Citrus Sinensis ID: 014066

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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-------360-------370-------380-------390-------400-------410-------420-------430-
Protein Sequence
MVTTVAPPLSLPPSAGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAVPDLKLKIEGVKENEGEGQDKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMDSTIGEVLDEDELGSDDDGEGDVGESEDGEDSEDGKMSSGDILGKKRKKGDKERAQKLPKKVAKVKKDELSSDMKNEDVGKQKKQKKVGLSLKNDEEKSSGKEKKKSMLGKVKKEKKKLVA
Secondary Structure (PSIPRED)
ccccccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccEEEEEEEEEEccccccccEEEEEccccccccccccccEEEEEEcccccccHHHHHHHHHHHcccccccccccHHHHHHHcccHHHHHHHHHHccEEEEcccccccccccccccccccccccEEccccccHHHHHHHHHHcccEEEcccccEEEEEEEcccccHHHHHHHHHHHHHHHHHHcccccccEEEEEEEccccccccEEEcccccHHHHcccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccHHcccccEEEEEEEEEEcccccccccEEEEccccccccccccccEEEEEEcccccccHHHHHHHHHHHHcccccEEEEcHHHHHHHccHHHHHHHHHHcccEEEccHHHHHHHHHHHcHHHHccccccEEEEcccccHHHHHHHHHHcEEEEEccccEEEEEEEcccccHHHHHHHHHHHHHHHHHHcccccccEEEEEEEcccccccEEEEcccccccEEccEccccccccccccccccHHccccccccEEEEcccccEEEEEEcccccHHHccccccccccccccccccccccccHHHHHcccccccccccccccccHHccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mvttvapplslppsagsrvspkTVERAVKALLKWLKsnsqtqkpqlleqDDFVYLILTLkkipqvsrtnafkiplphsllgndsdnppeiclimddrpksnltkDAVMKKIkndnlpitKVIKITKlktdyrpfeakrklcdsydifladkrvvpllpkllgkhffkkkkipvpvdlkhqNWKEQIEKVCGSALLYLrtgtcsvlkvgkvsmgaEDIAENVIAAINGVaeivprkwgnvRSFHLKLLESlalpvyqavpdlklkiegvkenegegqdkdsekenaedvndhgskkklkkkkgrihEVRYMdstigevldedelgsdddgegdvgesedgedsedgkmssgdilgkkrkkgdKERAQKLPKKVAKVKKDelssdmknedvgkqkkqkkvglslkndeekssgkekKKSMLGKVKKEKKKLVA
Flexible Loop (DISEMBL)
mvttvapplslppsagsrvspkTVERAVKALLKWLksnsqtqkpqlleQDDFVYLILTLKkipqvsrtNAFKIplphsllgndsdnpPEICLIMDDRPKSNLTKDAVmkkikndnlpitkvikitklktdyrpfeakrKLCDSYDIFLADKRVVPLLPKLlgkhffkkkkipvpvdlkhqnWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAVPDLKLKIEGVkenegegqdkdsekenaedvndhgskkklkkkkgrihevrymdstigevldedelgsdddGEGDvgesedgedsedgkmssgdilgkkrkkgdkeraqklpkkvakvkkdelssdmknedvgkqkkqkkvglslkndeekssgkekkksmlgkvkkekkklva
Low Complexity Region (SEG)
MvttvapplslppsaGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPitkvikitklktDYRPFEAKRKLCDSYDIFLADKRVVpllpkllgkhffkkkkipvpVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAVPDLKLKIEGVKENEGEGQDKDSEKENAEDVNDHGSkkklkkkkGRIHEVRYMDSTIgevldedelgsdddgegdvgesedgedsedgkmssgdILGKKRKKGDKERAQklpkkvakvkkDELSSDMKNEDvgkqkkqkkvgLSLKNDeekssgkekkksmlgkvkkekkklvA
Disordered region (IsUnstruct)
***************************VKALLKWL**********LLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLL*********ICLIM***********AVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAVPDLKLKI**********************************************************************************************************************************************************************
Disordered Region (DISOPRED)
************************ERAVKAL*******************DFVYLILTLKKIPQV*****FKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAVPDL**************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
**********************TVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAVPDLKLKIEGVKE********************************RIHEVRYMDSTIGEVLDEDE***************************GDIL******************************************************************************
Disordered Region (DISPRO)
******************VSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAVPDLKLKIEGVKE**********************SKKKLKKKKGRIHEVRYMDST**********************************************************************************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVTTVAPPLSLPPSAGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAVPDLKLKIEGVKENEGEGQDKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMDSTIGEVLDEDELGSDDDGEGDVGESEDGEDSEDGKMSSGDILGKKRKKGDKERAQKLPKKVAKVKKDELSSDMKNEDVGKQKKQKKVGLSLKNDEEKSSGKEKKKSMLGKVKKEKKKLVA
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	431	2.2.26 [Sep-21-2011]
Q5RCE6	490	Ribosomal L1 domain-conta	yes	no	0.907	0.797	0.279	4e-32
O76021	490	Ribosomal L1 domain-conta	yes	no	0.907	0.797	0.279	4e-32
A4FV97	482	Ribosomal L1 domain-conta	yes	no	0.529	0.473	0.322	3e-31
Q9UT32	373	Putative ribosome biogene	yes	no	0.494	0.571	0.371	3e-28
Q9Y7R7	284	Putative ribosome biogene	no	no	0.533	0.809	0.267	5e-17
Q9VLK2	681	Ribosomal L1 domain-conta	yes	no	0.457	0.289	0.286	5e-12
Q9VTP4	217	60S ribosomal protein L10	no	no	0.234	0.465	0.346	4e-09
Q963B6	217	60S ribosomal protein L10	N/A	no	0.232	0.460	0.330	2e-08
P53028	214	60S ribosomal protein L10	N/A	no	0.243	0.490	0.254	7e-08
Q4R5P3	217	60S ribosomal protein L10	N/A	no	0.234	0.465	0.264	4e-07

>sp|Q5RCE6|RL1D1_PONAB Ribosomal L1 domain-containing protein 1 OS=Pongo abelii GN=RSL1D1 PE=2 SV=2

 Score =  139 bits (350), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 122/437 (27%), Positives = 215/437 (49%), Gaps = 46/437 (10%)

Query: 3   TTVAPPLSLPPSAGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI 62
           T+ + P +  P+A  ++  + V +AV ALL   KS  +     LL +++ ++L++ L KI
Sbjct: 17  TSTSTPAA--PTARKQLDKEQVRKAVDALLTHCKSR-KNNYGLLLNENESLFLMVVLWKI 73

Query: 63  PQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTK-DAVMKKIKNDN--LPIT 119
           P  S+    ++ LPHS+  +  D    ICL   D P S   K +   +K+ N +    ++
Sbjct: 74  P--SKELRVRLTLPHSIRSDSED----ICLFTKDEPNSTPEKTEQFYRKLLNKHGIKTVS 127

Query: 120 KVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKH 179
           ++I +  LK +Y+ +EAK +L  S+D FL D R+  LLP L+G+HF+++KK+PV V+L  
Sbjct: 128 QIISLQTLKKEYKSYEAKLRLLSSFDFFLTDARIRRLLPSLIGRHFYQRKKVPVSVNLLS 187

Query: 180 QNWKEQIEKVCGSALLYL-RTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGN 238
           +N   +I    G  +L + ++G+CS +++G V M  E I EN++A   G++E +P KW +
Sbjct: 188 KNLSREINDCIGGTVLNISKSGSCSAIRIGHVGMQIEHIIENIVAVTKGLSEKLPEKWES 247

Query: 239 VRSFHLKLLESLALPVYQAVPDLKLKIEGVKENEGEGQDKDSEKENAEDVNDHGSKKKLK 298
           V+   +K  +S ALP++ +             N  E   +    +  ++      ++  +
Sbjct: 248 VKLLFVKTEKSAALPIFSSFVS----------NWDEATKRSLLNKKKKEARRKRRERNFE 297

Query: 299 KKKGRIHEVRYMDSTIGEVLDEDELGSDDDGEGDV--GESEDGEDSEDGKMSSGDILGKK 356
           K+K R  + +    T   VL +D++   + G+  V   ES+  +  E GK   G   GK 
Sbjct: 298 KQKERKKKRQQARKT-ASVLSKDDVA-PESGDTTVKKPESKKEQTPEHGKKKRGR--GKA 353

Query: 357 RKKGDKERAQKLPKKV-----------------AKVKKDELSSDMKNEDVGKQKKQKKVG 399
           + K   E   ++P+ V                 A  KK    S   +   GK++K     
Sbjct: 354 QVKATNESEDEIPQLVPIGKKTPANEKVEIQKHATGKKSPAKSPNPSTPRGKKRKALPAS 413

Query: 400 LSLKNDEEKSSGKEKKK 416
            + K  E ++ GK  +K
Sbjct: 414 ETPKAAESETPGKSPEK 430

Pongo abelii (taxid: 9601)

>sp|O76021|RL1D1_HUMAN Ribosomal L1 domain-containing protein 1 OS=Homo sapiens GN=RSL1D1 PE=1 SV=3

 Score =  139 bits (350), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 122/437 (27%), Positives = 215/437 (49%), Gaps = 46/437 (10%)

Query: 3   TTVAPPLSLPPSAGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI 62
           T+ + P +  P+A  ++  + V +AV ALL   KS  +     LL +++ ++L++ L KI
Sbjct: 17  TSTSTPAA--PTARKQLDKEQVRKAVDALLTHCKSR-KNNYGLLLNENESLFLMVVLWKI 73

Query: 63  PQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTK-DAVMKKIKNDN--LPIT 119
           P  S+    ++ LPHS+  +  D    ICL   D P S   K +   +K+ N +    ++
Sbjct: 74  P--SKELRVRLTLPHSIRSDSED----ICLFTKDEPNSTPEKTEQFYRKLLNKHGIKTVS 127

Query: 120 KVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKH 179
           ++I +  LK +Y+ +EAK +L  S+D FL D R+  LLP L+G+HF+++KK+PV V+L  
Sbjct: 128 QIISLQTLKKEYKSYEAKLRLLSSFDFFLTDARIRRLLPSLIGRHFYQRKKVPVSVNLLS 187

Query: 180 QNWKEQIEKVCGSALLYL-RTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGN 238
           +N   +I    G  +L + ++G+CS +++G V M  E I EN++A   G++E +P KW +
Sbjct: 188 KNLSREINDCIGGTVLNISKSGSCSAIRIGHVGMQIEHIIENIVAVTKGLSEKLPEKWES 247

Query: 239 VRSFHLKLLESLALPVYQAVPDLKLKIEGVKENEGEGQDKDSEKENAEDVNDHGSKKKLK 298
           V+   +K  +S ALP++ +             N  E   +    +  ++      ++  +
Sbjct: 248 VKLLFVKTEKSAALPIFSSFVS----------NWDEATKRSLLNKKKKEARRKRRERNFE 297

Query: 299 KKKGRIHEVRYMDSTIGEVLDEDELGSDDDGEGDV--GESEDGEDSEDGKMSSGDILGKK 356
           K+K R  + +    T   VL +D++   + G+  V   ES+  +  E GK   G   GK 
Sbjct: 298 KQKERKKKRQQARKT-ASVLSKDDVA-PESGDTTVKKPESKKEQTPEHGKKKRGR--GKA 353

Query: 357 RKKGDKERAQKLPKKV-----------------AKVKKDELSSDMKNEDVGKQKKQKKVG 399
           + K   E   ++P+ V                 A  KK    S   +   GK++K     
Sbjct: 354 QVKATNESEDEIPQLVPIGKKTPANEKVEIQKHATGKKSPAKSPNPSTPRGKKRKALPAS 413

Query: 400 LSLKNDEEKSSGKEKKK 416
            + K  E ++ GK  +K
Sbjct: 414 ETPKAAESETPGKSPEK 430

Homo sapiens (taxid: 9606)

>sp|A4FV97|RL1D1_BOVIN Ribosomal L1 domain-containing protein 1 OS=Bos taurus GN=RSL1D1 PE=2 SV=1

 Score =  136 bits (342), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 77/239 (32%), Positives = 137/239 (57%), Gaps = 11/239 (4%)

Query: 24  VERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGND 83
           V++AV+ALL   +S        L E ++F +L++ L KIP  S+    ++ LPH +  + 
Sbjct: 34  VKKAVEALLAHSRSRKNANGLLLNENENF-FLMVVLWKIP--SKELRVRLSLPHGIRSDL 90

Query: 84  SDNPPEICLIMDDRPK-SNLTKDAVMKKIKNDN--LPITKVIKITKLKTDYRPFEAKRKL 140
           +D    +CL   D P  S+   +   KK+ N++    I+++I    LK +Y+ +EAK +L
Sbjct: 91  AD----VCLFTKDEPNLSSEQTERYYKKLLNNHGIKTISQIIPFRTLKKEYKAYEAKLRL 146

Query: 141 CDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYL-RT 199
             S+D F+ D R+  LLP  LG+HF+ +KK+PV V+L+ +    +I    G  +L + ++
Sbjct: 147 LGSFDFFITDARIRRLLPSHLGRHFYNRKKVPVSVNLQSKTLSREINDCIGGTVLNISKS 206

Query: 200 GTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAV 258
           G+CS +++G   M  + I ENV+A    +++ +P KW +V+   +K   S++LPV+ + 
Sbjct: 207 GSCSTIRIGHTGMPIQHIVENVVAVAKSLSQKLPEKWESVKLLFVKTERSVSLPVFSSF 265

Bos taurus (taxid: 9913)

>sp|Q9UT32|RL1DB_SCHPO Putative ribosome biogenesis protein C8F11.04 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC8F11.04 PE=3 SV=1

 Score =  126 bits (317), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 88/237 (37%), Positives = 139/237 (58%), Gaps = 24/237 (10%)

Query: 38  NSQTQKPQLLE--QDDF--VYLIL-TLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICL 92
           +S+++K  LLE  QDD   V+L L TLK I    +   +KI + + ++ + S    E CL
Sbjct: 34  DSESKKTNLLEDEQDDIEPVWLQLATLKFIGNNRKLIPYKIAIKNPVIPSSS----EACL 89

Query: 93  IMDD--RPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLAD 150
           I+ D  R   +L  +A + K+      +T+VI ++KLK  +  +E KR+L D +DIFLAD
Sbjct: 90  IVKDPQRVYKDLVNEAGLSKV------VTRVIGLSKLKAKWNSYEQKRQLRDQFDIFLAD 143

