesis, translation, zinc-finger; HET: 5MU; 5.80A {Escherichia coli} PDB: 3fik_5 3izt_C* 3izu_C* 3j01_5 3j0t_C* 3j0w_C* 3j0y_C* 3j11_C* 3j12_C* 3j14_C* 3kcr_5 2rdo_9 2gya_2 2gyc_2 Length = 234

 Score = 41.5 bits (98), Expect = 2e-04
 Identities = 37/148 (25%), Positives = 62/148 (41%), Gaps = 21/148 (14%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
           G    +  F  Q   A   +  G  LVG  D    I++G +    F  VI +P    D M
Sbjct: 70  GRSVRVAVFT-QGANAEAAKAAGAELVGMEDLADQIKKGEMN---FDVVIASP----DAM 121

Query: 215 RIRGLL------KKRIPTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFHI 267
           R+ G L      +  +P  K  T+  ++    K  + G ++Y   K+      G     I
Sbjct: 122 RVVGQLGQVLGPRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKN------GIIHTTI 175

Query: 268 GRLDMSQEQLEDNLKRILADISTMKPPS 295
           G++D   ++L++NL+ +L  +   KP  
Sbjct: 176 GKVDFDADKLKENLEALLVALKKAKPTQ 203

>3qoy_A 50S ribosomal protein L1; beta-alpha-beta, structural constituent of ribosome, rRNA BI regulation of translation, translation, ribosomal RNA; 2.10A {Aquifex aeolicus} Length = 242

 Score = 40.8 bits (96), Expect = 3e-04
 Identities = 31/148 (20%), Positives = 61/148 (41%), Gaps = 20/148 (13%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
           G+   ++ F  + E A + ++ G   VG  + I  I +   T   F   I  P    ++M
Sbjct: 73  GKPIKVVVFA-EGEYAKKAEEAGADYVGGDELINKILKEEWT--DFDVAIATP----EMM 125

Query: 215 RIRGLLKKRI------PTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFHI 267
                L + +      P+ K+ T+  ++    K  + G +++ + K       G     +
Sbjct: 126 PKVAKLGRILGPRGLMPSPKTGTVTTNVEQAIKDAKRGRVEFKVDKA------GNVHMPV 179

Query: 268 GRLDMSQEQLEDNLKRILADISTMKPPS 295
           G++   +E+L DNL   +  +   KPP 
Sbjct: 180 GKISFEKEKLIDNLYAAIDAVVRAKPPG 207

>2zkr_5 60S ribosomal protein L10A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 212

 Score = 40.4 bits (95), Expect = 3e-04
 Identities = 27/147 (18%), Positives = 58/147 (39%), Gaps = 19/147 (12%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVT---MPTFQFVICNPKILA 211
           G++ +I+ F    ETA + +++   ++ + +  +                F I    ++ 
Sbjct: 55  GQETTIVVFAEG-ETALRAEEVADDVLDEDELEELGGDDDAAKDLADDTDFFIAEKGLMQ 113

Query: 212 DLMRIRG-LLKKR--IPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFH-- 266
           D+ R  G +L  R  +P         D++ + +R++  ++    +           FH  
Sbjct: 114 DIGRYLGTVLGPRGKMPEPLDPD--DDVVEVIERMKNTVQLRSGERRT--------FHTR 163

Query: 267 IGRLDMSQEQLEDNLKRILADISTMKP 293
           +G  DMS E + DN+  IL  +     
Sbjct: 164 VGAEDMSAENIADNIDVILRRLHADLE 190

>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 352

 Score = 39.9 bits (93), Expect = 9e-04
 Identities = 30/148 (20%), Positives = 58/148 (39%), Gaps = 21/148 (14%)

Query: 155 GEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLM 214
           G+   I     Q +   + +  G  +VG  + I+ I+ G +    F  +I       D+M
Sbjct: 184 GKTVKIAVLA-QGDKIDEAKAAGADIVGGEELIEQIKGGFMD---FDKLIATS----DMM 235

Query: 215 RIRGLL------KKRIPTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSDFHI 267
                L      +  +PT K+ T+  ++    +  + G +++ + K       G      
Sbjct: 236 AKVASLGRILGPRGLMPTPKAGTVTPNVAQAVEEFKKGKVEFRVDKT------GIVHIPF 289

Query: 268 GRLDMSQEQLEDNLKRILADISTMKPPS 295
           G+L+  +E L  NL   +  + T KP  
Sbjct: 290 GKLNFEEEDLLINLFATIKSVETNKPTG 317

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	351
3u42_A	229	50S ribosomal protein L1; rossmann fold, rRNA bind	100.0
3qoy_A	242	50S ribosomal protein L1; beta-alpha-beta, structu	100.0
2wwq_5	234	50S ribosomal protein L1; ribosomal protein, ribon	100.0
3bbo_D	352	Ribosomal protein L1; large ribosomal subunit, spi	100.0
2ftc_A	189	Mitochondrial ribosomal protein L1; mitochondrial	100.0
3j21_A	216	50S ribosomal protein L1P; archaea, archaeal, KINK	100.0
2zkr_5	212	60S ribosomal protein L10A; protein-RNA complex, 6	100.0
1i2a_A	219	50S ribosomal protein L1P; primary rRNA-binding pr	100.0
1mzp_A	217	50S ribosomal protein L1P; ribosome, RNA-protein c	100.0
3iz5_A	216	60S ribosomal protein L1 (L1P); eukaryotic ribosom	100.0
3o58_A	217	L10A, 60S ribosomal protein L1; ribosomal RNA and	100.0
2ov7_A	137	50S ribosomal protein L1; 2.30A {Thermus thermophi	99.96

>3u42_A 50S ribosomal protein L1; rossmann fold, rRNA binding, RNA binding; 1.35A {Thermus thermophilus} PDB: 3u56_A 3u4m_A 1eg0_N 1vsp_A 2hgj_C 2hgq_C 2hgu_C 1vsa_A 4f9t_A* 4abs_C 3zvp_C 1zho_A 1ml5_c* 1yl3_C 1giy_C 3umy_A 2hw8_A 2j01_C 2j03_C 2om7_K* ...

Probab=100.00  E-value=1.5e-58  Score=430.98  Aligned_cols=206  Identities=21%  Similarity=0.402  Sum_probs=197.4

Q ss_pred             ccccccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhh
Q psy16349         90 DYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHET  169 (351)
Q Consensus        90 ~~~~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~  169 (351)
                      +++.+.|+++|||++||+++        .++|+|||||+|+|+.+++|.+++|||+|.|||++  |+..+|||||++ +.
T Consensus        15 ~d~~k~y~~~eAi~~lk~~~--------~~kF~etvel~i~L~vd~~k~dq~vrg~v~LP~g~--gk~~kV~Vfa~~-~~   83 (229)
T 3u42_A           15 VDPNKIYTIDEAAHLVKELA--------TAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGL--GKQVRVLAIAKG-EK   83 (229)
T ss_dssp             SCTTCCBCHHHHHHHHHHHC--------CSSSCCEEEEEEEESSCTTCGGGCCEEEEECSSSC--STTSCEEEECCT-HH
T ss_pred             cCccCCCCHHHHHHHHHHhC--------CCCCCccEEEEEEEccCCCCCCCceeEEEECCCCC--CCceEEEEecCh-Hh
Confidence            56678899999999999998        88999999999999999999999999999999999  999999999999 56


Q ss_pred             HHHHHHcCCCeeccHHHHHHHHcCCccCCCccEEEEchhhHHHhHH-h------hchhccCCCcCCCCCCccCHHHHHHH
Q psy16349        170 AAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMR-I------RGLLKKRIPTLKSQTLGVDLIGIAKR  242 (351)
Q Consensus       170 a~~AkeaGA~~VGg~eLI~kI~~g~i~~~~fD~~IAtpd~m~~L~~-l------rGLMkkk~P~~K~GTv~~DI~~~V~~  242 (351)
                      +++|++|||++|||+|||++|++||+   +||+||||||||+.|++ |      ||||    |||+.|||+.||.++|++
T Consensus        84 ~~eAk~aGAd~vG~~dLi~kIk~g~~---~fD~~iAtpd~m~~vg~~LG~iLGPrGlM----Pnpk~GTvt~dv~~~v~~  156 (229)
T 3u42_A           84 IKEAEEAGADYVGGEEIIQKILDGWM---DFDAVVATPDVMGAVGSKLGRILGPRGLL----PNPKAGTVGFNIGEIIRE  156 (229)
T ss_dssp             HHHHHHTTCSEEECTHHHHHHHTTCC---CCSEEEECGGGHHHHHHHHHHHHHHHTCC----CCGGGTCBSSCHHHHHHH
T ss_pred             HHHHHhcCCceeCcHHHHHHHhcCCc---cccEEEEchHHHHHHHHhhcccccccccc----ccCCCCCCCCCHHHHHHH
Confidence            99999999999999999999999999   99999999999999974 4      9999    999999999999999999