Query: 151 KRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQI--EKVCGSALLYLRTGTCS--VLK 206
            RV+P+LP++LGK F++K K+PVPV +  +   EQ+  E V      Y  +  CS  ++K
Sbjct: 144 DRVIPMLPRILGKTFYQKSKVPVPVKI-SKGTAEQLKREVVSAYGATYFNSAPCSSFMIK 202

Query: 207 VGKVSMGAEDIAENVIAAINGVA-EIVPRKWGNVRSFHLKLLESLALPVYQAVPDLK 262
            G VS  + ++AENV + +  V+  IVP     + S HLK  +S+A+P++   P+LK
Sbjct: 203 CGHVSNTSTELAENVESILQFVSKHIVPDGAKGIASIHLKTSQSIAIPLWNN-PNLK 258

Involved in rRNA-processing and ribosome biosynthesis.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q9Y7R7|RL1DA_SCHPO Putative ribosome biogenesis protein C306.07c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCC306.07c PE=3 SV=1

 Score = 89.4 bits (220), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 66/247 (26%), Positives = 128/247 (51%), Gaps = 17/247 (6%)

Query: 18  RVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPH 77
           ++  K +E+ ++ALL+ ++S   + KP  +E++     + T + + + S     K+ LPH
Sbjct: 16  KIDIKLLEKTIRALLQHIRS---SDKP--IEKEKVYIQVNTFQPVEKESLRRPSKVFLPH 70

Query: 78  SLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAK 137
            ++     +  + CLI+ D   S  T   ++++   D + ITKV+ I +LK  Y+    K
Sbjct: 71  RIM-----HVTDACLIVKD---SQQTYQDLVEQQGLDEV-ITKVLSIPRLKLKYKTIREK 121

Query: 138 RKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDL--KHQNWKEQIEKVCGSALL 195
            +L DS+++FL D RV+  +P L+GK F +KK  P P+ +  K +  + Q+ +   S  L
Sbjct: 122 CELRDSHNLFLVDDRVLKYIPLLMGKVFEQKKIKPFPISVLQKKETLRNQVARCLHSTYL 181

Query: 196 YLRTGTCSVLKVGKVSMGAEDIAENVIAAING-VAEIVPRKWGNVRSFHLKLLESLALPV 254
            L  GT   +  G  +   E + EN+   +   +   +P+ W  + +  +K  +S +LP+
Sbjct: 182 KLSAGTSHTILCGLATQTNEQLLENITTVLKCLLTNFIPKGWSAIDNVAIKTADSASLPI 241

Query: 255 YQAVPDL 261
           + +  +L
Sbjct: 242 WTSDTNL 248

Involved in rRNA-processing and ribosome biosynthesis.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|Q9VLK2|Y3096_DROME Ribosomal L1 domain-containing protein CG13096 OS=Drosophila melanogaster GN=CG13096 PE=1 SV=1

 Score = 72.8 bits (177), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 63/220 (28%), Positives = 99/220 (45%), Gaps = 23/220 (10%)

Query: 51  DFVYLI-LTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDR---------PKS 100
           D+ Y++ +   KIP   +    K+ L HSL+G D D    + LI+ D          P  
Sbjct: 300 DYRYVLQVCSYKIPSCPK-RMVKLNLKHSLVGKDDD----VALIVPDLQRGAKFDYDPTK 354

Query: 101 NLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKL 160
              +D + +      L    V+   +L+ +   FEAKRK  +SYD  L D R+       
Sbjct: 355 QHYEDMLREAGVKQRL---TVVPFNQLRNEMGSFEAKRKFLNSYDYLLCDGRLSGQATAF 411

Query: 161 LGKHFFKKKKIPVPVDLKHQNWK---EQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDI 217
           LGK+  K + +   + L   N K   E    +  +A   L  G    + VG   + AE +
Sbjct: 412 LGKNTQKPRNVLHSLRLSKDNDKLPQEVTRALTRTAFRQLSKGDLIAVPVGNHEITAEQL 471

Query: 218 AENVIAAINGVAEIVPRKWGNVRSFHLK--LLESLALPVY 255
           AEN++  I  + E+ P    N+RS +LK  +  + ALP+Y
Sbjct: 472 AENILLVIKQLQEVYPGGLANIRSMYLKIDITGTSALPLY 511

Drosophila melanogaster (taxid: 7227)

>sp|Q9VTP4|R10AB_DROME 60S ribosomal protein L10a-2 OS=Drosophila melanogaster GN=RpL10Ab PE=2 SV=2

 Score = 62.8 bits (151), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 36/104 (34%), Positives = 59/104 (56%), Gaps = 3/104 (2%)

Query: 143 SYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQ-NWKEQIEKVCGSALLYLRTGT 201
           SYD FLA + ++  +P+LLG    K  K P    L HQ +   +IE+V  +    ++   
Sbjct: 106 SYDAFLASESLIKQIPRLLGPGLNKAGKFPAL--LSHQESMIGKIEEVKSTIKFQMKKVL 163

Query: 202 CSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK 245
           C  + VG V M ++++A+NV  +IN +  ++ + W NVRS H+K
Sbjct: 164 CLSVAVGHVGMKSDELAQNVNLSINFLVSLLKKNWQNVRSLHVK 207

Drosophila melanogaster (taxid: 7227)

>sp|Q963B6|RL10A_SPOFR 60S ribosomal protein L10a OS=Spodoptera frugiperda GN=RpL10A PE=2 SV=1

 Score = 60.8 bits (146), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 34/103 (33%), Positives = 58/103 (56%), Gaps = 3/103 (2%)

Query: 144 YDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQ-NWKEQIEKVCGSALLYLRTGTC 202
           YD FLA + ++  +P+LLG    K  K P    L HQ +  ++I++V  +    ++   C
Sbjct: 107 YDAFLASESLIKQIPRLLGPGLNKAGKFPGL--LSHQESMTQKIDEVKATIKFQMKKVLC 164

Query: 203 SVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK 245
             + VG V M  +++A+NV  +IN +  ++ + W NVRS H+K
Sbjct: 165 LSVAVGHVDMTPDELAQNVHLSINFLVSLLKKHWQNVRSLHMK 207

Spodoptera frugiperda (taxid: 7108)

>sp|P53028|RL10A_TRYBR 60S ribosomal protein L10a OS=Trypanosoma brucei rhodesiense GN=RPL10A PE=2 SV=1

 Score = 58.9 bits (141), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 27/106 (25%), Positives = 59/106 (55%), Gaps = 1/106 (0%)

Query: 140 LCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYLRT 199
           +C+ YD FL  + ++  +P+L+G H  +  K P  V  ++++  +++ ++  +    L+ 
Sbjct: 100 MCNQYDAFLCSESIIKTVPRLVGPHMHRVGKFPT-VCAQNESLPDKVLELQSTVKFQLKK 158

Query: 200 GTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK 245
             C    VG V M  + + +NV+ AIN +  ++ + W N++S ++K
Sbjct: 159 VLCLGTCVGHVDMTEDQVRQNVVMAINFLVSLLKKNWQNLKSAYIK 204

Trypanosoma brucei rhodesiense (taxid: 31286)

>sp|Q4R5P3|RL10A_MACFA 60S ribosomal protein L10a OS=Macaca fascicularis GN=RPL10A PE=2 SV=3

 Score = 56.6 bits (135), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/102 (26%), Positives = 56/102 (54%), Gaps = 1/102 (0%)

Query: 144 YDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYLRTGTCS 203
           YD FLA + ++  +P++LG    K  K P P+   ++N   ++++V  +    ++   C 
Sbjct: 107 YDAFLASESLIKQIPRILGPGLNKAGKFPSPLT-HNENMVAKVDEVKSTIKFQMKRVLCL 165

Query: 204 VLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK 245
            + VG V M  +++  N+  A+N +  ++ + W NVR+ ++K
Sbjct: 166 AVAVGHVKMTDDELVYNIHLAVNFLVSLLKKNWQNVRALYIK 207

Macaca fascicularis (taxid: 9541)

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	431
297817178	422	hypothetical protein ARALYDRAFT_486318 [	0.758	0.774	0.608	1e-113
224134893	384	predicted protein [Populus trichocarpa]	0.821	0.921	0.590	1e-112
15231102	446	ribosomal protein L1p/L10e family protei	0.751	0.726	0.601	1e-110
449452340	364	PREDICTED: ribosomal L1 domain-containin	0.707	0.837	0.614	1e-102
449495830	364	PREDICTED: LOW QUALITY PROTEIN: ribosoma	0.707	0.837	0.614	1e-102
356528716	407	PREDICTED: ribosomal L1 domain-containin	0.730	0.773	0.560	1e-100
297824231	372	hypothetical protein ARALYDRAFT_903637 [	0.730	0.846	0.585	1e-99
356555162	408	PREDICTED: ribosomal L1 domain-containin	0.700	0.740	0.597	1e-98
15227974	372	Ribosomal protein .1/L10e family [Arabid	0.723	0.838	0.554	5e-97
224122306	249	predicted protein [Populus trichocarpa]	0.570	0.987	0.745	5e-97

>gi|297817178|ref|XP_002876472.1| hypothetical protein ARALYDRAFT_486318 [Arabidopsis lyrata subsp. lyrata] gi|297322310|gb|EFH52731.1| hypothetical protein ARALYDRAFT_486318 [Arabidopsis lyrata subsp. lyrata]

 Score =  415 bits (1067), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 204/335 (60%), Positives = 257/335 (76%), Gaps = 8/335 (2%)

Query: 1   MVTTVAPPLS-------LPPSAGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFV 53
           M T V+PP         +P S  SRVSP TV  A+  L KW    S+T+KPQLLEQD+ V
Sbjct: 1   MTTAVSPPPQEQTEQQLVPASQTSRVSPYTVGSALNGLTKWRSEKSKTEKPQLLEQDELV 60

Query: 54  YLILTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKN 113
           YLI +LKKIPQ SRTNA++IPLPH L+ N +++ PE+CLI+DDRPKS LTK  VMKKIK+
Sbjct: 61  YLIASLKKIPQTSRTNAYRIPLPHPLI-NPTEDSPELCLIIDDRPKSGLTKADVMKKIKS 119

Query: 114 DNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPV 173
           +N+PITKVIK++KLKTDY+ FEAKRKLCDSYD+F AD+R++PLLP+++GK FF  KKIPV
Sbjct: 120 ENIPITKVIKLSKLKTDYKAFEAKRKLCDSYDMFFADRRIIPLLPRVIGKKFFTSKKIPV 179

Query: 174 PVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVP 233
            +DLKH+NWK+QIEK CGSA+ ++RTGTCSV+KVGK+SM   +I ENV+A +NGV E++P
Sbjct: 180 AIDLKHKNWKQQIEKACGSAMFFIRTGTCSVIKVGKLSMELNEIIENVMATLNGVVELLP 239

Query: 234 RKWGNVRSFHLKLLESLALPVYQAVPDLKLKIEGVKENEGEGQDKDSEKENAEDVNDHGS 293
            KW  VRS HLKL ESLALP+YQ+VPDLKLKI+     +   +++   +  A D  +   
Sbjct: 240 NKWKYVRSLHLKLSESLALPIYQSVPDLKLKIDAFATGKSVVKEEKEGEVEAADGGEKSV 299

Query: 294 KKKLKKKKGRIHEVRYMDSTIGEVLDEDELGSDDD 328
             K KKKKGRIHEVRYMDS + EVLDEDE+G D+D
Sbjct: 300 TGKGKKKKGRIHEVRYMDSNVAEVLDEDEIGGDED 334

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134893|ref|XP_002321931.1| predicted protein [Populus trichocarpa] gi|222868927|gb|EEF06058.1| predicted protein [Populus trichocarpa]

 Score =  412 bits (1058), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 241/408 (59%), Positives = 288/408 (70%), Gaps = 54/408 (13%)

Query: 22  KTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQ--VSRTNAFKIPLPHSL 79
           KTVE+AV ALLKW  S   TQKPQLLEQD+F YLILTLKKIPQ  VSR NA KIPLP+SL
Sbjct: 15  KTVEKAVNALLKWRSSTLNTQKPQLLEQDEFFYLILTLKKIPQKGVSRINAHKIPLPNSL 74

Query: 80  LGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRK 139
           + N     PEICLI+DDRPKS L KDA  KKI+NDNLPI+K+IK++KLKTDYRPFEAKRK
Sbjct: 75  I-NPLIEAPEICLIIDDRPKSGLNKDAAKKKIQNDNLPISKIIKVSKLKTDYRPFEAKRK 133

Query: 140 LCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYLRT 199
           L DSYD+F ADKRVVPLLPK+LGK FFKKKKIPV +DLKH NWKEQI+K CGSALLYLR+
Sbjct: 134 LRDSYDMFFADKRVVPLLPKMLGKQFFKKKKIPVTLDLKHHNWKEQIDKACGSALLYLRS 193

Query: 200 GTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAVP 259
           GTCSV+KVG+VSM  E+IA+NV+AAING+A+IVPRKWG VRSFHLKLL+SLALPVYQ VP
Sbjct: 194 GTCSVVKVGRVSMSREEIAKNVMAAINGIADIVPRKWGGVRSFHLKLLDSLALPVYQVVP 253

Query: 260 DLKLKIEG-VKENEGEGQDKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMDSTIG--- 315
           D KLKI+G  KE E +      E+E A++        ++ KKKGRI EVRYMD+      
Sbjct: 254 DSKLKIDGGPKEQENDEGVVSVEEEKAKE-------GRVGKKKGRIQEVRYMDNNNNNND 306

Query: 316 -----EVLDEDELGSDDDGEGDVGESEDGEDSEDGKMSSGDILGKKRKKGDKERAQKLPK 370
                +V+DE ELGSDD+                                 K + +K  +
Sbjct: 307 NNGDGQVVDEVELGSDDN---------------------------------KGKGEKKEQ 333

Query: 371 KVAKVKKDE--LSSDMKNEDVGKQKKQKKVGLSLKNDEEKSSGKEKKK 416
           KVAK+KK++      +KNED  KQKK KK  L  ++   +  G++KK+
Sbjct: 334 KVAKLKKEDGVKQKKVKNEDGIKQKKLKKGSLVSESGGMQVRGEKKKR 381

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15231102|ref|NP_191425.1| ribosomal protein L1p/L10e family protein [Arabidopsis thaliana] gi|7630061|emb|CAB88283.1| putative protein [Arabidopsis thaliana] gi|17979349|gb|AAL49900.1| unknown protein [Arabidopsis thaliana] gi|332646291|gb|AEE79812.1| ribosomal protein L1p/L10e family protein [Arabidopsis thaliana]

 Score =  405 bits (1042), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 204/339 (60%), Positives = 255/339 (75%), Gaps = 15/339 (4%)

Query: 1   MVTTVAPPLSLPP--------SAGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDF 52
           M T V+PP   PP        S  SRVSPKTVE A+  L+ W    S+T+KPQLLE+D+ 
Sbjct: 1   MTTAVSPP---PPQEQQLVHASQTSRVSPKTVESALNGLINWRSDKSKTEKPQLLEEDEL 57

Query: 53  VYLILTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIK 112
           VYL +TLKKIPQ +RTNA++IPLPH L+ N + + PEICLI+DDRPKS LTKD  MKKIK
Sbjct: 58  VYLFVTLKKIPQKTRTNAYRIPLPHPLI-NPTVDSPEICLIIDDRPKSGLTKDDAMKKIK 116

Query: 113 NDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIP 172
           ++N+PITKVIK++KLK+DY+ FEAKRKLCDSYD+F  D+R++PLLP+++GK FF  KKIP
Sbjct: 117 SENIPITKVIKLSKLKSDYKAFEAKRKLCDSYDMFFTDRRIIPLLPRVIGKKFFTSKKIP 176

Query: 173 VPVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIV 232
           V +DLKH+NWK QIEK CGSA+ ++RTGTCSV+KVGK+SM   +I ENV+A +NG+ E +
Sbjct: 177 VALDLKHRNWKHQIEKACGSAMFFIRTGTCSVIKVGKLSMDICEITENVMATLNGLVEFL 236

Query: 233 PRKWGNVRSFHLKLLESLALPVYQAVPDLKLKIEGVKENEGEGQDKDSEKENAEDVNDHG 292
           P KW  VRS HLKL ESLALP+YQ+VPDLKLKI+     +   Q++   +       D G
Sbjct: 237 PNKWTYVRSLHLKLSESLALPIYQSVPDLKLKIDAFGSGKSVVQEEKEGEVEEVVAVDGG 296

Query: 293 SKK---KLKKKKGRIHEVRYMDSTIGEVLDEDELGSDDD 328
            K    K KKKKGRIHEVRYMDS + EVLDEDE+G D+D
Sbjct: 297 EKSVTGKGKKKKGRIHEVRYMDSNVAEVLDEDEIGGDED 335

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452340|ref|XP_004143917.1| PREDICTED: ribosomal L1 domain-containing protein 1-like isoform 1 [Cucumis sativus] gi|449452342|ref|XP_004143918.1| PREDICTED: ribosomal L1 domain-containing protein 1-like isoform 2 [Cucumis sativus]

 Score =  379 bits (974), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 193/314 (61%), Positives = 249/314 (79%), Gaps = 9/314 (2%)

Query: 17  SRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLP 76
           ++V  +T  +AV++LL+W   NS+ +KPQL +Q+DF+YLI+TLKKIP   RTN +KIPLP
Sbjct: 10  TKVRRETAAKAVESLLQW--RNSKREKPQLFDQEDFLYLIVTLKKIPPKGRTNPYKIPLP 67

Query: 77  HSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEA 136
           HSL  + S    E+CLI+DDR KSNLTKD   KKI+++N+PI+KVIK++KLK+DYRPFEA
Sbjct: 68  HSLHSDSS----ELCLIIDDRTKSNLTKDDARKKIQSENIPISKVIKLSKLKSDYRPFEA 123

Query: 137 KRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLY 196
           KRKLCDSYD+F AD RV+PLLP LLGKHF+KKKKIPVP++L+H+NWKEQ+E+ C S LLY
Sbjct: 124 KRKLCDSYDMFFADDRVIPLLPSLLGKHFYKKKKIPVPLNLRHKNWKEQVERSCSSGLLY 183

Query: 197 LRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQ 256
           LRTGTCSV+KV + SM  E+I +NVIAAI+G+AE+VP+KW NVRSF LK+LES+ALP+YQ
Sbjct: 184 LRTGTCSVVKVARTSMEVEEIVDNVIAAIDGIAEVVPKKWSNVRSFFLKVLESIALPIYQ 243

Query: 257 AVPDLKLKIE-GVKENEGEGQDKDSEKENAEDVN-DHGSKKKLKKKKGRIHEVRYMDSTI 314
            VP+LK KIE GVK  E E   ++   ++   V      ++KL KKKGRIHE+RYMD+  
Sbjct: 244 TVPELKFKIEAGVKGKEDEITKEEEAAKSPTPVKVGSKKERKLSKKKGRIHEIRYMDTNG 303

Query: 315 GEVLDEDELGSDDD 328
            E+ +EDE GSD D
Sbjct: 304 RELSNEDE-GSDLD 316

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449495830|ref|XP_004159957.1| PREDICTED: LOW QUALITY PROTEIN: ribosomal L1 domain-containing protein 1-like [Cucumis sativus]

 Score =  379 bits (973), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 193/314 (61%), Positives = 249/314 (79%), Gaps = 9/314 (2%)

Query: 17  SRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLP 76
           ++V  +T  +AV++LL+W   NS+ +KPQL +Q+DF+YLI+TLKKIP   RTN +KIPLP
Sbjct: 10  TKVRRETAAKAVESLLQW--RNSKREKPQLFDQEDFLYLIVTLKKIPPKGRTNPYKIPLP 67

Query: 77  HSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEA 136
           HSL  + S    E+CLI+DDR KSNLTKD   KKI+++N+PI+KVIK++KLK+DYRPFEA
Sbjct: 68  HSLHSDSS----ELCLIIDDRTKSNLTKDDARKKIQSENIPISKVIKLSKLKSDYRPFEA 123

Query: 137 KRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLY 196
           KRKLCDSYD+F AD RV+PLLP LLGKHF+KKKKIPVP++L+H+NWKEQ+E+ C S LLY
Sbjct: 124 KRKLCDSYDMFFADDRVIPLLPSLLGKHFYKKKKIPVPLNLRHKNWKEQVERSCSSGLLY 183

Query: 197 LRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQ 256
           LRTGTCSV+KV + SM  E+I +NVIAAI+G+AE+VP+KW NVRSF LK+LES+ALP+YQ
Sbjct: 184 LRTGTCSVVKVARTSMEVEEIVDNVIAAIDGIAEVVPKKWSNVRSFXLKVLESIALPIYQ 243

Query: 257 AVPDLKLKIE-GVKENEGEGQDKDSEKENAEDVN-DHGSKKKLKKKKGRIHEVRYMDSTI 314
            VP+LK KIE GVK  E E   ++   ++   V      ++KL KKKGRIHE+RYMD+  
Sbjct: 244 TVPELKFKIEAGVKGKEDEITKEEEAAKSPTPVKVGSKKERKLSKKKGRIHEIRYMDTNG 303

Query: 315 GEVLDEDELGSDDD 328
            E+ +EDE GSD D
Sbjct: 304 RELSNEDE-GSDLD 316

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356528716|ref|XP_003532945.1| PREDICTED: ribosomal L1 domain-containing protein 1-like [Glycine max]

 Score =  373 bits (957), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 195/348 (56%), Positives = 245/348 (70%), Gaps = 33/348 (9%)

Query: 15  AGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDD-FVYLILTLKKIPQVSRTNAFKI 73
           A   VS  TV +AV ALLKW +S S+T KP+L ++D+ +VYLILTLKKIP  SR N  KI
Sbjct: 2   ASENVSTDTVSKAVDALLKWRRSQSETLKPKLFDEDEEYVYLILTLKKIPSKSRVNPHKI 61

Query: 74  PLPHSLLGNDSDNPPEICLIMDDRP-KSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYR 132
           PLPHSL    S+     CLI+DDRP K+ +TK     +I+++++P+ K++K++KL +DYR
Sbjct: 62  PLPHSLFSPFSEQ----CLILDDRPNKARVTKAQAQARIQSESIPVNKILKLSKLASDYR 117

Query: 133 PFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGS 192
           PFEAKRKLCDSYD+F A+K +VPLLP+LLGK FFKK+KIPVPVDLK  NWKEQ+EK C S
Sbjct: 118 PFEAKRKLCDSYDLFFAEKSIVPLLPRLLGKSFFKKRKIPVPVDLKKGNWKEQVEKACSS 177

Query: 193 ALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLAL 252
           A+L++RTGTCSV++V KV M  ++I ENV+AAI G  E+VP+KWGNVRS HLKLLESLAL
Sbjct: 178 AMLFMRTGTCSVVRVAKVRMERDEIVENVVAAIEGAVEVVPKKWGNVRSLHLKLLESLAL 237

Query: 253 PVYQAVPDLKLKIEGVKENEGEGQDKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMDS 312
           PVYQ VPD+KLKI+G K  EG       +K   ++ +  G     KKKKGRIHEVRYMD 
Sbjct: 238 PVYQTVPDVKLKIDGFKVEEG-ATTTTKKKNETKEKDSEGEVSDSKKKKGRIHEVRYMDE 296

Query: 313 TIGEVLDEDELGSDDDGEGDVGESEDGEDSEDGKMSSGDILGKKRKKG 360
                  ED+L SDD        SED            +++ KKRKKG
Sbjct: 297 I------EDQLASDD--------SED------------EMVSKKRKKG 318

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297824231|ref|XP_002879998.1| hypothetical protein ARALYDRAFT_903637 [Arabidopsis lyrata subsp. lyrata] gi|297325837|gb|EFH56257.1| hypothetical protein ARALYDRAFT_903637 [Arabidopsis lyrata subsp. lyrata]

 Score =  369 bits (948), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 192/328 (58%), Positives = 254/328 (77%), Gaps = 13/328 (3%)

Query: 17  SRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLP 76
           SRVSPKTV+ AVKAL+K     S+T+KP LLE+D+F YL++ LKKIPQ + TNA++IPLP
Sbjct: 2   SRVSPKTVDDAVKALVKEGNKKSKTEKPHLLEEDEFFYLVVALKKIPQRNFTNAYRIPLP 61

Query: 77  HSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEA 136
           H L+    D+P E+CLI+DDR +S LTK+  MKKIK +N+PITKV+K+++LK+DY  FE+
Sbjct: 62  HPLISTTEDSP-ELCLIIDDRSESGLTKEDAMKKIKLENIPITKVVKVSELKSDYGSFES 120

Query: 137 KRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLY 196
           KRKLCDSYD+F +D+RV+PLLP+L+GK+FF +KKIPV +DLKH+NWKEQIEK CG+A+ +
Sbjct: 121 KRKLCDSYDMFFSDRRVIPLLPRLIGKNFFLRKKIPVAIDLKHRNWKEQIEKACGAAMFF 180

Query: 197 LRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQ 256
           +RTGTCSV+KV K+SM +++IAENV+A +NGV +++P KW  +RS HLKL ESLALP+YQ
Sbjct: 181 MRTGTCSVIKVAKLSMESDEIAENVMATLNGVVDVLPSKWKYIRSLHLKLSESLALPLYQ 240

Query: 257 AVPDLKLKIE--GVKE-NEGEGQDKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMDST 313
            VP LKLKI+  GV+E   GE      E   ++DV+D     K KKKKGRIHEVRYMDS 
Sbjct: 241 TVPYLKLKIDPSGVEEVRNGE------ELVKSDDVDDSSKSVKTKKKKGRIHEVRYMDSN 294

Query: 314 IGEVLDEDELGSD---DDGEGDVGESED 338
           + E L ED++  +   D+  GD+  S D
Sbjct: 295 VSETLGEDKIEKNVEQDEVTGDLKGSGD 322

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356555162|ref|XP_003545905.1| PREDICTED: ribosomal L1 domain-containing protein 1-like [Glycine max]

 Score =  366 bits (939), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 187/313 (59%), Positives = 240/313 (76%), Gaps = 11/313 (3%)

Query: 15  AGSRVSPKTVERAVKALLKWLKSNSQTQKPQLL-EQDDFVYLILTLKKIPQVSRTNAFKI 73
           A   VSP+TV +AV ALL+W +S S+ QKP+LL E ++FVYLILTLKKIP  SR N  KI
Sbjct: 2   ASENVSPETVSKAVDALLQWRRSQSEIQKPKLLGEDEEFVYLILTLKKIPSKSRVNPHKI 61

Query: 74  PLPHSLLGNDSDNPPEICLIMDDRP-KSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYR 132
           PLPHSL+   S+     CLI+DDRP K+ +TK     KI+++++P+ KV+K++KL +DYR
Sbjct: 62  PLPHSLISPFSEQ----CLILDDRPNKARVTKAQAQAKIQSESIPVHKVLKLSKLASDYR 117

Query: 133 PFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGS 192
           PFEAKRKLCDSYD+F A+K +VPLLP+LLGK FFKK+KIPVPVDLK  +WKEQ+E+ C S
Sbjct: 118 PFEAKRKLCDSYDLFFAEKSIVPLLPRLLGKSFFKKRKIPVPVDLKKGSWKEQVERACSS 177

Query: 193 ALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLAL 252
           A+L++RTGTCSV++V KV M  ++I ENV+AAI G+ E+VP+KWGNVRS HLKLLES+AL
Sbjct: 178 AMLFMRTGTCSVVRVAKVRMERDEIVENVVAAIEGIVEVVPKKWGNVRSLHLKLLESVAL 237

Query: 253 PVYQAVPDLKLKIEGV-KENEGEGQDKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMD 311
           PVYQ VPD+KLKIEG   E +   +++D E  ++ +    G  +K KKKKGRIHEVRYMD
Sbjct: 238 PVYQTVPDVKLKIEGFKVEEKKNEKERDGEVSDSIE----GGTEKKKKKKGRIHEVRYMD 293

Query: 312 STIGEVLDEDELG 324
             + E   EDEL 
Sbjct: 294 ENVVEAGMEDELA 306

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15227974|ref|NP_181793.1| Ribosomal protein .1/L10e family [Arabidopsis thaliana] gi|20198075|gb|AAM15385.1| hypothetical protein [Arabidopsis thaliana] gi|61742675|gb|AAX55158.1| hypothetical protein At2g42650 [Arabidopsis thaliana] gi|330255057|gb|AEC10151.1| Ribosomal protein .1/L10e family [Arabidopsis thaliana]

 Score =  361 bits (926), Expect = 5e-97,   Method: Compositional matrix adjust.
 Identities = 182/328 (55%), Positives = 245/328 (74%), Gaps = 16/328 (4%)

Query: 17  SRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLP 76
           SRVSPKTV+ AVKAL+K     S+T+KPQLLE+D F YL++ LKKIPQ + TNA++IPLP
Sbjct: 2   SRVSPKTVDDAVKALVKEGNEKSRTEKPQLLEEDGFFYLVVALKKIPQRNFTNAYRIPLP 61