Q ss_pred             Hhcc-cEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEecc
Q psy16349        243 LQTG-IKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDL  321 (351)
Q Consensus       243 ~k~g-i~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~  321 (351)
                      ++.| ++||+++      .|+||++||+++|++|||+|||.+++++|.+.+|..+  +|.||+++|||||||| |++||.
T Consensus       157 ~K~g~v~~r~dk------~g~i~~~IGk~~f~~e~L~eNi~a~i~~i~~~kp~~~--kg~~ik~v~lssTmGp-~i~id~  227 (229)
T 3u42_A          157 IKAGRIEFRNDK------TGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGA--KGTFLRSVYVTTVMGP-SVRINP  227 (229)
T ss_dssp             HHTTEEEEECCT------TSEEEEEEEETTSCHHHHHHHHHHHHHHHHHTCCTTC--CSCSEEEEEEECSSSC-CEEBCT
T ss_pred             HhCceEEEEeCC------CCeecccccCCCCCHHHHHHHHHHHHHHHHHhCcccc--CCCeEEEEEEECCCCc-CeEeCC
Confidence            9998 9999999      9999999999999999999999999999999999987  8999999999999999 999997


Q ss_pred             C
Q psy16349        322 S  322 (351)
Q Consensus       322 ~  322 (351)
                      .
T Consensus       228 ~  228 (229)
T 3u42_A          228 H  228 (229)
T ss_dssp             T
T ss_pred             C
Confidence            5

>3qoy_A 50S ribosomal protein L1; beta-alpha-beta, structural constituent of ribosome, rRNA BI regulation of translation, translation, ribosomal RNA; 2.10A {Aquifex aeolicus}

Probab=100.00  E-value=1.1e-55  Score=414.39  Aligned_cols=217  Identities=21%  Similarity=0.393  Sum_probs=202.1

Q ss_pred             ccccccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhh
Q psy16349         90 DYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHET  169 (351)
Q Consensus        90 ~~~~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~  169 (351)
                      ....+.|+++|||+++++++++     ..++|+|||||+++|+.|++|.+++|||+|.|||++  |+..+|||||++ +.
T Consensus        15 ~~~~~~y~l~eAi~~~k~~~~~-----~~rkF~etVel~i~L~vDp~k~d~~vrg~V~LPh~~--gk~~kV~Vfa~~-~~   86 (242)
T 3qoy_A           15 VDRNKRYTLEEAVDLLKKMEEV-----LQRRFDETVELAMRLNVDPRYADQMVRGSVVLPHGL--GKPIKVVVFAEG-EY   86 (242)
T ss_dssp             SCTTCCBCHHHHHHHHHHHHHH-----HCCSSCCEEEEEEEESCCTTSGGGCCEEEEECSCCC--SSCCCEEEECCH-HH
T ss_pred             ccccCccCHHHHHHHHHhhccc-----ccCCCCCcEEEEEEeccCCCCCCCccceEecCCCCC--CCCcEEEEEcCH-HH
Confidence            3457899999999999998821     125999999999999999988899999999999999  999999999999 45


Q ss_pred             HHHHHHcCCCeeccHHHHHHH-HcCCccCCCccEEEEchhhHHHhHHh------hchhccCCCcCCCCCCccCHHHHHHH
Q psy16349        170 AAQLQDMGVALVGDSDTIKGI-ERGLVTMPTFQFVICNPKILADLMRI------RGLLKKRIPTLKSQTLGVDLIGIAKR  242 (351)
Q Consensus       170 a~~AkeaGA~~VGg~eLI~kI-~~g~i~~~~fD~~IAtpd~m~~L~~l------rGLMkkk~P~~K~GTv~~DI~~~V~~  242 (351)
                      +++|++|||++||++|||++| ++|++   +||+|||||||||+|++|      ||||    |+|+.|||+.||.++|++
T Consensus        87 ~~eAk~aGad~vg~~dLi~ki~k~g~~---~fD~~iAtpd~m~~l~~LGriLGPrGlm----P~pk~gTvt~dv~~~V~~  159 (242)
T 3qoy_A           87 AKKAEEAGADYVGGDELINKILKEEWT---DFDVAIATPEMMPKVAKLGRILGPRGLM----PSPKTGTVTTNVEQAIKD  159 (242)
T ss_dssp             HHHHHHTTCSEEESHHHHHHHHHHTCC---CCSEEEECTTTHHHHGGGHHHHGGGTCS----CCGGGTCBCSCHHHHHHH
T ss_pred             HHHHHHcCCCEECcHHHHHHHHhCCCc---cCCEEEECHHHHHHHHHHhHHhccccCC----CcccCCccchhHHHHHHH
Confidence            999999999999999999999 79998   899999999999999987      8888    999999999999999999


Q ss_pred             Hhcc-cEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEecc
Q psy16349        243 LQTG-IKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDL  321 (351)
Q Consensus       243 ~k~g-i~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~  321 (351)
                      +++| ++||+++      .|++|++||+++|+++||.|||.+++++|.+.+|.++  +|+||+++||+||||| |++||+
T Consensus       160 ~k~G~v~fr~~k------~~~i~v~VG~~~m~~e~L~eNi~a~i~~l~~~~p~~~--kg~~Ik~v~lkSTmGp-~i~i~~  230 (242)
T 3qoy_A          160 AKRGRVEFKVDK------AGNVHMPVGKISFEKEKLIDNLYAAIDAVVRAKPPGA--KGQYIKNMAVSLTMSP-SVKLDI  230 (242)
T ss_dssp             HHTTEEEEECCT------TSEEEEEEEETTSCHHHHHHHHHHHHHHHHHTCCTTC--CSCSEEEEEEEETTSC-CEEBCH
T ss_pred             HhcCcEEEEecC------CcEEEEEecCCCCCHHHHHHHHHHHHHHHHHhCCccc--CCceEEEEEEECCCCC-CEEEEh
Confidence            9998 9999999      9999999999999999999999999999999999876  7899999999999999 999999


Q ss_pred             CCccCcccc
Q psy16349        322 SGLIEKPKA  330 (351)
Q Consensus       322 ~~~~~~~~~  330 (351)
                      +.|+|..-.
T Consensus       231 ~~~~~~~~~  239 (242)
T 3qoy_A          231 NEVLKKLQE  239 (242)
T ss_dssp             HHHHHHHHH
T ss_pred             hHhChhhhh
Confidence            999886543

>2wwq_5 50S ribosomal protein L1; ribosomal protein, ribonucleoprotein, nucleotide-binding, protein biosynthesis, translation, zinc-finger; HET: 5MU; 5.80A {Escherichia coli} PDB: 3fik_5 3izt_C* 3izu_C* 3j01_5 3j0t_C* 3j0w_C* 3j0y_C* 3j11_C* 3j12_C* 3j14_C* 3kcr_5 2rdo_9 2gya_2 2gyc_2

Probab=100.00  E-value=1.4e-54  Score=405.35  Aligned_cols=209  Identities=22%  Similarity=0.366  Sum_probs=198.5

Q ss_pred             ccccccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhh
Q psy16349         90 DYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHET  169 (351)
Q Consensus        90 ~~~~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~  169 (351)
                      ...++.|+++|||++|++++        .++|+|+|||+++|+.|+++.+++|||+|.|||++  |+..+|||||+++ .
T Consensus        15 ~~~~~~y~~~eAv~~lk~~~--------~~kF~etvel~i~L~vdp~k~dq~vrg~V~LPh~~--~k~~rV~Vfa~~~-~   83 (234)
T 2wwq_5           15 VDATKQYDINEAIALLKELA--------TAKFVESVDVAVNLGIDARKSDQNVRGATVLPHGT--GRSVRVAVFTQGA-N   83 (234)
T ss_dssp             SCCSSEECHHHHHHHHHHTC--------CCSSCCEEEEEEEECSCCCSSTTSCCEEEECSSCC--SSCCCEEEECSSS-C
T ss_pred             ccccCccCHHHHHHHHHHhc--------cCCCCceEEEEEEECCCCcccCcccceEEeCCCCC--CCCcEEEEEcCch-h
Confidence            35688999999999999887        78999999999999889988899999999999999  9999999999996 5


Q ss_pred             HHHHHHcCCCeeccHHHHHHHHcCCccCCCccEEEEchhhHHHhHHh------hchhccCCCcCCCCCCccCHHHHHHHH
Q psy16349        170 AAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRI------RGLLKKRIPTLKSQTLGVDLIGIAKRL  243 (351)
Q Consensus       170 a~~AkeaGA~~VGg~eLI~kI~~g~i~~~~fD~~IAtpd~m~~L~~l------rGLMkkk~P~~K~GTv~~DI~~~V~~~  243 (351)
                      +++|++|||++||++|||++|++|++   +||+|||||+||+.|++|      ||||    |+|+.|||+.||.++|+++
T Consensus        84 ~~~Ak~aGad~vg~edLi~kik~~~~---~fD~~iAtp~~m~~l~~LGkiLgprGlm----P~pk~gTvt~dv~~~V~~~  156 (234)
T 2wwq_5           84 AEAAKAAGAELVGMEDLADQIKKGEM---NFDVVIASPDAMRVVGQLGQVLGPRGLM----PNPKVGTVTPNVAEAVKNA  156 (234)
T ss_dssp             HHHHHHHTCSEECSHHHHHHHHHTCC---CSSEEEECHHHHHHTTSSCSCCCSSCCS----CCTTTTCBCSCSHHHHHHH
T ss_pred             HHHHHHcCCCEEcHHHHHHHHHcCcc---cCCEEEECHHHHHHHHHHhhhhccCCCC----CCccCCCccccHHHHHHHH
Confidence            99999999999999999999999996   999999999999999998      8888    9999999999999999999