Query: 77  HSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEA 136
           H L+ N +++ PE+CLI+DDRP+S LT++   K IK++N+PITKV+K++KLK+DY  FE+
Sbjct: 62  HPLI-NTTEDSPELCLIIDDRPESGLTEEDAKKNIKSENIPITKVVKLSKLKSDYGSFES 120

Query: 137 KRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLY 196
           KRKLCDSYD+F +D+RV+P+LPKL+GK FF+ KK PV +DLKH NWKEQIEK CG+A+ +
Sbjct: 121 KRKLCDSYDMFFSDRRVIPMLPKLIGKKFFQSKKTPVAIDLKHMNWKEQIEKACGAAMFF 180

Query: 197 LRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQ 256
           +RTG+CS +KV K+SM ++DI ENV A +NGV +++P +W  +RS HLKL ESL+LP+YQ
Sbjct: 181 MRTGSCSAIKVAKLSMESDDIVENVTATLNGVVDVLPSRWKYIRSLHLKLSESLSLPLYQ 240

Query: 257 AVPDLKLKIE--GVKE-NEGEGQDKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMDST 313
            VP L+LKI+  GV+E   GEG  K    +++          K KKK G+IHEVRYMDS 
Sbjct: 241 TVPYLQLKIDPLGVEEVKNGEGLAKSDVDDSSS------KSVKTKKKNGKIHEVRYMDSN 294

Query: 314 IGEVLDEDELGSDDDGEGDVGESEDGED 341
           + E L +DE       +  VGE E  +D
Sbjct: 295 VSETLGDDEF------DRSVGEDEVADD 316

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122306|ref|XP_002318802.1| predicted protein [Populus trichocarpa] gi|222859475|gb|EEE97022.1| predicted protein [Populus trichocarpa]

 Score =  360 bits (925), Expect = 5e-97,   Method: Compositional matrix adjust.
 Identities = 187/251 (74%), Positives = 214/251 (85%), Gaps = 5/251 (1%)

Query: 10  SLPPSAGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQ--VSR 67
           +LP  +G   SPKTVE+AV ALLKW  S   TQKPQLLE D+FVYLILTLKKIP   VSR
Sbjct: 2   ALPTPSG--FSPKTVEKAVNALLKWRSSKLNTQKPQLLEHDEFVYLILTLKKIPHKGVSR 59

Query: 68  TNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKL 127
            NA KIPLP  L  N     PE+CLI+DDRPKS L KDA  KKI+NDN+PI+K+IKI+KL
Sbjct: 60  INAHKIPLPCPL-TNPLTEAPELCLIIDDRPKSGLNKDAAKKKIQNDNIPISKIIKISKL 118

Query: 128 KTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIE 187
           KTDYRPFEAKRKLCDSYD+F ADKRVVPLLPK+LGK FFKKKKIP+ +DLKHQNWKEQI+
Sbjct: 119 KTDYRPFEAKRKLCDSYDMFFADKRVVPLLPKMLGKQFFKKKKIPMTLDLKHQNWKEQID 178

Query: 188 KVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLL 247
           K CGSALL+LRTGTCSV+KVG++SM  E+I++NV+AAING+AEIVPRKWG +RSFHLKLL
Sbjct: 179 KACGSALLFLRTGTCSVVKVGRISMSREEISKNVMAAINGIAEIVPRKWGGIRSFHLKLL 238

Query: 248 ESLALPVYQAV 258
           +SLALPVYQAV
Sbjct: 239 DSLALPVYQAV 249

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	431
TAIR|locus:2098979	446	AT3G58660 [Arabidopsis thalian	0.689	0.665	0.534	1.2e-81
TAIR|locus:2041554	372	AT2G42650 [Arabidopsis thalian	0.672	0.779	0.503	4.5e-75
TAIR|locus:2202260	254	AT1G06380 [Arabidopsis thalian	0.552	0.937	0.471	9.3e-59
UNIPROTKB|F1N8V1	430	RSL1D1 "Uncharacterized protei	0.628	0.630	0.284	3.9e-28
UNIPROTKB|O76021	490	RSL1D1 "Ribosomal L1 domain-co	0.540	0.475	0.286	1.4e-22
UNIPROTKB|J3QSV6	430	RSL1D1 "Ribosomal L1 domain-co	0.538	0.539	0.282	2.3e-21
UNIPROTKB|E2R7S5	490	RSL1D1 "Uncharacterized protei	0.589	0.518	0.268	3e-21
UNIPROTKB|I3LG73	487	RSL1D1 "Uncharacterized protei	0.598	0.529	0.25	1.1e-20
UNIPROTKB|A4FV97	482	RSL1D1 "Ribosomal L1 domain-co	0.575	0.514	0.243	1.6e-19
UNIPROTKB|Q1PG84	465	Rsl1d1 "PBK1" [Mus musculus do	0.526	0.488	0.253	6.7e-19

TAIR|locus:2098979 AT3G58660 [Arabidopsis thaliana (taxid:3702)]

 Score = 819 (293.4 bits), Expect = 1.2e-81, P = 1.2e-81
 Identities = 161/301 (53%), Positives = 203/301 (67%)

Query:    17 SRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLP 76
             SRVSPKTVE A+  L+ W    S+T+KPQLLE+D+ VYL +TLKKIPQ +RTNA++IPLP
Sbjct:    22 SRVSPKTVESALNGLINWRSDKSKTEKPQLLEEDELVYLFVTLKKIPQKTRTNAYRIPLP 81

Query:    77 HSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPXXXXXXXXXXXXDYRPFEA 136
             H L+ N + + PEICLI+DDRPKS LTKD  MKKIK++N+P            DY+ FEA
Sbjct:    82 HPLI-NPTVDSPEICLIIDDRPKSGLTKDDAMKKIKSENIPITKVIKLSKLKSDYKAFEA 140

Query:   137 KRKLCDSYDIFLADKRVVXXXXXXXXXXXXXXXXXXXXVDLKHQNWKEQIEKVCGSALLY 196
             KRKLCDSYD+F  D+R++                    +DLKH+NWK QIEK CGSA+ +
Sbjct:   141 KRKLCDSYDMFFTDRRIIPLLPRVIGKKFFTSKKIPVALDLKHRNWKHQIEKACGSAMFF 200

Query:   197 LRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQ 256
             +RTGTCSV+KVGK+SM   +I ENV+A +NG+ E +P KW  VRS HLKL ESLALP+YQ
Sbjct:   201 IRTGTCSVIKVGKLSMDICEITENVMATLNGLVEFLPNKWTYVRSLHLKLSESLALPIYQ 260

Query:   257 AVPDLKLKIEGVKENEGEGQD-KDSEKEN--AEDVNDHGSXXXXXXXXGRIHEVRYMDST 313
             +VPDLKLKI+     +   Q+ K+ E E   A D  +           GRIHEVRYMDS 
Sbjct:   261 SVPDLKLKIDAFGSGKSVVQEEKEGEVEEVVAVDGGEKSVTGKGKKKKGRIHEVRYMDSN 320

Query:   314 I 314
             +
Sbjct:   321 V 321

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

GO:0006164 "purine nucleotide biosynthetic process" evidence=RCA

GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA

TAIR|locus:2041554 AT2G42650 [Arabidopsis thaliana (taxid:3702)]

 Score = 757 (271.5 bits), Expect = 4.5e-75, P = 4.5e-75
 Identities = 152/302 (50%), Positives = 203/302 (67%)

Query:    17 SRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLP 76
             SRVSPKTV+ AVKAL+K     S+T+KPQLLE+D F YL++ LKKIPQ + TNA++IPLP
Sbjct:     2 SRVSPKTVDDAVKALVKEGNEKSRTEKPQLLEEDGFFYLVVALKKIPQRNFTNAYRIPLP 61

Query:    77 HSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPXXXXXXXXXXXXDYRPFEA 136
             H L+ N +++ PE+CLI+DDRP+S LT++   K IK++N+P            DY  FE+
Sbjct:    62 HPLI-NTTEDSPELCLIIDDRPESGLTEEDAKKNIKSENIPITKVVKLSKLKSDYGSFES 120

Query:   137 KRKLCDSYDIFLADKRVVXXXXXXXXXXXXXXXXXXXXVDLKHQNWKEQIEKVCGSALLY 196
             KRKLCDSYD+F +D+RV+                    +DLKH NWKEQIEK CG+A+ +
Sbjct:   121 KRKLCDSYDMFFSDRRVIPMLPKLIGKKFFQSKKTPVAIDLKHMNWKEQIEKACGAAMFF 180

Query:   197 LRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQ 256
             +RTG+CS +KV K+SM ++DI ENV A +NGV +++P +W  +RS HLKL ESL+LP+YQ
Sbjct:   181 MRTGSCSAIKVAKLSMESDDIVENVTATLNGVVDVLPSRWKYIRSLHLKLSESLSLPLYQ 240

Query:   257 AVPDLKLKIE--GVKE-NEGEGQDKDSEKENAEDVNDHGSXXXXXXXX-GRIHEVRYMDS 312
              VP L+LKI+  GV+E   GEG  K        DV+D  S         G+IHEVRYMDS
Sbjct:   241 TVPYLQLKIDPLGVEEVKNGEGLAKS-------DVDDSSSKSVKTKKKNGKIHEVRYMDS 293

Query:   313 TI 314
              +
Sbjct:   294 NV 295

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

TAIR|locus:2202260 AT1G06380 [Arabidopsis thaliana (taxid:3702)]

 Score = 603 (217.3 bits), Expect = 9.3e-59, P = 9.3e-59
 Identities = 114/242 (47%), Positives = 165/242 (68%)

Query:    17 SRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLP 76
             S+V P+ V RAVK+LLKW  S S+T+  + LE D FVYLI+TLK+IPQ+ RTN   IPLP
Sbjct:    16 SKVDPQNVNRAVKSLLKWWDSKSKTENSESLENDGFVYLIVTLKRIPQLDRTNPLMIPLP 75

Query:    77 HSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPXXXXXXXXXXXXDYRPFEA 136
             H L+   +++PPE+CLI+DD+ K+ +TK+A +KKI+ + +P            D R  E 
Sbjct:    76 HPLIDLVAEDPPELCLIIDDKHKNKITKEAALKKIEAEKIPITTVIKVSKLKSDLRKLEE 135

Query:   137 KRKLCDSYDIFLADKRVVXXXXXXXXXXXXXXXXXXXXVDLKHQNWKEQIEKVCGSALLY 196
             +++    ++++ A++R++                    ++L+H +WKEQIEK C SAL +
Sbjct:   136 EKR----FELYFAERRLMPMLPKLLGKEFVKKNKTPIAINLRHGSWKEQIEKACESALFF 191

Query:   197 LRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQ 256
             + TGTCSV+KV K+SMG  +IAENV+AA+NG+ ++VP +W NV+ FHLKLLESLALPVYQ
Sbjct:   192 VGTGTCSVVKVAKLSMGRNEIAENVVAAMNGIGDLVPGRWKNVKLFHLKLLESLALPVYQ 251

Query:   257 AV 258
             +V
Sbjct:   252 SV 253

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

GO:0006412 "translation" evidence=IEA

GO:0015934 "large ribosomal subunit" evidence=IEA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

UNIPROTKB|F1N8V1 RSL1D1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 314 (115.6 bits), Expect = 3.9e-28, P = 3.9e-28
 Identities = 83/292 (28%), Positives = 147/292 (50%)

Query:    24 VERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGND 83
             V +AV+ALL + +S ++     LL +++ V+L++T+ KIP+V++    KIPLPH +    
Sbjct:     4 VRKAVEALLAFARSKAKGDA-LLLNENESVHLLVTVWKIPRVAQV--IKIPLPHGIRAET 60

Query:    84 SDNPPEICLIMDDRPKSNLTK-DAVMKKIKNDN--LPXXXXXXXXXXXXDYRPFEAKRKL 140
             +    E+CL   D P  +  + +++ +K+   N                +Y+PFEAKR+L
Sbjct:    61 A----EVCLFTKDEPDLSAEQTESLYRKLLTQNGITSVSQVISYKTLKKEYKPFEAKRRL 116

Query:   141 CDSYDIFLADKRVVXXXXXXXXXXXXXXXXXX-XXVDLKHQNWKEQIEK-VCGSALLYLR 198
              + +D+FL+D R+                      V+LK +N  ++++K + G+ L    
Sbjct:   117 LNRFDLFLSDDRIRRLLPSHLGKHFYEKKNRAPLSVNLKAKNLAKELQKHIQGTVLPVTN 176

Query:   199 TGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQAV 258
              G C   ++G   M A++I +N+IAA   +A+ +P+ W NV+  HLK L+S+ALP++ A 
Sbjct:   177 KGCCYTTRIGHTGMKADEILDNIIAAAEVIAKKLPKNWKNVKVLHLKTLKSVALPIFTA- 235

Query:   259 PDLKLKIEGVKE--NEGEGQDKDSEKENAEDVND-HGSXXXXXXXXGRIHEV 307
                  +I  + E   E   + K   K+ A+ VN    +           HE+
Sbjct:   236 -----RISNLDELDKEPNKEKKKKPKKAAKKVNSSQNTTTAKSKAAAATHEL 282

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:0005730 "nucleolus" evidence=IEA

GO:0032880 "regulation of protein localization" evidence=IEA

UNIPROTKB|O76021 RSL1D1 "Ribosomal L1 domain-containing protein 1" [Homo sapiens (taxid:9606)]

 Score = 267 (99.0 bits), Expect = 1.4e-22, P = 1.4e-22
 Identities = 70/244 (28%), Positives = 121/244 (49%)

Query:    18 RVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPH 77
             ++  + V +AV ALL   KS        LL +++ ++L++ L KIP  S+    ++ LPH
Sbjct:    30 QLDKEQVRKAVDALLTHCKSRKNNYG-LLLNENESLFLMVVLWKIP--SKELRVRLTLPH 86

Query:    78 SLLGNDSDNPPEICLIMDDRPKSNLTK-DAVMKKIKNDN--LPXXXXXXXXXXXXDYRPF 134
             S+  +DS+   +ICL   D P S   K +   +K+ N +                +Y+ +
Sbjct:    87 SIR-SDSE---DICLFTKDEPNSTPEKTEQFYRKLLNKHGIKTVSQIISLQTLKKEYKSY 142

Query:   135 EAKRKLCDSYDIFLADKRVVXXXXXXXXXXXXXXXXXXXXVDLKHQNWKEQIEKVCGSAL 194
             EAK +L  S+D FL D R+                     V+L  +N   +I    G  +
Sbjct:   143 EAKLRLLSSFDFFLTDARIRRLLPSLIGRHFYQRKKVPVSVNLLSKNLSREINDCIGGTV 202