Q ss_pred             hcc-cEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEeccC
Q psy16349        244 QTG-IKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLS  322 (351)
Q Consensus       244 k~g-i~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~~  322 (351)
                      ++| ++||+++      .|++|++||+++|++|||.|||.+++++|.+.+|..+  +|+||+++||+||||| |++||+.
T Consensus       157 k~g~v~~r~~k------~~~i~v~VG~~~f~~e~L~eNi~a~i~~l~~~~p~~~--kg~~Ik~v~lksTmgp-~i~id~~  227 (234)
T 2wwq_5          157 KAGQVRYRNDK------NGIIHTTIGKVDFDADKLKENLEALLVALKKAKPTQA--KGVYIKKVSISTTMGA-GVAVDQA  227 (234)
T ss_dssp             HHHEEEECCSS------SCEEEEEEEETTSCHHHHHHHHHHHHHHHHHSCCSSC--CSCCEEEEEEEESSSC-EEEESSS
T ss_pred             HcCeeEEEecC------CcEEEEEEcCCCCCHHHHHHHHHHHHHHHHHhCcccc--cCCeEEEEEEECCCCC-CEEEehH
Confidence            999 8999999      9999999999999999999999999999999999987  8899999999999999 9999987


Q ss_pred             Ccc
Q psy16349        323 GLI  325 (351)
Q Consensus       323 ~~~  325 (351)
                      .+.
T Consensus       228 ~~~  230 (234)
T 2wwq_5          228 GLS  230 (234)
T ss_dssp             CCC
T ss_pred             Hhh
Confidence            653

>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=3.7e-52  Score=405.26  Aligned_cols=210  Identities=18%  Similarity=0.330  Sum_probs=197.9

Q ss_pred             ccccccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhh
Q psy16349         90 DYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHET  169 (351)
Q Consensus        90 ~~~~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~  169 (351)
                      ..+.+.|++.|||++++++.        .++|+|+|||+++|+.|+++.+++|||+|.|||++  |+..+|||||+++ .
T Consensus       129 ~d~~~~Y~l~EAi~llK~~~--------~~KFdETVEl~I~L~vDpkk~dq~vRGtV~LPhgt--gk~~kVcVfa~ge-~  197 (352)
T 3bbo_D          129 REIKQEYDLKTALSLMKQMS--------STKFVETAEAHFRLNIDPKYNDQQLRATVSLPKGT--GKTVKIAVLAQGD-K  197 (352)
T ss_dssp             CCSSSCCCTTTTHHHHSTTC--------CSSSCCEECCEEEECSCTTSSTTCCEEEECCTTTS--SSSSCEEEECCTT-T
T ss_pred             ccccCCCCHHHHHHHHHhcc--------ccCCCceEEEEEEeCCCCcccccccceeecCCCCC--CCccEEEEEeCch-h
Confidence            35678999999999999987        88999999999999889988899999999999999  9999999999995 5


Q ss_pred             HHHHHHcCCCeeccHHHHHHHHcCCccCCCccEEEEchhhHHHhHHh------hchhccCCCcCCCCCCccCHHHHHHHH
Q psy16349        170 AAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRI------RGLLKKRIPTLKSQTLGVDLIGIAKRL  243 (351)
Q Consensus       170 a~~AkeaGA~~VGg~eLI~kI~~g~i~~~~fD~~IAtpd~m~~L~~l------rGLMkkk~P~~K~GTv~~DI~~~V~~~  243 (351)
                      +++|+++||++||++||+++|++|++   +||+||||||||++|++|      ||||    |+|+.|||+.||.++|+++
T Consensus       198 ~eeAk~AGAdvVG~edLikkIKkg~~---dFD~fIAtpdmM~~lgrLGkiLGPRGlM----PnPk~GTVt~Dva~aV~e~  270 (352)
T 3bbo_D          198 IDEAKAAGADIVGGEELIEQIKGGFM---DFDKLIATSDMMAKVASLGRILGPRGLM----PTPKAGTVTPNVAQAVEEF  270 (352)
T ss_dssp             THHHHTTTCSEEECTTTHHHHTTTCC---CCSEEEECSSSHHHHGGGGGTTTTTTCS----CCTTTTCBSSCHHHHHTTT
T ss_pred             HHHHHHcCCCccCHHHHHHHHHhchh---hcCEEEECHHHHHHHHhhcccccccCCC----CCCcCCcccccHHHHHHHH
Confidence            89999999999999999999999998   999999999999999998      7788    9999999999999999999


Q ss_pred             hcc-cEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEeccC
Q psy16349        244 QTG-IKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLS  322 (351)
Q Consensus       244 k~g-i~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~~  322 (351)
                      ++| ++||+++      .|+||++||+++|++|||.|||.++++.|.+.+|+.+  +|+||+++||+||||| |++|+..
T Consensus       271 K~G~v~fR~dK------~g~ihv~VGk~sfs~EqL~ENI~Avi~~L~k~kP~~~--KG~yIksv~LkSTMGP-gi~I~~~  341 (352)
T 3bbo_D          271 KKGKVEFRVDK------TGIVHIPFGKLNFEEEDLLINLFATIKSVETNKPTGA--KGVYWKSAHISSSMGP-SIRLNIR  341 (352)
T ss_dssp             TTCCEEEECCS------SCEECCCCEETTSCHHHHHHHHHHHHHHHHTTCCTTC--CSCSEEEEECCBSSSC-CCEECTT
T ss_pred             HcCeeEEEeCC------CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCcccc--cCceEEEEEEECCCCC-CEEEEhh
Confidence            999 8999999      9999999999999999999999999999999999987  8899999999999999 9999987


Q ss_pred             CccC
Q psy16349        323 GLIE  326 (351)
Q Consensus       323 ~~~~  326 (351)
                      .++.
T Consensus       342 ~l~d  345 (352)
T 3bbo_D          342 EMLD  345 (352)
T ss_dssp             C---
T ss_pred             hccc
Confidence            7654

>2ftc_A Mitochondrial ribosomal protein L1; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus}

Probab=100.00  E-value=3.7e-49  Score=358.21  Aligned_cols=185  Identities=21%  Similarity=0.418  Sum_probs=172.0

Q ss_pred             EEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCce-EEEEEcCChhhHHHHHHcCCCeeccHHHHHHHHcCCccCCCccE
Q psy16349        124 TVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDR-SIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQF  202 (351)
Q Consensus       124 sveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~-kVlVFa~~~e~a~~AkeaGA~~VGg~eLI~kI~~g~i~~~~fD~  202 (351)
                      .|||+|.|..  +|..+++||+|.|||++  ++.. +|||||++++.+++|++|||++||++|||++|++||+   +||+
T Consensus         2 ~ieL~m~l~~--~r~~~~~rg~V~LPhg~--~k~~~~V~Vfa~~~~~~~~Ak~aGad~vg~~dLi~ki~~~~~---~fD~   74 (189)
T 2ftc_A            2 DLTLDMALGK--KKNVEPFTSVLSLPYPF--ASEINKVAVFTENASEVKIAEENGAAFAGGTSLIQKIWDDEI---VADF   74 (189)
T ss_pred             eEEEEEEecC--CccCcccceEEECCCCC--CCCCCEEEEEeCChhHHHHHHHcCCCCcCHHHHHHHHHcCCc---cCCE
Confidence            5899998654  36788889999999998  6555 9999999965689999999999999999999999998   9999


Q ss_pred             EEEchhhHHHhHHhhchhccCCCcCCCCCCccCHHHHHHHHhcccEEEeecCCCCCCcc--eEEEEeeCCCCCHHHHHHH
Q psy16349        203 VICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFG--YSDFHIGRLDMSQEQLEDN  280 (351)
Q Consensus       203 ~IAtpd~m~~L~~lrGLMkkk~P~~K~GTv~~DI~~~V~~~k~gi~~r~~k~~~~~~~G--~I~v~IGkl~m~~eqL~eN  280 (351)
                      |||||+||++|++|.|.|+.|||+|+.|||+.|+.++|+++++|.+||+++      .|  ++|++||+++|++|||.||
T Consensus        75 ~iAtp~~m~~l~~l~~~Lg~KmP~pk~gTvt~dv~~~v~~~k~g~~~r~~k------~~~~~i~v~VG~~~~~~e~L~eN  148 (189)
T 2ftc_A           75 YVAVPEIMPELNRLRKKLNKKYPKLSRNSIGRDIPKMLELFKNGHEIKVDE------ERENFLQTKIATLDMSSDQIAAN  148 (189)
T ss_pred             EEECHHHHHHHHHhhccccCCCCcccCCCccccHHHHHHHHhcceEEEecc------CCCcEEEEEEECCCCCHHHHHHH
Confidence            999999999999997777777899999999999999999999999999999      88  9999999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEeccCCcc
Q psy16349        281 LKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLSGLI  325 (351)
Q Consensus       281 i~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~~~~~  325 (351)
                      |.+++++|.+++|+.+   |+||++++||||||| |++||+++++
T Consensus       149 i~a~i~~l~~~~p~~~---g~~ik~v~lssTmgp-~i~i~~~~l~  189 (189)
T 2ftc_A          149 LQAVINEVCRHRPLNL---GPFVVRAFLRSSTSE-GLLLKIDPLL  189 (189)
T ss_pred             HHHHHHHHHHhCchhc---CccEEEEEEECCCCC-CEEEehhhcC
Confidence            9999999999999773   799999999999999 9999999875

>3j21_A 50S ribosomal protein L1P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=2.5e-48  Score=359.31  Aligned_cols=198  Identities=16%  Similarity=0.292  Sum_probs=181.3

Q ss_pred             CCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeC-CCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHH
Q psy16349         96 FQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTH-QKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQ  174 (351)
Q Consensus        96 ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~-~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ak  174 (351)
                      -++.|||+.+++.+       +.++|+|||||+++|+ .|++|.+++|||+|.|||++  |+..+|||||++ +.+++|+
T Consensus         6 ~~~~eav~~~~~~~-------~~~kF~etvel~i~L~~~dp~k~d~~~rg~v~LPh~~--~k~~kV~Vf~~~-~~~~~Ak   75 (216)
T 3j21_A            6 QKIVKAVKEAKARA-------KPRNFTQSVEVAVNLKDIDLKRPENRFKLEVVLPHGR--GKDVKIAVIADG-AVAEAAR   75 (216)
T ss_dssp             SSCCCCTTTTCCCC-------CCSSSCCEEEEEEEESSCCSSSGGGSCCEEEECSSCC--SSCCCEEECCCS-HHHHHHH
T ss_pred             HHHHHHHHHHHHhC-------cccCCCceEEEEEEECCCCCCCcCceeeEEEeCCCCC--CCCcEEEEECCH-HHHHHHH
Confidence            35678999998866       4689999999999998 79988899999999999999  999999999999 5699999


Q ss_pred             HcCCCeeccHHHHHHHHcCCc----cCCCccEEEEchhhHHHhHH-h------hchhccCCCcCCCCCCccCHHHHHHHH
Q psy16349        175 DMGVALVGDSDTIKGIERGLV----TMPTFQFVICNPKILADLMR-I------RGLLKKRIPTLKSQTLGVDLIGIAKRL  243 (351)
Q Consensus       175 eaGA~~VGg~eLI~kI~~g~i----~~~~fD~~IAtpd~m~~L~~-l------rGLMkkk~P~~K~GTv~~DI~~~V~~~  243 (351)
                      +|||+++|++|| ++|.+++.    .+.+||+|||+|+||+.|++ |      ||+|    |+|++||+ .|+.++|+++
T Consensus        76 ~aGad~vg~e~L-~k~~k~~k~~kkl~~~fD~~lA~~~im~~l~k~LGk~Lgprgkm----P~pk~gtv-~dv~~~v~~~  149 (216)
T 3j21_A           76 KLGLDVISSAEL-EEIASSPRQARKLAKKYDFFIAEAPLMPKIGRYLGRYLGPRNKM----PVVVPPTL-TDLTPIVEKL  149 (216)
T ss_dssp             HHTCCCCCTTHH-HHHHHCCCSSSCCSSSCSEEEBCGGGHHHHHHHHHHHHTTSSSS----CCTTTTCB-CSHHHHHHHH
T ss_pred             hcCCCccCHHHH-HHHhcCHHHHhhhhhhCCEEEeCHHHHHHHHHHHHHHhccCCcc----CCCcCCcH-HHHHHHHHHH
Confidence            999999999997 88877652    45699999999999999998 4      6666    99999999 9999999999


Q ss_pred             hcccEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEec
Q psy16349        244 QTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD  320 (351)
Q Consensus       244 k~gi~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~  320 (351)
                      +++++||+++      .|++|++||+++|++|||.|||.++++.|.+.+|.++    +||+++||+||||| |++|+
T Consensus       150 k~~v~~r~~k------~~~i~v~VG~~~~~~e~L~eNi~a~i~~l~~~~p~~~----k~Iksi~lksTmgp-~i~i~  215 (216)
T 3j21_A          150 KKTVRIQLKN------NPVVHAPVGTEKMSDEEIAENIEAVLNAIIGKLERGE----SQVKSVYVKTTMGP-AVKIE  215 (216)
T ss_dssp             TCEEEEEEET------TTEEECCCEESSSCHHHHHHHHHHHHHHHHHSCCCSS----CSEEEEEEEESSSC-CEECC
T ss_pred             HhhceeecCC------CCEEEEEecCCCCCHHHHHHHHHHHHHHHHHhccccc----cceEEEEEECCCCC-CEEcc
Confidence            9999999999      9999999999999999999999999999999999753    59999999999999 99986

>2zkr_5 60S ribosomal protein L10A; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=100.00  E-value=3.3e-47  Score=350.97  Aligned_cols=193  Identities=16%  Similarity=0.281  Sum_probs=177.9

Q ss_pred             CHHHHHH-HHHHhCCCCCCCCCCccceeEEEEEEEe-CCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHH
Q psy16349         97 QFQEALA-AIRETHHPTMYNLPRAFIGATVEISTTT-HQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQ  174 (351)
Q Consensus        97 sl~EAi~-~lr~~~~p~~~~~p~~~f~esveL~m~L-~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ak  174 (351)
                      +++|||+ ++++..        .++|+|||||+++| +.++++.++++||+|.|||++  |+..+|||||+++ .+++|+
T Consensus         5 ~l~eAv~~llk~~~--------~~kf~etvel~i~Lk~~dp~k~d~~~rg~v~LPh~~--~k~~~V~Vf~~~~-~~~~A~   73 (212)
T 2zkr_5            5 EIENAVSRALEDAP--------ERNFRETVDLAVNLRDLDLNDPSNRVDESVVLPAGT--GQETTIVVFAEGE-TALRAE   73 (212)
T ss_dssp             THHHHHHHHHHTSC--------CCSSCCEEEEEEEESSCCTTTTTTCCCCEEECSSCC--SSCCCEEEECCHH-HHHHHH
T ss_pred             HHHHHHHHHHHhcc--------cCCCCceEEEEEEeCCCCCCcccccCceEEECCCCC--CCCcEEEEEcCch-hHHHHH
Confidence            5799999 777754        88999999999999 679987789999999999999  8999999999996 599999


Q ss_pred             HcCCCeeccHHHHHHHHc------CCccCCCccEEEEchhhHHHhHH-h------hchhccCCCcCCCCCCccCHHHHHH
Q psy16349        175 DMGVALVGDSDTIKGIER------GLVTMPTFQFVICNPKILADLMR-I------RGLLKKRIPTLKSQTLGVDLIGIAK  241 (351)
Q Consensus       175 eaGA~~VGg~eLI~kI~~------g~i~~~~fD~~IAtpd~m~~L~~-l------rGLMkkk~P~~K~GTv~~DI~~~V~  241 (351)
                      ++||+++|++|| ++|++      |+  +.+||+|||||+||+.|++ |      ||||    |+|+.|  +.|+.++|+
T Consensus        74 ~aGa~~vg~~~L-~ki~~~kk~~k~~--~~~fD~~lA~~~~m~~l~~~LGk~Lgprgkm----P~pk~g--t~dv~~~i~  144 (212)
T 2zkr_5           74 EVADDVLDEDEL-EELGGDDDAAKDL--ADDTDFFIAEKGLMQDIGRYLGTVLGPRGKM----PEPLDP--DDDVVEVIE  144 (212)
T ss_dssp             HHTSCCCCHHHH-HHHTTCHHHHHHH--HHHCSEEEECTTTHHHHHHHTHHHHHHHTCC----EEECCS--SSCCHHHHH
T ss_pred             hcCCCEeCHHHH-HHHHhhHHhhhcc--cccCCEEEECHHHHHHHHHHHhhhccccCCc----CcccCC--CcCHHHHHH
Confidence            999999999999 99987      55  1389999999999999999 5      7777    999999  699999999


Q ss_pred             HHhcccEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEec
Q psy16349        242 RLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD  320 (351)
Q Consensus       242 ~~k~gi~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~  320 (351)
                      ++++|++||+++      .|++|++||+++|++|||.|||.+++++|.+.+|..    ++||+++||+||||| |++|+
T Consensus       145 ~~k~~v~~r~~k------~~~i~v~VG~~~~~~e~L~eNi~a~i~~l~~~~p~~----~~~ik~v~lksTmgp-~i~i~  212 (212)
T 2zkr_5          145 RMKNTVQLRSGE------RRTFHTRVGAEDMSAENIADNIDVILRRLHADLEKG----PLNIDTVYVKTTMGP-AMEVA  212 (212)
T ss_dssp             HHHTEEECCCSS------SSEEEEEEEETTSCHHHHHHHHHHHHHHHHTTTCCC----TTTEEEEEEEESSSC-CEEC-
T ss_pred             HHHcceEEEecC------CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCccc----cccEEEEEEECCCCC-CEECC
Confidence            999999999999      999999999999999999999999999999999965    389999999999999 99875