Query:   195 LYL-RTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALP 253
             L + ++G+CS +++G V M  E I EN++A   G++E +P KW +V+   +K  +S ALP
Sbjct:   203 LNISKSGSCSAIRIGHVGMQIEHIIENIVAVTKGLSEKLPEKWESVKLLFVKTEKSAALP 262

Query:   254 VYQA 257
             ++ +
Sbjct:   263 IFSS 266

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:0005730 "nucleolus" evidence=IEA

GO:0032880 "regulation of protein localization" evidence=IMP

UNIPROTKB|J3QSV6 RSL1D1 "Ribosomal L1 domain-containing protein 1" [Homo sapiens (taxid:9606)]

 Score = 254 (94.5 bits), Expect = 2.3e-21, P = 2.3e-21
 Identities = 69/244 (28%), Positives = 121/244 (49%)

Query:    18 RVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPH 77
             ++  + V +AV ALL   KS        LL +++ ++L++ L KIP  S+    ++ LPH
Sbjct:    30 QLDKEQVRKAVDALLTHCKSRKNNYG-LLLNENESLFLMVVLWKIP--SKELRVRLTLPH 86

Query:    78 SLLGNDSDNPPEICLIMDDRPKSNLTK-DAVMKKIKNDN--LPXXXXXXXXXXXXDYRPF 134
             S+  +DS+   +ICL   D P S   K +   +K+ N +                +Y+ +
Sbjct:    87 SIR-SDSE---DICLFTKDEPNSTPEKTEQFYRKLLNKHGIKTVSQIISLQTLKKEYKSY 142

Query:   135 EAKRKLCDSYDIFLADKRVVXXXXXXXXXXXXXXXXXXXXVDLKHQNWKEQIEKVCGSAL 194
             EAK +L  S+D FL D R+                     V+L  +N   +I    G  +
Sbjct:   143 EAKLRLLSSFDFFLTDARIRRLLPSLIGRHFYQRKKVPVSVNLLSKNLSREINDCIGGTV 202

Query:   195 LYL-RTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALP 253
             L + ++G+CS +++G V M  E I EN++A   G++E +P +W +V+   +K  +S ALP
Sbjct:   203 LNISKSGSCSAIRIGHVGMQIEHIIENIVAVTKGLSEKLP-EWESVKLLFVKTEKSAALP 261

Query:   254 VYQA 257
             ++ +
Sbjct:   262 IFSS 265

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

UNIPROTKB|E2R7S5 RSL1D1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 255 (94.8 bits), Expect = 3.0e-21, P = 3.0e-21
 Identities = 73/272 (26%), Positives = 131/272 (48%)

Query:    24 VERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGND 83
             + +AV+ALL   +S        L E ++F +L++ L KIP  S+    ++ LPH +  + 
Sbjct:    34 IRKAVEALLAHSRSRKNANGLLLNENENF-FLMVILWKIP--SKELRVRLALPHGIRSDL 90

Query:    84 SDNPPEICLIMDDRPKSNLTKDAV---MKKIKNDN--LPXXXXXXXXXXXXDYRPFEAKR 138
             +D    ICL+  D P  NLT +      KK+ N +                +Y+ +EAK 
Sbjct:    91 TD----ICLLTKDEP--NLTPENTERFYKKLLNKHGIKTISQIIPLRTLKKEYKAYEAKL 144

Query:   139 KLCDSYDIFLADKRVVXXXXXXXXXXXXXXXXXXXXVDLKHQNWKEQIEKVCGSALLYL- 197
             +L  S+D FL D R+                     V+L  +N   +I +  G  +L + 
Sbjct:   145 RLLGSFDFFLTDARIRRLLPSHLGRHFYHRKKVPVPVNLLAKNLSREINECIGGTVLNIS 204

Query:   198 RTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQA 257
             ++G+CS ++VG   M  E I +N+IA    +++ +P KW +V+  ++K   S +LP++ +
Sbjct:   205 KSGSCSTIRVGHTGMEVEHIVDNIIAVAKRLSQKLPEKWESVKLLYVKTERSASLPIFSS 264

Query:   258 VPDLKLKIEGVK---ENEGEGQDKDSEKENAE 286
                 + + +G+    + + E + K  +KEN E
Sbjct:   265 FVSCQDEAKGICTRIQRKKEAKKKQKQKENRE 296

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|I3LG73 RSL1D1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 250 (93.1 bits), Expect = 1.1e-20, P = 1.1e-20
 Identities = 69/276 (25%), Positives = 132/276 (47%)

Query:    18 RVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPH 77
             +++ + +++AV+ LL   KS        L E ++F +L++ L KIP  S+    ++ LPH
Sbjct:    28 QLNEEQIKKAVETLLAHSKSRKNANGLLLNENENF-FLMVVLWKIP--SKELRVRLSLPH 84

Query:    78 SLLGNDSDNPPEICLIMDDRPKSNLTKDAV---MKKIKNDN--LPXXXXXXXXXXXXDYR 132
              +  + +D    ICL   D P  NLT +      KK+ N +                +Y+
Sbjct:    85 GIRSDLTD----ICLFTKDEP--NLTPEQTERFYKKLLNKHGVKNISQIIPFRTLKKEYK 138

Query:   133 PFEAKRKLCDSYDIFLADKRVVXXXXXXXXXXXXXXXXXXXXVDLKHQNWKEQIEKVCGS 192
              +EAK +L  S+D F+ D R+                     V+L+ +N   +I    G 
Sbjct:   139 AYEAKLRLLGSFDFFITDSRIRRLLPSHLGRHFYNRKKVPVSVNLQAKNLSREISDCVGG 198

Query:   193 ALLYL-RTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLA 251
              +L + ++G+CS +++G   M  + I ENV+A    +++ +P KW +V+  ++K   S++
Sbjct:   199 TVLNISKSGSCSTIRIGHTGMQVQHIVENVLAVAKRLSQALPEKWESVKLLYVKTERSVS 258

Query:   252 LPVYQAVPDLK---LKIEGVKENEGEGQDKDSEKEN 284
             LPV+ +    +    ++    + + EG+    +KE+
Sbjct:   259 LPVFSSFVSSRGEAKELRATNQKKKEGKKSQKKKEH 294

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|A4FV97 RSL1D1 "Ribosomal L1 domain-containing protein 1" [Bos taurus (taxid:9913)]

 Score = 239 (89.2 bits), Expect = 1.6e-19, P = 1.6e-19
 Identities = 63/259 (24%), Positives = 123/259 (47%)

Query:    18 RVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPH 77
             ++  + V++AV+ALL   +S        L E ++F +L++ L KIP  S+    ++ LPH
Sbjct:    28 QLDEEQVKKAVEALLAHSRSRKNANGLLLNENENF-FLMVVLWKIP--SKELRVRLSLPH 84

Query:    78 SLLGNDSDNPPEICLIMDDRPK--SNLTKDAVMKKIKNDNLPXXXXXX-XXXXXXDYRPF 134
              +  + +D    +CL   D P   S  T+    K + N  +              +Y+ +
Sbjct:    85 GIRSDLAD----VCLFTKDEPNLSSEQTERYYKKLLNNHGIKTISQIIPFRTLKKEYKAY 140

Query:   135 EAKRKLCDSYDIFLADKRVVXXXXXXXXXXXXXXXXXXXXVDLKHQNWKEQIEKVCGSAL 194
             EAK +L  S+D F+ D R+                     V+L+ +    +I    G  +
Sbjct:   141 EAKLRLLGSFDFFITDARIRRLLPSHLGRHFYNRKKVPVSVNLQSKTLSREINDCIGGTV 200

Query:   195 LYL-RTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALP 253
             L + ++G+CS +++G   M  + I ENV+A    +++ +P KW +V+   +K   S++LP
Sbjct:   201 LNISKSGSCSTIRIGHTGMPIQHIVENVVAVAKSLSQKLPEKWESVKLLFVKTERSVSLP 260

Query:   254 VYQAVPDLKLKIEGVKENE 272
             V+ +    + + +G++  +
Sbjct:   261 VFSSFVSSQGEAKGLRTRD 279

GO:0005730 "nucleolus" evidence=IEA

GO:0032880 "regulation of protein localization" 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|Q1PG84 Rsl1d1 "PBK1" [Mus musculus domesticus (taxid:10092)]

 Score = 233 (87.1 bits), Expect = 6.7e-19, P = 6.7e-19
 Identities = 60/237 (25%), Positives = 113/237 (47%)

Query:    24 VERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGND 83
             + +AV+ +    K      +  LL   + ++L++ L KIP+  +    K+PLPHS+L   
Sbjct:    49 IRKAVEVISNRSKPKKNNNE-LLLSGSENLFLMVILWKIPE--KELRVKVPLPHSILSES 105

Query:    84 SDNPPEICLIMDDRPKSNLTKDAVMKKI-KNDNLPXXXXXX-XXXXXXDYRPFEAKRKLC 141
             SD    +CL   D   S    +   KK+ K   +              +Y+ +EAK +L 
Sbjct:   106 SD----VCLFTKDEFDSPEQTEGFYKKLLKKHGVNTISQIIPFKTLKTEYKAYEAKLRLL 161

Query:   142 DSYDIFLADKRVVXXXXXXXXXXXXXXXXXXXXVDLKHQNWKEQIEK-VCGSALLYLRTG 200
              S+++F+ D R+                     V+L  +N  ++I + + G+ L   + G
Sbjct:   162 GSFEVFITDARIRRHLPSHIGRHFYQRKKVPVSVNLLAKNLSKEINRCITGTVLNISKRG 221

Query:   201 TCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQA 257
             +CS +++G   M  E I +N++A    ++E +P KW +V+   LK  +S++LP++ +
Sbjct:   222 SCSTIRIGHTGMETEHIVDNILAVSEMLSEKLPEKWQSVKLLFLKTEKSVSLPIFSS 278

GO:0005515 "protein binding" evidence=IPI

GO:0005730 "nucleolus" evidence=IDA

GO:0032880 "regulation of protein localization" evidence=ISO

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh2_kg.5__2310__AT3G58660.1 annotation not avaliable (422 aa) (Arabidopsis lyrata)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	431
pfam00687	200	pfam00687, Ribosomal_L1, Ribosomal protein L1p/L10	8e-47
cd00403	208	cd00403, Ribosomal_L1, Ribosomal protein L1	8e-40
PTZ00029	216	PTZ00029, PTZ00029, 60S ribosomal protein L10a; Pr	7e-11
PTZ00225	214	PTZ00225, PTZ00225, 60S ribosomal protein L10a; Pr	3e-09
PRK04203	215	PRK04203, rpl1P, 50S ribosomal protein L1P; Review	2e-06
COG0081	228	COG0081, RplA, Ribosomal protein L1 [Translation,	8e-05
TIGR00844	810	TIGR00844, c_cpa1, na(+)/h(+) antiporter	0.001
TIGR00927	1096	TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger	0.004

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

 Score =  159 bits (404), Expect = 8e-47
 Identities = 64/206 (31%), Positives = 98/206 (47%), Gaps = 18/206 (8%)

Query: 48  EQDDFVYLILTLKKIPQVSRTN-AFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDA 106
           + D+ V L + LKK P+    N    + LPH L         ++C+I  D          
Sbjct: 11  KFDETVELQINLKKDPRKKDQNVRGTVVLPHGL-----GKDVKVCVIAKDP--------- 56

Query: 107 VMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFF 166
              K K        V+    LK  Y   +  RKL   +D+FLAD  ++PLLPKLLGK   
Sbjct: 57  -EAKAKEAKDAGADVVGGEDLKEKY-KIKKGRKLAKDFDVFLADPDIMPLLPKLLGKVLG 114

Query: 167 KKKKIPVPVDLKHQNWKEQIEKVCGSALLYLR-TGTCSVLKVGKVSMGAEDIAENVIAAI 225
            + K+P P      +  + IE+     + + +  G C  +KVGKVSM  E++ EN+ A I
Sbjct: 115 PRGKMPNPKTTVTPDVAKAIEEAKSGTVEFRKDKGGCIHVKVGKVSMSPEELVENIEAVI 174

Query: 226 NGVAEIVPRKWGNVRSFHLKLLESLA 251
           N + + +P+ W N++S +LK     +
Sbjct: 175 NALVKKLPKGWQNIKSVYLKTTMGPS 200

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

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

 Score =  141 bits (357), Expect = 8e-40
 Identities = 72/234 (30%), Positives = 108/234 (46%), Gaps = 29/234 (12%)

Query: 24  VERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTN-AFKIPLPHSLLGN 82
           +E A+KAL K           +  + D+ V L + LKK  +         + LPH L  +
Sbjct: 1   LEEAIKALKKTSV--------KKRKFDETVELQINLKKDDRKKDQRIRGTVILPHGLGKD 52

Query: 83  DSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCD 142
                  +C+           KD   K+ K        V+    LK   +  EAK KL  
Sbjct: 53  VK-----VCVF---------AKDEQAKEAKAA---GADVVGGEDLKKKIKNGEAK-KLAK 94

Query: 143 SYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-HQNWKEQIEKVCGSALLYLRTGT 201
            +D+FLAD R++ LLPKLLGK    + K+P P      ++  + IE+   S    L  G 
Sbjct: 95  DFDLFLADPRIMMLLPKLLGKVLGPRGKMPNPKTGTVTEDLAKAIEEAKSSVEFRLDKGG 154

Query: 202 CSVLKVGKVSMGAEDIAENVIAAINGVAEIVP-RKWGNVRSFHLKLLESLALPV 254
           C  + VGKVSM  E + EN+ A IN + + +P +K  N++S +LK     +LP+
Sbjct: 155 CIHVPVGKVSMSPEQLVENIEAVINALVKKLPSKKGQNIKSIYLKTTMGPSLPI 208

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|185405 PTZ00029, PTZ00029, 60S ribosomal protein L10a; Provisional

 Score = 61.3 bits (149), Expect = 7e-11
 Identities = 31/108 (28%), Positives = 60/108 (55%), Gaps = 1/108 (0%)

Query: 138 RKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLYL 197
           +KL   YD FLA + ++P +P+LLG    K  K P  +   + + +++I ++  S    L
Sbjct: 100 KKLAKKYDAFLASQSLLPQIPRLLGPGLNKAGKFPTLI-THNDDIEDKINELKSSVKFQL 158

Query: 198 RTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK 245
           +   C  + VG V M  E + +N++ +IN +  ++ + W N+++ H+K
Sbjct: 159 KKVLCLGVAVGNVEMTEEQLRQNIVLSINFLVSLLKKNWQNIKTLHIK 206