>1i2a_A 50S ribosomal protein L1P; primary rRNA-binding protein, translation repressor, ribosome; 1.85A {Methanocaldococcus jannaschii} SCOP: e.24.1.1 PDB: 1cjs_A 1u63_A 1dwu_A

Probab=100.00  E-value=6.2e-46  Score=343.98  Aligned_cols=193  Identities=16%  Similarity=0.237  Sum_probs=175.7

Q ss_pred             CHHHHHH-HHHHhCCCCCCCCCCccceeEEEEEEEe-CCCcCCCC-CceeEEEEecCCCCCCCceEEEEEcCChhhHHHH
Q psy16349         97 QFQEALA-AIRETHHPTMYNLPRAFIGATVEISTTT-HQKKVKYM-DPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQL  173 (351)
Q Consensus        97 sl~EAi~-~lr~~~~p~~~~~p~~~f~esveL~m~L-~~k~~K~~-~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~A  173 (351)
                      .+.|||+ ++++..        .++|+|||||+++| +.+++ .+ ++|||+|.|||++  |+..+|||||+++ .+++|
T Consensus         5 ~l~eAv~~llk~~~--------~~kf~etVel~i~LK~~dp~-~d~q~vrg~v~LPh~~--~k~~~V~Vf~~~~-~~~~A   72 (219)
T 1i2a_A            5 ALLQAVKEARELAK--------PRNFTQSFEFIATLKEIDMR-KPENRIKTEVVLPHGR--GKEAKIAVIGTGD-LAKQA   72 (219)
T ss_dssp             HHHHHHHHHHHHSC--------CCSSCCEEEEEEEESSCCTT-SGGGCCEEEEECTTCC--SSCCCEEEECCHH-HHHHH
T ss_pred             HHHHHHHHHHHhcc--------cCCCCceEEEEEEecccCCc-ccccccceEEecCCCC--CCCcEEEEEcCch-hHHHH
Confidence            3689999 777654        88999999999999 67887 67 7999999999999  8999999999996 59999


Q ss_pred             HHcCCCeeccHHHHHHHHcCC----ccCCCccEEEEchhhHHHhHH-h------hchhccCCCcCCCCCCccCHHHHHHH
Q psy16349        174 QDMGVALVGDSDTIKGIERGL----VTMPTFQFVICNPKILADLMR-I------RGLLKKRIPTLKSQTLGVDLIGIAKR  242 (351)
Q Consensus       174 keaGA~~VGg~eLI~kI~~g~----i~~~~fD~~IAtpd~m~~L~~-l------rGLMkkk~P~~K~GTv~~DI~~~V~~  242 (351)
                      +++||++||++|| ++|++++    -.+.+||+|||||+||+.|++ |      ||||    |+|+.|  +.|+.++|++
T Consensus        73 ~~aGa~~vg~~~L-~ki~~~kk~~r~l~~~fD~~lA~~~~m~~l~k~LGk~Lgprgkm----P~pk~g--t~dv~~~v~~  145 (219)
T 1i2a_A           73 EELGLTVIRKEEI-EELGKNKRKLRKIAKAHDFFIAQADLMPLIGRYMGVILGPRGKM----PKPVPA--NANIKPLVER  145 (219)
T ss_dssp             HHTTCEEECHHHH-HHHHHCHHHHHHHHHHCSEEEEEGGGHHHHHHHTHHHHGGGTCC----CEEECT--TCCCHHHHHH
T ss_pred             HHCCCCEEcHHHH-HHHHhhhhhhhhchhhCCEEEECHHHHHHHHHHHhhhhcccCCC----CcccCC--CccHHHHHHH
Confidence            9999999999999 9998753    122489999999999999999 5      7777    999999  6999999999


Q ss_pred             HhcccEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEe
Q psy16349        243 LQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKL  319 (351)
Q Consensus       243 ~k~gi~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I  319 (351)
                      +++|++||+++      .|++|++||+++|++|||.|||.+++++|.+.+|.+    .+||+++||+||||| |++|
T Consensus       146 ~k~~v~~r~~k------~~~i~v~VG~~~~~~e~L~eNi~a~i~~l~~~~p~~----~~~ik~v~lksTmgp-~i~i  211 (219)
T 1i2a_A          146 LKKTVVINTRD------KPYFQVLVGNEKMTDEQIVDNIEAVLNVVAKKYEKG----LYHIKDAYVKLTMGP-AVKV  211 (219)
T ss_dssp             HHTEEEEECTT------SSEEEEEEEETTSCHHHHHHHHHHHHHHHHHHSTTG----GGGEEEEEEEETTSC-CEEC
T ss_pred             HhcceEEEecC------CCEEEEEEecCCCCHHHHHHHHHHHHHHHHHhCCcc----ccceEEEEEECCCCC-CEEe
Confidence            99999999998      999999999999999999999999999999999965    379999999999999 9986

>1mzp_A 50S ribosomal protein L1P; ribosome, RNA-protein complex; 2.65A {Sulfolobus acidocaldarius} SCOP: e.24.1.1 PDB: 1pnu_5 1pny_5 1vor_7 1vou_7 1vow_7 1voy_7 1vp0_7 3e1b_Z 3e1d_Z

Probab=100.00  E-value=2.5e-45  Score=339.51  Aligned_cols=195  Identities=16%  Similarity=0.148  Sum_probs=176.6

Q ss_pred             HHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEe-CCCcCCCC-CceeEEEEecCCCCCCCceEEEEEcCChhhHHHHHH
Q psy16349         98 FQEALAAIRETHHPTMYNLPRAFIGATVEISTTT-HQKKVKYM-DPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQD  175 (351)
Q Consensus        98 l~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L-~~k~~K~~-~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ake  175 (351)
                      +.+||+.|.+.+     ..+.++|+|||||+++| +.+++ .+ +++||+|.|||++  |+..+|||||+++ .+++|++
T Consensus         8 l~~Av~~ll~~~-----~~~~~kf~etvel~i~LK~~dp~-~d~q~~rg~v~LPh~~--~k~~~V~Vf~~~~-~~~~A~~   78 (217)
T 1mzp_A            8 LIEALKLALSTE-----YNVKRNFTQSVEIILTFKGIDMK-KGDLKLREIVPLPKQP--SKAKRVLVVPSSE-QLEYAKK   78 (217)
T ss_dssp             HHHHHHHHHSTT-----TCCCCSSCCEEEEEEEESSCCGG-GTTTCCEEEEECSSCC--SSCCCEEEECCHH-HHHHHHH
T ss_pred             HHHHHHHHHhhc-----cccccCCCccEEEEEEecCCCCc-ccccccceeecCCCCC--CCCcEEEEEcCch-hHHHHHh
Confidence            589999998753     23578999999999999 66887 67 8999999999999  8999999999996 5999999


Q ss_pred             cCCC-eeccHHHHHHHHcCC----ccCCCccEEEEchhhHHHhHH-h------hchhccCCCcCCCCCCccCHHHHHHHH
Q psy16349        176 MGVA-LVGDSDTIKGIERGL----VTMPTFQFVICNPKILADLMR-I------RGLLKKRIPTLKSQTLGVDLIGIAKRL  243 (351)
Q Consensus       176 aGA~-~VGg~eLI~kI~~g~----i~~~~fD~~IAtpd~m~~L~~-l------rGLMkkk~P~~K~GTv~~DI~~~V~~~  243 (351)
                      +||+ ++|++|| ++|++++    -.+.+||+|||||+||+.|++ |      ||||    |+|+.|  +.|+.++|+++
T Consensus        79 aGad~~vg~~~L-~ki~~~kk~~k~~~~~fD~~lA~~~~m~~l~~~LG~~Lgprgkm----P~p~~g--t~dv~~~v~~~  151 (217)
T 1mzp_A           79 ASPKVVITREEL-QKLQGQKRPVKKLARQNEWFLINQESMALAGRILGPALGPRGKF----PTPLPN--TADISEYINRF  151 (217)
T ss_dssp             TCCSEECCHHHH-HHHTTCHHHHHHHHHSCSEEEECGGGHHHHHHHTHHHHGGGTCC----EEECCS--SSCCHHHHHHH
T ss_pred             cCCCeeeCHHHH-HHHHhhHHhhhhchhhCCEEEECHHHHHHHHHHHhhhccccCCC----CcccCC--CccHHHHHHHH
Confidence            9998 9999999 9998732    112389999999999999999 5      7777    999999  69999999999


Q ss_pred             hcccEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEec
Q psy16349        244 QTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD  320 (351)
Q Consensus       244 k~gi~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~  320 (351)
                      ++|++||+++      .|++|++||+++|++|||.|||.+++++|.+.+|+ +    +||+++||+||||| |++||
T Consensus       152 k~~v~~r~~k------~~~i~v~VG~~~~~~e~L~eNi~a~i~~l~~~~p~-~----~~ik~v~lksTmgp-~i~i~  216 (217)
T 1mzp_A          152 KRSVLVKTKD------QPQVQVFIGTEDMKPEDLAENAIAVLNAIENKAKV-E----TNLRNIYVKTTMGK-AVKVK  216 (217)
T ss_dssp             HTEEEEECSS------SSEEEEEEEETTSCHHHHHHHHHHHHHHHHHHCCC-T----TTEEEEEEEETTSC-CEECC
T ss_pred             hcceEEEecC------CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCcc-c----hheEEEEEECCCCC-CeeCC
Confidence            9999999999      99999999999999999999999999999999995 4    89999999999999 99986

>3o58_A L10A, 60S ribosomal protein L1; ribosomal RNA and proteins, ribosome; 4.00A {Saccharomyces cerevisiae} PDB: 3izc_A 1s1i_A 3izs_A 3o5h_A 2noq_G 3j0l_B 3j0o_B 3j0p_B 3j0q_B 3jyw_A

Probab=100.00  E-value=4.4e-46  Score=344.47  Aligned_cols=203  Identities=16%  Similarity=0.202  Sum_probs=181.2

Q ss_pred             CCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEe-CCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHH
Q psy16349         96 FQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTT-HQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQ  174 (351)
Q Consensus        96 ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L-~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ak  174 (351)
                      -.+.+||+.+.+.+    -+.+.++|+|||||+++| +.|+++ ++++||+|.|||++  |+..+|||||++ +.+++|+
T Consensus         7 ~~~~~av~~~l~~~----~~~~~~kf~etVel~i~Lk~idp~k-d~~~rg~v~LPh~~--~k~~~V~Vf~~~-~~~~~Ak   78 (217)
T 3o58_A            7 SQVREHVKELLKYS----NETKKRNFLETVELQVGLKNYDPQR-DKRFSGSLKLPNCP--RPNMSICIFGDA-FDVDRAK   78 (217)
T ss_dssp             TTHHHHTTSSSSCC----SSSSCCSSCCCCCCCCCSCCSCSSS-SSCCSCCCSCCCCC--SSCCCCCCCSST-TSSGGGT
T ss_pred             HHHHHHHHHHHHhc----ccccccCCCccEEEEEEecccCCCC-CCcCCeEEECCCCC--CCCcEEEEEcCc-HhHHHHH
Confidence            46789998887653    113689999999999999 679975 99999999999999  899999999999 4589999


Q ss_pred             HcCCCeeccHHHHHHHHcCCc---cCCCccEEEEchhhHHHhHHh--hchhcc-CCCcCCCCCCccCHHHHHHHHhcccE
Q psy16349        175 DMGVALVGDSDTIKGIERGLV---TMPTFQFVICNPKILADLMRI--RGLLKK-RIPTLKSQTLGVDLIGIAKRLQTGIK  248 (351)
Q Consensus       175 eaGA~~VGg~eLI~kI~~g~i---~~~~fD~~IAtpd~m~~L~~l--rGLMkk-k~P~~K~GTv~~DI~~~V~~~k~gi~  248 (351)
                      ++||+++|++||+++|+++++   ++.+||+|||+|+||+.|+++  +|||++ +||+|++  ++.|+.++|++++++++
T Consensus        79 ~aGa~~vg~~~L~~~~k~~k~~~~l~~~fD~~iA~~~im~~l~riLG~~l~p~gk~P~p~~--vt~dv~~~v~~~k~~v~  156 (217)
T 3o58_A           79 SCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLIKQVPRLLGPQLSKAGKFPTPVS--HNDDLYGKVTDVRSTIK  156 (217)
T ss_dssp             TTTCCCCCSTTTTTTSCSSSHHHHHHCSSSCCCCCCCCSSCCSSSSSSTTHHHHCSSCCSC--TTTCSSSGGGGTTSCCS
T ss_pred             HcCCCEeCHHHHHHHhhchhHhhhhhhhCCEEEECHHHHHHHHHHhhhhhcccCCcCCCcC--CchhHHHHHHHHhceEE
Confidence            999999999999999998864   235999999999999999995  667743 7799995  88999999999999999


Q ss_pred             EEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEe
Q psy16349        249 YSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKL  319 (351)
Q Consensus       249 ~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I  319 (351)
                      ||+++      .|++|++||+++|++|||.|||.++++.|.+.+|+    .++||+++||+||||| |++|
T Consensus       157 ~r~~k------~~~i~v~IG~~~~~~e~l~eNi~avi~~l~~~~pk----~~~~iksi~lksTmgp-~i~i  216 (217)
T 3o58_A          157 FQLKK------VLCLAVAVGNVEMEEDVLVNQILMSVNFFVSLLKK----NWQNVGSLVVKSSMGP-AFRL  216 (217)
T ss_dssp             CCCCS------SSCCCCCCCSSSCCSHHHHHHHHHTCSTTTCCSSS----CSCCCSCCCCCSSSSC-SCCC
T ss_pred             EEeCC------CCEEEEeeccCCCCHHHHHHHHHHHHHHHHHhccc----CCceEEEEEEECCCCC-CEec
Confidence            99999      99999999999999999999999999999999984    4689999999999999 8865

>2ov7_A 50S ribosomal protein L1; 2.30A {Thermus thermophilus} PDB: 2oum_A 2vpl_A

Probab=99.96  E-value=6.1e-29  Score=214.74  Aligned_cols=123  Identities=18%  Similarity=0.290  Sum_probs=115.1

Q ss_pred             ccccccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhh
Q psy16349         90 DYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHET  169 (351)
Q Consensus        90 ~~~~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~  169 (351)
                      +...+.|++.|||+++++..        .++|+|||||+++|+.|+++.+++|||+|.|||+                  
T Consensus        14 v~~~~~y~~~eAi~~~k~~~--------~~kF~EtVel~i~L~vDprk~dq~vrgtV~LP~g------------------   67 (137)
T 2ov7_A           14 VDPNKIYTIDEAAHLVKELA--------TAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHG------------------   67 (137)
T ss_dssp             SCTTCCBCHHHHHHHHHHTC--------CSSSCCEEEEEEEESSCTTCSSCCCEEEEECTTS------------------
T ss_pred             cCcccccCHHHHHHHHHhcc--------cCCCCccEEEEEEeCCCCccccceeeEEEEcCCC------------------
Confidence            34567899999999999766        8999999999999999998889999999999998                  


Q ss_pred             HHHHHHcCCCeeccHHHHHHHHcCCccCCCccEEEEchhhHHHhHHhhchhccCCCcCCCCCCccCHHHHHHHHhcccEE
Q psy16349        170 AAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTGIKY  249 (351)
Q Consensus       170 a~~AkeaGA~~VGg~eLI~kI~~g~i~~~~fD~~IAtpd~m~~L~~lrGLMkkk~P~~K~GTv~~DI~~~V~~~k~gi~~  249 (351)
                                                                                                 +.++|
T Consensus        68 ---------------------------------------------------------------------------g~v~f   72 (137)
T 2ov7_A           68 ---------------------------------------------------------------------------GRIEF   72 (137)
T ss_dssp             ---------------------------------------------------------------------------CEEEE
T ss_pred             ---------------------------------------------------------------------------CeEEE
Confidence                                                                                       44999


Q ss_pred             EeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEeccC
Q psy16349        250 SMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDLS  322 (351)
Q Consensus       250 r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~~  322 (351)
                      |+++      .|+||++||+++|++|||.|||.+++++|.+.+|+.+  +|+||+++||+||||| |++||+.
T Consensus        73 r~dk------~~~ih~~VGk~sf~~e~L~eNi~a~i~~l~~~kp~~~--kg~~ik~v~issTMGp-~i~id~~  136 (137)
T 2ov7_A           73 RNDK------TGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGA--KGTFLRSVYVTTTMGP-SVRINPH  136 (137)
T ss_dssp             ECCT------TSEEEEEEEETTSCHHHHHHHHHHHHHHHHTTSCSSC--CSCSEEEEEEEETTSC-CEEBCTT
T ss_pred             EECC------CCEEEEEEecCCCCHHHHHHHHHHHHHHHHHhCcccc--cCceEEEEEEECCCCC-CEEecCC
Confidence            9999      9999999999999999999999999999999999988  8999999999999999 9999874

---

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	351
d1ad2a_	224	e.24.1.1 (A:) Ribosomal protein L1 {Thermus thermo	1e-10
d1i2aa_	212	e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Metha	7e-04
d1mzpa_	217	e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Sulfo	0.003

>d1ad2a_ e.24.1.1 (A:) Ribosomal protein L1 {Thermus thermophilus [TaxId: 274]} Length = 224

class: Multi-domain proteins (alpha and beta)
fold: Ribosomal protein L1
superfamily: Ribosomal protein L1
family: Ribosomal protein L1
domain: Ribosomal protein L1
species: Thermus thermophilus [TaxId: 274]

 Score = 58.5 bits (141), Expect = 1e-10
 Identities = 40/211 (18%), Positives = 75/211 (35%), Gaps = 20/211 (9%)

Query: 87  LQKDYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIV 146
           L+K    +I+   EA   ++E                TVE+         +        V
Sbjct: 7   LEKVDPNKIYTIDEAAHLVKELATAKFD--------ETVEVHAKLGIDPRRSDQNVRGTV 58

Query: 147 EVEHSFDHGEDRSIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVI-C 205
            + H          IA   + + A   ++ G   VG  + I+ I  G +           
Sbjct: 59  SLPHGLGKQVRVLAIAKGEKIKEA---EEAGADYVGGEEIIQKILDGWMDFDAVVATPDV 115