Length = 216

>gnl|CDD|140252 PTZ00225, PTZ00225, 60S ribosomal protein L10a; Provisional

 Score = 56.6 bits (136), Expect = 3e-09
 Identities = 53/230 (23%), Positives = 108/230 (46%), Gaps = 28/230 (12%)

Query: 17  SRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQVSRTNAFKIPL 75
           S++ P+T+  A++A+LK  K     +          + L + LK   PQ  +  +  + L
Sbjct: 2   SKIPPQTLSEAIQAVLKVDKERKFKES---------IDLQVNLKNYDPQKDKRFSGSLKL 52

Query: 76  PHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFE 135
           P+      +     +CL+ D      L  + + KK   + +P     ++ KL  + +   
Sbjct: 53  PNVCRPRMT-----VCLLCD------LVHEDIAKK---EGVPTMNQEELKKLNKNKKLV- 97

Query: 136 AKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALL 195
             +K+C+ YD FL  + ++  +P+L+G H  +  K P  V    ++  +++ ++  +   
Sbjct: 98  --KKMCNQYDAFLCSESIIKTVPRLVGPHMHRMGKFPT-VCSPSESLPDKVVELRSTVKF 154

Query: 196 YLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK 245
            L+   C    VG V M  E + +NV+ AIN +  ++ + W N++S ++K
Sbjct: 155 QLKKVLCLGTCVGHVEMTEEQLRQNVVMAINFLVSLLKKNWQNLKSAYIK 204

Length = 214

>gnl|CDD|235254 PRK04203, rpl1P, 50S ribosomal protein L1P; Reviewed

 Score = 48.3 bits (116), Expect = 2e-06
 Identities = 28/111 (25%), Positives = 60/111 (54%), Gaps = 1/111 (0%)

Query: 136 AKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALL 195
           A +KL + YD F+A+  ++PL+ + LG     + K+P P+   + + K  +E++  +  +
Sbjct: 96  AAKKLANEYDFFIAEADLMPLIGRYLGPVLGPRGKMPTPLP-PNADIKPLVERLKNTVRI 154

Query: 196 YLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKL 246
             +      ++VG   M  E++AEN+ A +N +   + +   N++S ++K 
Sbjct: 155 RTKDQPTFHVRVGTEDMSPEELAENIDAVLNRIESKLEKGRQNIKSVYVKT 205

Length = 215

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

 Score = 43.4 bits (103), Expect = 8e-05
 Identities = 29/128 (22%), Positives = 56/128 (43%), Gaps = 7/128 (5%)

Query: 135 EAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKH-QNWKEQIEKVCGSA 193
             K      +D+F+A   ++PL+   LGK    +  +P P       +  + +E++    
Sbjct: 103 LIKNGRAKDFDVFIATPDMMPLV-GKLGKVLGPRGLMPNPKTGTVTDDVAKAVEELKKGT 161

Query: 194 LLYL--RTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPR--KWGNVRSFHLKLLES 249
           + +   + G   V  +GKVS   E +AEN+ A +N + +  P   K   ++S ++     
Sbjct: 162 VEFRADKAGVIHVP-IGKVSFDDEKLAENIEALLNAIVKAKPAGAKGQYIKSVYVSTTMG 220

Query: 250 LALPVYQA 257
             + V  A
Sbjct: 221 PGVKVDLA 228

Length = 228

>gnl|CDD|233148 TIGR00844, c_cpa1, na(+)/h(+) antiporter

 Score = 41.1 bits (96), Expect = 0.001
 Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 5/74 (6%)

Query: 276 QDKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMD-----STIGEVLDEDELGSDDDGE 330
           +D+  E      ++ HG K+K+KK+   +  V         S + E  + D L S+D+  
Sbjct: 724 EDESGEVFRRYRISPHGGKRKIKKRNDSVVSVDEEKAIEGPSRVPERGNHDLLHSEDEMA 783

Query: 331 GDVGESEDGEDSED 344
            D  ESE+ +D ED
Sbjct: 784 DDEAESENMDDYED 797

The Monovalent Cation:Proton Antiporter-1 (CPA1) Family (TC 2.A.36) The CPA1 family is a large family of proteins derived from Gram-positive and Gram-negative bacteria, blue green bacteria, yeast, plants and animals. Transporters from eukaryotes have been functionally characterized, and all of these catalyze Na+:H+ exchange. Their primary physiological functions may be in (1) cytoplasmic pH regulation, extruding the H+ generated during metabolism, and (2) salt tolerance (in plants), due to Na+ uptake into vacuoles. This model is specific for the fungal members of this family [Transport and binding proteins, Cations and iron carrying compounds]. Length = 810

>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger

 Score = 39.2 bits (91), Expect = 0.004
 Identities = 23/89 (25%), Positives = 37/89 (41%), Gaps = 1/89 (1%)

Query: 256 QAVPDLKLKIEGVKENEGEGQDKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMDSTIG 315
           QA  D ++K +   E + E + +    E  E      ++    + K    E        G
Sbjct: 784 QAGEDGEMKGDEGAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETGEQELNAENQG 843

Query: 316 EVLDEDELGSDDDGEGDVGESEDGEDSED 344
           E   +DE G D  G  D G+SE+ E+ E+
Sbjct: 844 EA-KQDEKGVDGGGGSDGGDSEEEEEEEE 871

[Transport and binding proteins, Cations and iron carrying compounds]. Length = 1096

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	431
KOG1685	343	consensus Uncharacterized conserved protein [Funct	100.0
PTZ00029	216	60S ribosomal protein L10a; Provisional	100.0
PRK04203	215	rpl1P 50S ribosomal protein L1P; Reviewed	100.0
PTZ00225	214	60S ribosomal protein L10a; Provisional	100.0
PF00687	220	Ribosomal_L1: Ribosomal protein L1p/L10e family; I	100.0
cd00403	208	Ribosomal_L1 Ribosomal protein L1. The L1 protein,	100.0
COG0081	228	RplA Ribosomal protein L1 [Translation, ribosomal	100.0
CHL00129	229	rpl1 ribosomal protein L1; Reviewed	100.0
PRK05424	230	rplA 50S ribosomal protein L1; Validated	100.0
TIGR01169	227	rplA_bact ribosomal protein L1, bacterial/chloropl	100.0
KOG1570	218	consensus 60S ribosomal protein L10A [Translation,	99.96
KOG1569	323	consensus 50S ribosomal protein L1 [Translation, r	99.81
TIGR01170	141	rplA_mito ribosomal protein L1, mitochondrial. Thi	99.66
PF13003	133	MRL1: Ribosomal protein L1; InterPro: IPR024663 Th	89.33

>KOG1685 consensus Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=2.6e-54  Score=430.74  Aligned_cols=318  Identities=43%  Similarity=0.616  Sum_probs=273.1

Q ss_pred             CCCCCCCCCCCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCCCccceeeEeCCCCCCCCCCC-CCC
Q 014066           10 SLPPSAGSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGNDSD-NPP   88 (431)
Q Consensus        10 ~~~~~~~s~v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k~k~~p~~I~LPHpl~~~~~~-~~~   88 (431)
                      ..++++++++++..+.-|+.++..+.......+.+++++++..+|.....++++.....+...||+||++...... .+.
T Consensus        10 ~~~~~~~~~v~~~~~e~~~k~~~~~~~~~~k~~~~~~~~~~k~~~~~~~~k~~~~~~~~n~~~IP~k~~~~~~~~~~~~~   89 (343)
T KOG1685|consen   10 SSTAIPRESVSPKNVESAVKALDKEREKKSKAENPQLLEALKNVYKVVLQKNTPQKVGTNKLKIPLKHLLKKLLLKHDDT   89 (343)
T ss_pred             ccccccccccCchhhhHHHhhhhhhhHHHHHhhhhhhhhhhhhhHHHHHHHhcccccccccccccCcchhcccccCCCCC
Confidence            3567788899999999999999998777665555788887777777766667677666677788899988765411 378


Q ss_pred             EEEEEecCCCCCchhHHHHHHHhhhCCCC-cceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccC
Q 014066           89 EICLIMDDRPKSNLTKDAVMKKIKNDNLP-ITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFK  167 (431)
Q Consensus        89 kICLIvkD~~~~~~t~~e~kekl~a~~i~-i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~k  167 (431)
                      +||||++|+++..+|.++|++++.++|++ |.+||++++|+.+|++||++|+|+++||+||||+||+|+||++|||.||+
T Consensus        90 ~vcLIvkD~~~~~~t~~~~~d~l~~~gi~~itkVI~~~~LK~~yksyeaKr~L~~sfDlflaD~RV~~~LP~llGK~f~q  169 (343)
T KOG1685|consen   90 DVCLIVKDLQQSYLTEEDAEDLLESEGIKSITKVISLSKLKRDYKSYEAKRKLLSSFDLFLADDRVIPLLPKLLGKEFYQ  169 (343)
T ss_pred             ceEEEecCchhccccHHHHHHHHHHcCCccceeeeehHHHHHHHHHHHHHHHHHhhccEEEEcchhHhHHHHHhhhhhcc
Confidence            99999999999989999999999999999 99999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCeeecCCccc--HHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEE
Q 014066          168 KKKIPVPVDLKHQN--WKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK  245 (431)
Q Consensus       168 kkK~PipV~lt~~d--Lk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LK  245 (431)
                      +++.|+||++.+.+  |..+|++||++|+|+++.|+|+.|+|||++|+.++|+|||.++++.+.+.+|+||.||++||||
T Consensus       170 ~kk~Pv~i~l~k~~~~l~~qi~~a~~~t~~~~~~g~~~~i~vg~l~~~~~~l~ENv~~vlk~l~e~~P~~~~~Irsl~lK  249 (343)
T KOG1685|consen  170 KKKVPVSIRLSKKNELLKQQIENACGSTYFRLRKGTSSAIKVGHLGNTSEELAENVVAVLKGLSEILPGGWKNIRSLHLK  249 (343)
T ss_pred             cccCceEEEecccchHHHHHHHHHhhhheeeccCCceeEEEeccccccHHHHHHHHHHHHHHHHHHccchHhHhHHHhhh
Confidence            99999999998777  9999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCcceEEeccCCCCcccccccccCCCCCCCcccccc---ccccccc--ccccccccccCceeeEEEeecccccccccc
Q 014066          246 LLESLALPVYQAVPDLKLKIEGVKENEGEGQDKDSEKE---NAEDVND--HGSKKKLKKKKGRIHEVRYMDSTIGEVLDE  320 (431)
Q Consensus       246 tt~S~aLPIY~s~~~~~~~i~~~~~~~~~~~~~~~~~~---~~~~~~~--~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~  320 (431)
                      |..|++||||++++.+++.+...+..++-. +..++..   .......  .....+.+.++|+||+++|||.+..+.++.
T Consensus       250 t~~s~aLPly~s~~~~~~~~~~~~~i~~~~-~~k~~~~~~~k~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~e~~~~  328 (343)
T KOG1685|consen  250 TSRSPALPLYVSVISLKEIASKRGSIRDFV-ELKETQKKERKSDLSLFGKGKKEIKIKVKKGSIDSKQQNDSNKAEVLDL  328 (343)
T ss_pred             ccCCcccceeecccchhhhhcccCchhhhh-HHHhhhhhhhhccccccchhhhHhhhhhhccchhhHHhccchhhhhccc
Confidence            999999999999999999888877555311 1111111   1122111  334456678889999999999999999999


Q ss_pred             cccCCCCC
Q 014066          321 DELGSDDD  328 (431)
Q Consensus       321 ~~~~~~~~  328 (431)
                      |....|.|
T Consensus       329 d~~~~~~d  336 (343)
T KOG1685|consen  329 DEEKKDSD  336 (343)
T ss_pred             cccccccc
Confidence            98877654

>PTZ00029 60S ribosomal protein L10a; Provisional

Probab=100.00  E-value=9.7e-47  Score=359.97  Aligned_cols=215  Identities=24%  Similarity=0.400  Sum_probs=194.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccC-CCCCccceeeEeCCCCCCCCCCCCCCEEEEEe
Q 014066           16 GSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQVSRTNAFKIPLPHSLLGNDSDNPPEICLIM   94 (431)
Q Consensus        16 ~s~v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKki-p~k~k~~p~~I~LPHpl~~~~~~~~~kICLIv   94 (431)
                      ||.++++++++||++|++|.     ..+...|.|  +|+++|+|+++ |.+.+..++.|.|||++++     ..+||||+
T Consensus         1 m~~~~~~~~~~av~~~~~~~-----~~~~~~f~e--sv~~~i~Lk~id~~~~~~ir~~v~LP~~~gk-----~~~v~V~a   68 (216)
T PTZ00029          1 MSKLSSEALRKAIAEILEGS-----EEKKRKFVE--TVELQIGLKDYDTQKDKRFSGSVKLPNVPKP-----NLKVCVLG   68 (216)
T ss_pred             CCcCCHHHHHHHHHHHHhhc-----cccccCCce--EEEEEEEcCCCCCCcCcccceeEecCCCCCC-----CcEEEEEC
Confidence            45789999999999999872     234567776  99999999998 4445667889999999986     68999999


Q ss_pred             cCCCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCee
Q 014066           95 DDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVP  174 (431)
Q Consensus        95 kD~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~Pip  174 (431)
                      +++..         +.++++|+   +|++.++|...|+.++.+|+|+.+||+||||+++|+.||++||+.||+++|+|+|
T Consensus        69 ~~~~~---------~~Ak~aGa---~vvg~edL~~~~k~~k~~kkl~~~fD~flA~~~im~~l~riLGp~l~p~~K~P~~  136 (216)
T PTZ00029         69 DAVHC---------DEAKKLGL---DFMDIEGLKKFNKNKKLVKKLAKKYDAFLASQSLLPQIPRLLGPGLNKAGKFPTL  136 (216)
T ss_pred             CcHHH---------HHHHHcCC---CEecHHHHHHhhhhHHHHhcccccCCEEEECHHHHHHHHHHhccccccCCCCCCc
Confidence            88742         22456676   4999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEE
Q 014066          175 VDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPV  254 (431)
Q Consensus       175 V~lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPI  254 (431)
                      ++.+ .+|...|+++++++.|++++++|++++||+++|+++||+|||.+++++|.+.+|+||+||++|||||||||++||
T Consensus       137 v~~~-~d~~~~i~~~k~~v~~r~~k~~~i~v~VG~~~~~~e~l~eNi~avl~~i~~~~~kg~~~Iksv~lktTmgp~v~v  215 (216)
T PTZ00029        137 ITHN-DDIEDKINELKSSVKFQLKKVLCLGVAVGNVEMTEEQLRQNIVLSINFLVSLLKKNWQNIKTLHIKSTMGKPQRI  215 (216)
T ss_pred             ccCc-cCHHHHHHHHHheEEEEECCCCEEEEEEcCCCCCHHHHHHHHHHHHHHHHHHhccccccEeEEEEECCCCCCEeC
Confidence            9875 689999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             e
Q 014066          255 Y  255 (431)
Q Consensus       255 Y  255 (431)
                      |
T Consensus       216 ~  216 (216)
T PTZ00029        216 Y  216 (216)
T ss_pred             C
Confidence            7