Query: 206 NPKILADLMRIRGLLKKRIPTLKSQTLGVDLIGIAKRLQTG-IKYSMKKDPQEQDFGYSD 264
              + + L RI G  +  +P  K+ T+G ++  I + ++ G I++   K       G   
Sbjct: 116 MGAVGSKLGRILGP-RGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKT------GAIH 168

Query: 265 FHIGRLDMSQEQLEDNLKRILADISTMKPPS 295
             +G+     E+L DN++  +  +   KP  
Sbjct: 169 APVGKACFPPEKLADNIRAFIRALEAHKPEG 199

>d1i2aa_ e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 212

class: Multi-domain proteins (alpha and beta)
fold: Ribosomal protein L1
superfamily: Ribosomal protein L1
family: Ribosomal protein L1
domain: Ribosomal protein L1
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score = 38.2 bits (88), Expect = 7e-04
 Identities = 31/199 (15%), Positives = 73/199 (36%), Gaps = 21/199 (10%)

Query: 100 EALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRS 159
           +A+   RE   P  +         + E   T  +  ++  +   + ++ E    HG  + 
Sbjct: 8   QAVKEARELAKPRNFT-------QSFEFIATLKEIDMRKPE---NRIKTEVVLPHGRGKE 57

Query: 160 -IIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMP---TFQFVICNPKILADLMR 215
             IA     + A Q +++G+ ++   +  +  +             F I    ++  + R
Sbjct: 58  AKIAVIGTGDLAKQAEELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLMPLIGR 117

Query: 216 IRG-LLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQ 274
             G +L  R    K      ++  + +RL+  +  + +         Y    +G   M+ 
Sbjct: 118 YMGVILGPRGKMPKPVPANANIKPLVERLKKTVVINTRDK------PYFQVLVGNEKMTD 171

Query: 275 EQLEDNLKRILADISTMKP 293
           EQ+ DN++ +L  ++    
Sbjct: 172 EQIVDNIEAVLNVVAKKYE 190

>d1mzpa_ e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 217

class: Multi-domain proteins (alpha and beta)
fold: Ribosomal protein L1
superfamily: Ribosomal protein L1
family: Ribosomal protein L1
domain: Ribosomal protein L1
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

 Score = 36.3 bits (83), Expect = 0.003
 Identities = 38/203 (18%), Positives = 62/203 (30%), Gaps = 20/203 (9%)

Query: 100 EALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMD-PWTHIVEVEHSFDHGEDR 158
           EAL     T     YN+ R F   +VEI  T     +K  D     IV +       +  
Sbjct: 10  EALKLALSTE----YNVKRNFT-QSVEIILTFKGIDMKKGDLKLREIVPLPKQPSKAKR- 63

Query: 159 SIIAFCSQHETAAQLQDMGVALVGDSDTIKGIERGLVTMPT----FQFVICNPKILADLM 214
             +      E     +     +V   + ++ ++     +       ++ + N + +A   
Sbjct: 64  --VLVVPSSEQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESMALAG 121

Query: 215 RIRG-LLKKRIPTLKSQTLGVDLIGIAKRLQTGIKYSMKKDPQEQDFGYSDFHIGRLDMS 273
           RI G  L  R           D+     R +  +    K  P           IG  DM 
Sbjct: 122 RILGPALGPRGKFPTPLPNTADISEYINRFKRSVLVKTKDQP------QVQVFIGTEDMK 175

Query: 274 QEQLEDNLKRILADISTMKPPSK 296
            E L +N   +L  I        
Sbjct: 176 PEDLAENAIAVLNAIENKAKVET 198

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	351
d1ad2a_	224	Ribosomal protein L1 {Thermus thermophilus [TaxId:	100.0
d1mzpa_	217	Ribosomal protein L1 {Archaeon Sulfolobus acidocal	100.0
d1i2aa_	212	Ribosomal protein L1 {Archaeon Methanococcus janna	100.0

>d1ad2a_ e.24.1.1 (A:) Ribosomal protein L1 {Thermus thermophilus [TaxId: 274]}

class: Multi-domain proteins (alpha and beta)
fold: Ribosomal protein L1
superfamily: Ribosomal protein L1
family: Ribosomal protein L1
domain: Ribosomal protein L1
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=3e-55  Score=405.22  Aligned_cols=206  Identities=21%  Similarity=0.399  Sum_probs=195.5

Q ss_pred             ccccccCCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeCCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhh
Q psy16349         90 DYKLRIFQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTHQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHET  169 (351)
Q Consensus        90 ~~~~~~ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~  169 (351)
                      +.+.+.|+++|||++||+++        .++|+|+|||+++|+.+++|++++|+|+|.|||++  |+..+|||||++ +.
T Consensus        10 ~d~~k~ysi~EAi~~lk~~~--------~~kF~esvel~i~L~~~~~k~~~~i~g~v~LP~~~--~k~~ki~v~~~~-e~   78 (224)
T d1ad2a_          10 VDPNKIYTIDEAAHLVKELA--------TAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGL--GKQVRVLAIAKG-EK   78 (224)
T ss_dssp             CCTTCCBCHHHHHHHHHTTC--------CSSSCCEEEEEEEESSCTTCGGGCCEEEEECSSSC--STTSCEEEECCT-HH
T ss_pred             cCccCCcCHHHHHHHHHHcC--------CCCCCceEEEEEEEcccccccccccceeEEecccc--ccceeEEEecch-HH
Confidence            44567899999999999987        78999999999999998889999999999999999  999999999999 66


Q ss_pred             HHHHHHcCCCeeccHHHHHHHHcCCccCCCccEEEEchhhHHHhHH-h------hchhccCCCcCCCCCCccCHHHHHHH
Q psy16349        170 AAQLQDMGVALVGDSDTIKGIERGLVTMPTFQFVICNPKILADLMR-I------RGLLKKRIPTLKSQTLGVDLIGIAKR  242 (351)
Q Consensus       170 a~~AkeaGA~~VGg~eLI~kI~~g~i~~~~fD~~IAtpd~m~~L~~-l------rGLMkkk~P~~K~GTv~~DI~~~V~~  242 (351)
                      +++|++|||++|||+|||++|++|++   +||+|||||+|||.|++ +      ||||    |+|+.|||+.|+.++|++
T Consensus        79 ~~~Ak~aGa~~vg~~eli~ki~~~~~---~fd~~ia~~~~m~~v~~~lgriLGprGlM----P~pk~Gtv~~di~~~v~~  151 (224)
T d1ad2a_          79 IKEAEEAGADYVGGEEIIQKILDGWM---DFDAVVATPDVMGAVGSKLGRILGPRGLL----PNPKAGTVGFNIGEIIRE  151 (224)
T ss_dssp             HHHHHHTTCSEEECGGGHHHHHTTCC---CCSEEEECGGGHHHHHHHHHHHHHHHTCS----CCTTTTCBCSCHHHHHHH
T ss_pred             HHHHHhcCccccCcHHHHHHHhcCCc---cchhHHhHHHHHHHHHHhhhhccCcccCC----CCCCCCCcchhHHHHHHH
Confidence            99999999999999999999999999   89999999999999964 3      8999    999999999999999999


Q ss_pred             Hhcc-cEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEecc
Q psy16349        243 LQTG-IKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLDL  321 (351)
Q Consensus       243 ~k~g-i~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~~  321 (351)
                      +++| ++||+++      .|+||++||+++|+++||+|||.+++++|++++|.++  +|.||+++|||||||| |++||.
T Consensus       152 ~k~g~v~~r~~k------~g~i~~~IG~~~m~~e~i~eNi~~~i~~i~~~~p~~~--k~~~ik~v~l~sTmGp-~~~id~  222 (224)
T d1ad2a_         152 IKAGRIEFRNDK------TGAIHAPVGKACFPPEKLADNIRAFIRALEAHKPEGA--KGTFLRSVYVTTTMGP-SVRINP  222 (224)
T ss_dssp             HHTTEEEEECCT------TSEEEEEEEETTSCHHHHHHHHHHHHHHHHTTCCTTC--CSCSEEEEEEECTTSC-CEEECT
T ss_pred             HhCCeEEEeeCC------CceeeeeeccccCCHHHHHHHHHHHHHHHHHhCcccc--CCCeEeEEEEECCCCC-CEEeCC
Confidence            9998 9999998      9999999999999999999999999999999999887  8899999999999999 999997


Q ss_pred             C
Q psy16349        322 S  322 (351)
Q Consensus       322 ~  322 (351)
                      .
T Consensus       223 ~  223 (224)
T d1ad2a_         223 H  223 (224)
T ss_dssp             T
T ss_pred             C
Confidence            5

>d1mzpa_ e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Multi-domain proteins (alpha and beta)
fold: Ribosomal protein L1
superfamily: Ribosomal protein L1
family: Ribosomal protein L1
domain: Ribosomal protein L1
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=100.00  E-value=3.9e-50  Score=369.41  Aligned_cols=199  Identities=19%  Similarity=0.160  Sum_probs=182.2