>PRK04203 rpl1P 50S ribosomal protein L1P; Reviewed

Probab=100.00  E-value=1.6e-45  Score=351.25  Aligned_cols=212  Identities=24%  Similarity=0.305  Sum_probs=190.6

Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC--CccceeeEeCCCCCCCCCCCCCCEEEEEecC
Q 014066           19 VSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV--SRTNAFKIPLPHSLLGNDSDNPPEICLIMDD   96 (431)
Q Consensus        19 v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k--~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD   96 (431)
                      ++++++.+||+.|+++       .+.+.|.|  +|+|+|+||+++.+  .+..++.|.|||++++     ..+||||+++
T Consensus         2 ~~~~~~~eai~~~k~~-------~~~~kf~e--svel~v~Lk~id~~k~~~~irg~i~LP~~~~k-----~~~V~vf~~~   67 (215)
T PRK04203          2 MDREKIEEAVKEALEE-------APKRNFTQ--SVDLIVNLKDIDLKKPENRIDEEVVLPHGRGK-----EVKIAVIAKG   67 (215)
T ss_pred             CcHHHHHHHHHHHHHh-------cccCCCCc--eEEEEEEecCCCCCccCceeeEEEECCCCCCC-----CcEEEEEcCh
Confidence            6889999999999863       24566877  99999999999775  2455789999999976     6899999998


Q ss_pred             CCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeec
Q 014066           97 RPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVD  176 (431)
Q Consensus        97 ~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~  176 (431)
                      ++.     ++    ++++|+  ..|++.+.|++.++.|+++|+|+.+||+||||+++|+.||++||+.||++++||+|+.
T Consensus        68 ~~~-----~~----Ak~aGa--~~v~~~e~L~~i~~~~k~~rkl~~~fD~~lA~~~im~~l~k~LGk~lgprgkmP~p~~  136 (215)
T PRK04203         68 ELA-----LQ----AKEAGA--DYVITREELEELGGDKRAAKKLANEYDFFIAEADLMPLIGRYLGPVLGPRGKMPTPLP  136 (215)
T ss_pred             HhH-----HH----HHHcCC--CEEeCHHHHHHHhcChHHHhhhhhcCCEEEECHHHHHHHHHHHhhhcCcCCCCCCCcC
Confidence            742     22    335565  3589999999888889999999999999999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEEec
Q 014066          177 LKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVYQ  256 (431)
Q Consensus       177 lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPIY~  256 (431)
                      ++. ||...|++++++++|++++++|++++||+++|+++||+|||.+++++|.+.+|+||+||++|||||||||++|||.
T Consensus       137 ~t~-di~~~i~~~~~~~~~r~~k~~~i~v~VG~~~m~~e~l~eNi~avl~~i~~~~p~g~~~Iksi~lktTmgp~i~i~~  215 (215)
T PRK04203        137 PNA-DIKPLVERLKNTVRIRTKDQPTFHVRVGTEDMSPEELAENIDAVLNRIESKLEKGRQNIKSVYVKTTMGPAVKVEL  215 (215)
T ss_pred             CCC-CHHHHHHHHhhceEEEeCCCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCccccccEEEEEEECCCCCCEEeeC
Confidence            875 9999999999999999999999999999999999999999999999999999999999999999999999999984

>PTZ00225 60S ribosomal protein L10a; Provisional

Probab=100.00  E-value=3.6e-45  Score=348.73  Aligned_cols=213  Identities=24%  Similarity=0.426  Sum_probs=190.2

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccC-CCCCccceeeEeCCCCCCCCCCCCCCEEEEEe
Q 014066           16 GSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQVSRTNAFKIPLPHSLLGNDSDNPPEICLIM   94 (431)
Q Consensus        16 ~s~v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKki-p~k~k~~p~~I~LPHpl~~~~~~~~~kICLIv   94 (431)
                      ||.|+++++.+||++|+++.       +.+.|.|  +|+|+|+|+++ |.+.+..++.|.|||++++     ..+||||+
T Consensus         1 m~k~~~~~i~~Av~~~lk~~-------~~~kF~E--tvdl~v~Lk~iDp~kd~~irg~v~LPhg~gk-----~~kV~v~~   66 (214)
T PTZ00225          1 MSKIPPQTLSEAIQAVLKVD-------KERKFKE--SIDLQVNLKNYDPQKDKRFSGSLKLPNVCRP-----RMTVCLLC   66 (214)
T ss_pred             CCcCCHHHHHHHHHHHHHhc-------ccCCCCc--eEEEEEeccCcCCCcCcccceeEECCCCCCC-----CcEEEEEC
Confidence            46789999999999998743       3345766  99999999998 6666777899999999986     68999999


Q ss_pred             cCCCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCee
Q 014066           95 DDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVP  174 (431)
Q Consensus        95 kD~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~Pip  174 (431)
                      +++..         +.++++|++   +++.++|....+.+++.|+||.+||+|||++++|+.||++||+.|++++|||+|
T Consensus        67 ~~~~~---------~~Ak~aGad---~v~~e~l~~l~k~~~~~kkl~~~fD~fiA~~~~m~~lgk~LGp~~~p~gK~P~~  134 (214)
T PTZ00225         67 DLVHE---------DIAKKEGVP---TMNQEELKKLNKNKKLVKKMCNQYDAFLCSESIIKTVPRLVGPHMHRMGKFPTV  134 (214)
T ss_pred             ChHHH---------HHHHHCCCC---EECHHHHHHHHhccHHHHHHHhhCCEEEECHHHHHhhhhhcCCCCCcCCCCCcc
Confidence            98753         224567775   777777777777778899999999999999999999999999999999999999


Q ss_pred             ecCCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEE
Q 014066          175 VDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPV  254 (431)
Q Consensus       175 V~lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPI  254 (431)
                      ++++ .|+...|+++.+++.|++++..|++++||+++|+++||+||+.++++.|.+.+|.+|+||++|||||||||++.|
T Consensus       135 ~~~~-~dl~~~i~~~k~~v~~r~~k~~~~~~~VGk~~m~~e~i~eNi~a~l~~l~~~~p~k~~nIksv~iktTMGp~~~~  213 (214)
T PTZ00225        135 CSPS-ESLPDKVVELRSTVKFQLKKVLCLGTCVGHVEMTEEQLRQNVVMAINFLVSLLKKNWQNLKSAYIKSTMGKPQRI  213 (214)
T ss_pred             cCCc-cCHHHHHHHHhheeEEEecCccEEEeEEccCCCCHHHHHHHHHHHHHHHHHhCCcCCceEeEEEEECCCCCCEeC
Confidence            9876 699999999999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             e
Q 014066          255 Y  255 (431)
Q Consensus       255 Y  255 (431)
                      |
T Consensus       214 ~  214 (214)
T PTZ00225        214 Y  214 (214)
T ss_pred             C
Confidence            7

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

Probab=100.00  E-value=2.8e-43  Score=333.62  Aligned_cols=212  Identities=42%  Similarity=0.661  Sum_probs=179.0

Q ss_pred             HHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCCC--ccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCCchhHH
Q 014066           28 VKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVS--RTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKD  105 (431)
Q Consensus        28 VkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k~--k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~~~t~~  105 (431)
                      |+||++|+++..+  .......+++|+|+|+++.+|.+.  +..++.|+||||++.    +..+||||++|++..     
T Consensus         1 ~~aL~k~~~~~~~--~~~~~~~~~~v~l~i~~~~~~~~~~~~~~~~~i~LPh~~~~----~~~~vcli~~d~~~~-----   69 (220)
T PF00687_consen    1 IKALKKYIKKKKE--ENEDDNFDESVYLQITLKKIPKKKDKSFKPGRIPLPHPLYI----KNSKVCLIVKDPQKK-----   69 (220)
T ss_dssp             HTCHHHHHHHHHH--CCCCSSSSTEEEEEEEESSSTTSSCTST-EEEEEBSTSSS-----SSSBEEEEESCHHHH-----
T ss_pred             ChHHHHHHHHHHh--hcccCCCCcEEEEEEEeCcCCCccccccccceeeecCCCCC----CccEEEEEecCcchh-----
Confidence            6789999887532  122334456999999999998875  334899999999982    278999999998642     


Q ss_pred             HHHH--HhhhCCC-CcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccc-cCCCCCCeeecCCccc
Q 014066          106 AVMK--KIKNDNL-PITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHF-FKKKKIPVPVDLKHQN  181 (431)
Q Consensus       106 e~ke--kl~a~~i-~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F-~kkkK~PipV~lt~~d  181 (431)
                       +.+  ++.+.+. .+.+||++++|+++|++|+++|+|+.+||+||||+||++.||++||+.| +++++||+||.++..+
T Consensus        70 -~~~~~~~~~~~~~~~~~vi~~~~L~~~~~~~~~~r~l~~~~d~flad~~i~~~l~~~Lgk~~~~~k~k~P~~v~~~~~~  148 (220)
T PF00687_consen   70 -AKEKEKLEEKAVEAGAKVIGGEELKKKYKTIEAKRKLAKSYDFFLADPRIMPKLPKLLGKIFYGKKGKMPIPVTLSKED  148 (220)
T ss_dssp             -HH-------HHHHTTCSEEECHHHHHHHCHHHHCHHHHHCSSEEEEEGGGHHHHHHHTHHHH-CCTTTSCEEBSSHTSC
T ss_pred             -hhhhhhhhhhhhhcccceecHHHHHHHHHHHHHHHHHHhhcCEEEECHHHHHHHHHhhhhheecccCCcceEEeccchh
Confidence             211  1111111 2346999999999999999999999999999999999999999999999 5788999999875579


Q ss_pred             HHHHHHHHHccceEEcc-CCCEEEEEEecCCCChhHHHHHHHHHHHHHHHh-cCCCCCCccEEEEEcCCCcc
Q 014066          182 WKEQIEKVCGSALLYLR-TGTCSVLKVGKVSMGAEDIAENVIAAINGVAEI-VPRKWGNVRSFHLKLLESLA  251 (431)
Q Consensus       182 Lk~~Ieka~~St~~~l~-kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~-lPkg~~NIksI~LKtt~S~a  251 (431)
                      |.++|+++++++.|+++ .|+|++|+||+++|+.+||+|||.+++++|.++ +|+||.||++||||||||||
T Consensus       149 l~~~i~~~~~~~~~~~~~~~~~~~v~VG~~~~~~~~i~eNi~~~i~~i~~~~~~~g~~~I~~i~ikst~s~~  220 (220)
T PF00687_consen  149 LKEQIEKALNSTKFRLSGKGGCISVKVGHLSMTDEQIVENIKAVIKAIVSKPLPKGWKNIKSIYIKSTMSPS  220 (220)
T ss_dssp             HHHHHHHHHTEEEEEETBTSSEEEEEEEETTSCHHHHHHHHHHHHHHHHHTTTSSSSGSEEEEEEEESSSEE
T ss_pred             HHHHHHHHHCCEEEEeeccCCeeecCccCCCCCHHHHHHHHHHHHHHHHHhhhccCcceEEEEEEECCCCCC
Confidence            99999999999999988 999999999999999999999999999999999 99999999999999999986

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 ....

>cd00403 Ribosomal_L1 Ribosomal protein L1

Probab=100.00  E-value=7.7e-43  Score=328.66  Aligned_cols=205  Identities=34%  Similarity=0.465  Sum_probs=181.1

Q ss_pred             HHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC-CccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCCch
Q 014066           24 VERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV-SRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNL  102 (431)
Q Consensus        24 V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k-~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~~~  102 (431)
                      +.+|+++|.+|..      ....|.  ++|+|+|+|+.++.+ ....++.|.||||++.     ..+||||++|++..  
T Consensus         1 ~~~Ai~~l~~~~~------~~~~~~--~~v~l~i~l~~~~~~~~~~~~~~i~LPh~~~~-----~~~i~v~~~d~~~~--   65 (208)
T cd00403           1 LEEAIKALKKTSV------KKRKFD--ETVELQINLKKDDRKKDQRIRGTVILPHGLGK-----DVKVCVFAKDEQAK--   65 (208)
T ss_pred             CHHHHHHHHHhcc------ccCCCC--ceEEEEEEeCCCCCccccccceeEECCCCCCC-----CeEEEEEcChHhHH--
Confidence            3589999988643      222333  499999999998633 3456789999999984     78999999988642  


Q ss_pred             hHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-ccc
Q 014066          103 TKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-HQN  181 (431)
Q Consensus       103 t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~~d  181 (431)
                          +.   .+.++   +|+++++|+.+|++|+++ +|+.+||+||||+++++.+|+.||+.||++++||+++.++ ..+
T Consensus        66 ----~a---~~~~a---~vig~~~L~~~~~~~~~~-~l~~~~D~fla~~~~~~~~~~~lgk~~~~k~k~P~~~~~t~~~~  134 (208)
T cd00403          66 ----EA---KAAGA---DVVGGEDLKKKIKNGEAK-KLAKDFDLFLADPRIMMLLPKLLGKVLGPRGKMPNPKTGTVTED  134 (208)
T ss_pred             ----HH---HHcCC---CEEcHHHHHHHhhcchhh-hhhhcCCEEEECHHHHHHHHHHhccccccCCCCCcCCCCCCccc
Confidence                21   22343   699999999999999999 9999999999999999999999999999999999999985 679


Q ss_pred             HHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcC-CCCCCccEEEEEcCCCcceEE
Q 014066          182 WKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVP-RKWGNVRSFHLKLLESLALPV  254 (431)
Q Consensus       182 Lk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lP-kg~~NIksI~LKtt~S~aLPI  254 (431)
                      |.++|++++++++|++++++|++++||+++|+++||+|||.+++++|.+++| +||+||++|||||+||++|||
T Consensus       135 l~~~i~~~~~~~~~~~~~~~~~~v~VG~~~m~~~~l~eNi~~vi~~i~~~~~~~~~~~i~~v~lktt~~~~lpI  208 (208)
T cd00403         135 LAKAIEEAKSSVEFRLDKGGCIHVPVGKVSMSPEQLVENIEAVINALVKKLPSKKGQNIKSIYLKTTMGPSLPI  208 (208)
T ss_pred             HHHHHHHHHhCeEEEECCCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCcccCeEEEEEEEECCCCCCeEC
Confidence            9999999999999999999999999999999999999999999999999999 999999999999999999997

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.