Q ss_pred             CCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEe-CCCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHH
Q psy16349         96 FQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTT-HQKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQ  174 (351)
Q Consensus        96 ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L-~~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ak  174 (351)
                      .++.|||+.+++..     ..|+++|+|||||+++| +.|++|.++++||+|.|||++  |+..+|||||++ +.+++|+
T Consensus         6 ~~~~eai~~~~~~~-----~~~krkF~esvdl~v~Lk~iD~kk~d~~irg~v~LP~~~--~k~~kI~Vfa~~-e~~~~Ak   77 (217)
T d1mzpa_           6 ESLIEALKLALSTE-----YNVKRNFTQSVEIILTFKGIDMKKGDLKLREIVPLPKQP--SKAKRVLVVPSS-EQLEYAK   77 (217)
T ss_dssp             HHHHHHHHHHHSTT-----TCCCCSSCCEEEEEEEESSCCGGGTTTCCEEEEECSSCC--SSCCCEEEECCH-HHHHHHH
T ss_pred             HHHHHHHHHHHhhc-----cccccCCcceEEEEEEecCCCCCCCcceeeEEEECCCCC--CCCceEEEEcCc-cchHHHh
Confidence            36889999999654     23789999999999999 479999999999999999999  999999999998 6699999


Q ss_pred             HcCCCeeccHHHHHHHHcCCcc----CCCccEEEEchhhHHHhHHh-------hchhccCCCcCCCCCCccCHHHHHHHH
Q psy16349        175 DMGVALVGDSDTIKGIERGLVT----MPTFQFVICNPKILADLMRI-------RGLLKKRIPTLKSQTLGVDLIGIAKRL  243 (351)
Q Consensus       175 eaGA~~VGg~eLI~kI~~g~i~----~~~fD~~IAtpd~m~~L~~l-------rGLMkkk~P~~K~GTv~~DI~~~V~~~  243 (351)
                      ++||++|||+|||++|.+|++.    +.+||+|||+|++|+.+.++       ||||    |+|+.||  .||.++|+++
T Consensus        78 ~aGa~~Vg~~dli~ki~~~~~~~~kl~~~~d~fla~~~~m~~~~~~lGkiLGprgkM----P~pk~gt--~di~~~v~~~  151 (217)
T d1mzpa_          78 KASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESMALAGRILGPALGPRGKF----PTPLPNT--ADISEYINRF  151 (217)
T ss_dssp             HTCCSEECCHHHHHHHTTCHHHHHHHHHSCSEEEECGGGHHHHHHHTHHHHGGGTCC----EEECCSS--SCCHHHHHHH
T ss_pred             hccccccchHHHHHHhhcccccccceecccCeEEEcCchhhhHHHHhhhhhcccccc----ccccccc--ccHHHHHHHH
Confidence            9999999999999999999873    45899999999999988774       7777    9999998  5999999999


Q ss_pred             hcccEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCCceeEEEEEcCCCCCceEec
Q psy16349        244 QTGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDEDFITRILLWSEPSPEKFKLD  320 (351)
Q Consensus       244 k~gi~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~fI~~v~LsSTmGpe~i~I~  320 (351)
                      ++|++||+++      +|+||++||+++|++|||.|||.+++++|.+..|     +|.||++|||+||||| |++|+
T Consensus       152 k~~v~~r~~k------~~~i~~~IG~~~m~~e~L~eNi~a~i~~i~~~~~-----~~~~Ik~v~iksTmGp-~i~i~  216 (217)
T d1mzpa_         152 KRSVLVKTKD------QPQVQVFIGTEDMKPEDLAENAIAVLNAIENKAK-----VETNLRNIYVKTTMGK-AVKVK  216 (217)
T ss_dssp             HTEEEEECSS------SSEEEEEEEETTSCHHHHHHHHHHHHHHHHHHCC-----CTTTEEEEEEEETTSC-CEECC
T ss_pred             Hhcceeeccc------ceEEEEeecccCCCHHHHHHHHHHHHHHHHhccc-----cCCcEEEEEEECCCCC-CEecC
Confidence            9999999998      9999999999999999999999999999998755     6789999999999999 99986

>d1i2aa_ e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Multi-domain proteins (alpha and beta)
fold: Ribosomal protein L1
superfamily: Ribosomal protein L1
family: Ribosomal protein L1
domain: Ribosomal protein L1
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=100.00  E-value=1.8e-47  Score=350.03  Aligned_cols=196  Identities=16%  Similarity=0.222  Sum_probs=176.8

Q ss_pred             CCHHHHHHHHHHhCCCCCCCCCCccceeEEEEEEEeC-CCcCCCCCceeEEEEecCCCCCCCceEEEEEcCChhhHHHHH
Q psy16349         96 FQFQEALAAIRETHHPTMYNLPRAFIGATVEISTTTH-QKKVKYMDPWTHIVEVEHSFDHGEDRSIIAFCSQHETAAQLQ  174 (351)
Q Consensus        96 ysl~EAi~~lr~~~~p~~~~~p~~~f~esveL~m~L~-~k~~K~~~~~rg~V~LPh~~~~gk~~kVlVFa~~~e~a~~Ak  174 (351)
                      .++.|||+.+++.+       +.++|+|||||+++|+ .|++|+++++||+|.|||++  |+..+|||||++ +.+++|+
T Consensus         4 ~~~~~ai~~~~~~~-------k~rkF~esvel~i~Lk~iD~kk~d~~irg~v~LPh~~--gk~~kV~Vf~~~-e~~~~Ak   73 (212)
T d1i2aa_           4 EALLQAVKEARELA-------KPRNFTQSFEFIATLKEIDMRKPENRIKTEVVLPHGR--GKEAKIAVIGTG-DLAKQAE   73 (212)
T ss_dssp             HHHHHHHHHHHHHS-------CCCSSCCEEEEEEEESSCCTTSGGGCCEEEEECTTCC--SSCCCEEEECCH-HHHHHHH
T ss_pred             HHHHHHHHHHHHhC-------CccCCCceEEEEEecCCCCCCcccceeeeEeeCCCCC--CCcceEEEEech-hhHHHhh
Confidence            46889999999988       4689999999999995 79999899999999999999  999999999998 6799999


Q ss_pred             HcCCCeeccHHHHHHHHcCCc---cCCCccEEEEchhhHHHhHH-h------hchhccCCCcCCCCCCccCHHHHHHHHh
Q psy16349        175 DMGVALVGDSDTIKGIERGLV---TMPTFQFVICNPKILADLMR-I------RGLLKKRIPTLKSQTLGVDLIGIAKRLQ  244 (351)
Q Consensus       175 eaGA~~VGg~eLI~kI~~g~i---~~~~fD~~IAtpd~m~~L~~-l------rGLMkkk~P~~K~GTv~~DI~~~V~~~k  244 (351)
                      +|||++||++||++.++++..   .+.+||+|||||+|||.|++ +      ||||    |+|++||  .|+.++|++++
T Consensus        74 ~aga~~vg~~el~~~~~~~~~~kk~~~~~D~~iat~~~m~~l~k~lgkiLGpkglm----P~p~~~t--~di~~~v~~~k  147 (212)
T d1i2aa_          74 ELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLMPLIGRYMGVILGPRGKM----PKPVPAN--ANIKPLVERLK  147 (212)
T ss_dssp             HTTCEEECHHHHHHHHHCHHHHHHHHHHCSEEEEEGGGHHHHHHHTHHHHGGGTCC----CEEECTT--CCCHHHHHHHH
T ss_pred             hccccccCcHHHHHHHhhhhhhhcccccCCeEEecchHHHHHHHHhhhhhhhhhcc----ccCCccc--chhhHHHHHHh
Confidence            999999999999885444321   22389999999999999988 3      8888    9999887  79999999999


Q ss_pred             cccEEEeecCCCCCCcceEEEEeeCCCCCHHHHHHHHHHHHHHHHhcCCCCCCCCCC-ceeEEEEEcCCCCCceEe
Q psy16349        245 TGIKYSMKKDPQEQDFGYSDFHIGRLDMSQEQLEDNLKRILADISTMKPPSKPEDED-FITRILLWSEPSPEKFKL  319 (351)
Q Consensus       245 ~gi~~r~~k~~~~~~~G~I~v~IGkl~m~~eqL~eNi~avl~~V~~~~p~~~~~kg~-fI~~v~LsSTmGpe~i~I  319 (351)
                      +|+.|+.++      .|+++++||+++|+++||.|||.+++++|.+.+|     +|. ||+++|||||||| |++|
T Consensus       148 ~~~~~~~~~------~~~i~~~IG~~~m~~e~i~eNi~a~~~~i~~~~p-----kg~~~Ik~v~lssTmgp-~~~i  211 (212)
T d1i2aa_         148 KTVVINTRD------KPYFQVLVGNEKMTDEQIVDNIEAVLNVVAKKYE-----KGLYHIKDAYVKLTMGP-AVKV  211 (212)
T ss_dssp             TEEEEECTT------SSEEEEEEEETTSCHHHHHHHHHHHHHHHHHHST-----TGGGGEEEEEEEETTSC-CEEC
T ss_pred             cceeeeecC------CceEEEeeeeccCCHHHHHHHHHHHHHHHHhhCc-----CCceeEEEEEEECCCCC-CEec
Confidence            999999988      8999999999999999999999999999999998     555 6999999999999 9987