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

Probab=100.00  E-value=5.2e-34  Score=271.99  Aligned_cols=207  Identities=20%  Similarity=0.252  Sum_probs=175.6

Q ss_pred             CCCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC-CccceeeEeCCCCCCCCCCCCCCEEEEEecC
Q 014066           18 RVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV-SRTNAFKIPLPHSLLGNDSDNPPEICLIMDD   96 (431)
Q Consensus        18 ~v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k-~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD   96 (431)
                      +.....+.+||+.+.+       .. ...|++  +|+++|+|+-.|.+ .+...+.|.|||+.++     ..+||||+++
T Consensus        17 ~~~~~~i~eai~~~ke-------~~-~~kF~e--tVevav~L~vD~~k~dq~vrg~VvLP~g~gk-----~vrV~Vfa~g   81 (228)
T COG0081          17 RNKLYSLEEAVKLLKE-------TS-KRKFDE--TVEVAVNLKVDPRKPDQRVRGSVVLPNGTGK-----TVRVAVFADG   81 (228)
T ss_pred             hhhhhhHHHHHHHHHh-------cc-ccCcce--EEEEEEEcccCCCCcccccceeEECCCCCCC-----ccEEEEEcCh
Confidence            3455667888887766       22 367887  99999999943434 4667789999999987     6899999976


Q ss_pred             CCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeec
Q 014066           97 RPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVD  176 (431)
Q Consensus        97 ~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~  176 (431)
                      ...         +.+.++|++   +++.++|....+.   .|  +.+||+|||++++|+.+ +.||+.|+|||+||+|+.
T Consensus        82 ~~~---------~~A~~AGad---~Vg~edl~e~ik~---~r--~~~fD~~IAtpdmM~~v-~~LG~vLGPRGlMP~Pk~  143 (228)
T COG0081          82 EKA---------EEAKAAGAD---YVGGEDLIELIKN---GR--AKDFDVFIATPDMMPLV-GKLGKVLGPRGLMPNPKT  143 (228)
T ss_pred             HhH---------HHHHHcCCC---EecHHHHHHHHhC---cc--hhcCCEEEECchHHHHH-HHHhhhcCCCCCCCCCCC
Confidence            542         223456663   4444888887765   34  88999999999999999 789999999999999999


Q ss_pred             CC-cccHHHHHHHHHc-cceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCC--CCCccEEEEEcCCCcce
Q 014066          177 LK-HQNWKEQIEKVCG-SALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRK--WGNVRSFHLKLLESLAL  252 (431)
Q Consensus       177 lt-~~dLk~~Ieka~~-St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg--~~NIksI~LKtt~S~aL  252 (431)
                      +| +.|+...|+++.+ ++.||.++.+|+|+.||+++|++++|+|||.++++.|...+|.+  |+||++|||+|||||++
T Consensus       144 gTvt~Dv~~av~~~K~g~v~~R~dk~g~ih~~iGk~sf~~e~L~eNi~a~l~~i~~~~p~~~kg~~ik~v~vstTMGP~v  223 (228)
T COG0081         144 GTVTDDVAKAVEELKKGTVEFRADKAGVIHVPIGKVSFDDEKLAENIEALLNAIVKAKPAGAKGQYIKSVYVSTTMGPGV  223 (228)
T ss_pred             CCCCcCHHHHHHHHhcCcEEEEECCCceEEEEecCCCCCHHHHHHHHHHHHHHHHHhCcCCcccceEeEEEEecCCCCCE
Confidence            76 6899999999999 88999999999999999999999999999999999999999987  99999999999999999


Q ss_pred             EEecc
Q 014066          253 PVYQA  257 (431)
Q Consensus       253 PIY~s  257 (431)
                      .||.+
T Consensus       224 ~v~~~  228 (228)
T COG0081         224 KVDLA  228 (228)
T ss_pred             EeccC
Confidence            99863

>CHL00129 rpl1 ribosomal protein L1; Reviewed

Probab=100.00  E-value=2.5e-33  Score=269.86  Aligned_cols=200  Identities=17%  Similarity=0.187  Sum_probs=172.1

Q ss_pred             HHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC--CccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCC
Q 014066           23 TVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV--SRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKS  100 (431)
Q Consensus        23 ~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k--~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~  100 (431)
                      .+.+||+.|++       . +...|.|  +|+|+|+| +++.+  .....+.|.|||++++     ..+||||+++... 
T Consensus        21 ~l~eAi~~~k~-------~-~~~kF~e--svel~i~L-~id~kk~~~~irg~v~LP~~~gk-----~~kV~Vfa~~~~~-   83 (229)
T CHL00129         21 SPEEAINLLKE-------T-ATAKFIE--TAEAHISL-NIDPKYADQQLRTTVTLPKGTGK-----TIRIAVLTNEEKI-   83 (229)
T ss_pred             CHHHHHHHHHH-------h-CcCCCCc--cEEEEEEE-CCCCCCCCCceeeEEECCCCCCC-----CcEEEEECChHhH-
Confidence            46788888875       1 2355776  99999999 66444  3566789999999976     6899999998642 


Q ss_pred             chhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-c
Q 014066          101 NLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-H  179 (431)
Q Consensus       101 ~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~  179 (431)
                          ++    +.++|+.   +++.++|...+      ++++.+||+|||++++|+.|++ ||+.|++||+||+|..+| .
T Consensus        84 ----~e----Ak~aGad---~vg~edLi~~i------k~~~~~fd~~iAt~d~m~~l~k-LgriLGprGlMP~pk~gTvt  145 (229)
T CHL00129         84 ----TE----AKNAGAD---IVGSDDLIEEI------TKGNLDFDLLIATPDMMPKLAK-LGRVLGPRGLMPSPKSGTVT  145 (229)
T ss_pred             ----HH----HHHcCCC---EeCHHHHHHHH------HcCcccCCEEEECHHHHHHHHH-hcCcccccCCCCCCCCCCcc
Confidence                22    3466763   89999998754      5678899999999999999999 999999999999999987 5


Q ss_pred             ccHHHHHHHHHc-cceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCC--CccEEEEEcCCCcceEEec
Q 014066          180 QNWKEQIEKVCG-SALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWG--NVRSFHLKLLESLALPVYQ  256 (431)
Q Consensus       180 ~dLk~~Ieka~~-St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~--NIksI~LKtt~S~aLPIY~  256 (431)
                      .|+.+.|+++.+ ++.|+.++.++++++||+++|+++||+|||.+++++|.+..|.+|.  ||++|||+|||||+++|-.
T Consensus       146 ~di~~~V~~~k~G~v~~r~dk~g~i~~~VG~~~m~~~~l~eNi~a~l~~i~~~~p~~~kg~~ik~v~issTMGp~v~i~~  225 (229)
T CHL00129        146 TDLASAINEFKKGKLEYRADKTGIVHVLFGKSNFTEEDLLENLQAIYESIEQNRPSGVKGKYWKSFYICSTMGPSIQIDI  225 (229)
T ss_pred             ccHHHHHHHHhcCcEEEEecCCcEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCcccccCceEEEEEEECCCCCCEEecc
Confidence            799999999987 7899999999999999999999999999999999999999999988  9999999999999999865


Q ss_pred             c
Q 014066          257 A  257 (431)
Q Consensus       257 s  257 (431)
                      +
T Consensus       226 ~  226 (229)
T CHL00129        226 S  226 (229)
T ss_pred             c
Confidence            4

>PRK05424 rplA 50S ribosomal protein L1; Validated

Probab=100.00  E-value=1.1e-32  Score=265.58  Aligned_cols=200  Identities=16%  Similarity=0.214  Sum_probs=169.9

Q ss_pred             HHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccC-CCC-CccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCC
Q 014066           23 TVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQV-SRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKS  100 (431)
Q Consensus        23 ~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKki-p~k-~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~  100 (431)
                      .+.+||+.|+++        +...|.|  +|+|+|+| .+ +.+ .....+.|.|||++++     ..+||||+++... 
T Consensus        21 ~l~eAi~~lk~~--------~~~kF~e--svel~v~L-~id~kK~~~~irg~v~LP~~~gk-----~~kI~Vfa~~~~~-   83 (230)
T PRK05424         21 SLEEAIALVKET--------ATAKFDE--TVDVAVNL-GVDPRKADQQVRGAVVLPHGTGK-----TVRVAVFAKGEKA-   83 (230)
T ss_pred             CHHHHHHHHHhh--------ccCCCCC--cEEEEEEe-CCCCCCCCCeeeEEEECCCCCCC-----CcEEEEECChHhH-
Confidence            477888888751        2355776  99999999 66 444 3566789999999976     6899999976532 


Q ss_pred             chhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-c
Q 014066          101 NLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-H  179 (431)
Q Consensus       101 ~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~  179 (431)
                          ++    +++.|+.   +++.++|....+     +.++ +||+|||++++|+.|++ ||+.|++||+||+|+.+| .
T Consensus        84 ----~~----Ak~aGa~---~vg~eeLi~~ik-----~~~~-~fd~~iat~~~m~~l~~-Lg~iLGPrGlMP~pk~gTv~  145 (230)
T PRK05424         84 ----EE----AKAAGAD---IVGGEDLIEKIK-----GGWL-DFDVVIATPDMMGKVGK-LGRILGPRGLMPNPKTGTVT  145 (230)
T ss_pred             ----HH----HHHcCCC---EeCHHHHHHHHh-----cCCC-cCCEEEECHHHHHHHHH-hccccccccCCCCCCCCCcc
Confidence                22    3466764   889999987765     2343 89999999999999998 999999999999999987 4


Q ss_pred             ccHHHHHHHHHc-cceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCC--CCccEEEEEcCCCcceEEec
Q 014066          180 QNWKEQIEKVCG-SALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKW--GNVRSFHLKLLESLALPVYQ  256 (431)
Q Consensus       180 ~dLk~~Ieka~~-St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~--~NIksI~LKtt~S~aLPIY~  256 (431)
                      .|+.+.|+++.+ ++.|+.++.++++++||+++|+++||+|||.+++++|.+..|.+|  ++|++|||+|||||++.|-.
T Consensus       146 ~di~~~I~~~k~g~v~~r~~k~g~i~~~IG~~~m~~e~i~eNi~a~l~~i~~~~p~~~kg~~Ik~v~lssTmGp~~~i~~  225 (230)
T PRK05424        146 MDVAKAVKEAKAGKVEFRVDKAGIIHAPIGKVSFDAEKLKENLKALIDAIKKAKPATAKGTYIKSVSLSSTMGPGVKVDP  225 (230)
T ss_pred             hhHHHHHHHHhcCcEEEEecCCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCccccCCCEEEEEEEECCCCCCEEech
Confidence            699999999987 689999999999999999999999999999999999999999999  79999999999999998765


Q ss_pred             c
Q 014066          257 A  257 (431)
Q Consensus       257 s  257 (431)
                      .
T Consensus       226 ~  226 (230)
T PRK05424        226 S  226 (230)
T ss_pred             H
Confidence            4

>TIGR01169 rplA_bact ribosomal protein L1, bacterial/chloroplast

Probab=100.00  E-value=2e-32  Score=263.44  Aligned_cols=200  Identities=15%  Similarity=0.195  Sum_probs=171.1

Q ss_pred             HHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccC-CCC-CccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCC
Q 014066           23 TVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQV-SRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKS  100 (431)
Q Consensus        23 ~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKki-p~k-~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~  100 (431)
                      .+.+||+.|.++        +...|.|  +|+|+|+| ++ +.+ .....+.|.|||++++     ..+||||+++... 
T Consensus        20 ~l~eAi~~lk~~--------~~~~f~e--svel~i~L-~id~kK~~~~irg~v~LP~~~gk-----~~kV~Vfa~~~~~-   82 (227)
T TIGR01169        20 SLDEAIALLKET--------ATAKFDE--TVEVAIRL-GIDPRKSDQQVRGTVVLPHGTGK-----TVRVAVFAKGEKA-   82 (227)
T ss_pred             CHHHHHHHHHhh--------ccCCCCC--CEEEEEEE-CcCCCcCCCeeeEEEECCCCCCC-----CcEEEEEcCchhH-
Confidence            467888888751        2355776  99999999 66 444 3567789999999976     6899999986532 


Q ss_pred             chhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-c
Q 014066          101 NLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-H  179 (431)
Q Consensus       101 ~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~  179 (431)
                          ++    +.+.|+.   +++.++|...      .++++.+||+|||++++|+.|+ .||+.|++||+||+|..+| .
T Consensus        83 ----~~----Ak~aGa~---~vg~~eLi~~------ik~~~~~fd~~iat~~~m~~l~-~Lg~iLGPrGlMP~~k~gtv~  144 (227)
T TIGR01169        83 ----EE----AKAAGAD---YVGSDDLIEK------IKKGWLDFDVVIATPDMMRVVG-KLGRILGPRGLMPNPKTGTVT  144 (227)
T ss_pred             ----HH----HHHcCCC---EeCHHHHHHH------HHcCCccCCEEEECHHHHHHHH-HhccccccccCCCCCCCCCcc
Confidence                22    3456764   8899999875      4567899999999999999999 7999999999999999987 5


Q ss_pred             ccHHHHHHHHHc-cceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCC--CCccEEEEEcCCCcceEEec
Q 014066          180 QNWKEQIEKVCG-SALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKW--GNVRSFHLKLLESLALPVYQ  256 (431)
Q Consensus       180 ~dLk~~Ieka~~-St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~--~NIksI~LKtt~S~aLPIY~  256 (431)
                      .|+.+.|+++.+ ++.|+.++.++++++||+++|+++||+|||.+++++|.+..|.+|  ++|++|||+|||||++.|-.
T Consensus       145 ~di~~~I~~~k~g~v~~r~~k~g~i~~~VG~~~m~~e~i~eNi~a~l~~i~~~~p~~~kg~~Ik~v~lssTmGp~~~i~~  224 (227)
T TIGR01169       145 ADVAKAVKNAKKGQVEFRADKAGNIHASIGKVSFDSEKLKENLEALLDAIKKAKPSGAKGQYIKNIALSSTMGPGIKVDL  224 (227)
T ss_pred             ccHHHHHHHHHcCcEEEEeCCCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHhCccccCCCEEEEEEEECCCCCCEEecc
Confidence            799999999997 689999999999999999999999999999999999999999999  89999999999999998754


Q ss_pred             c
Q 014066          257 A  257 (431)
Q Consensus       257 s  257 (431)
                      .
T Consensus       225 ~  225 (227)
T TIGR01169       225 S  225 (227)
T ss_pred             C
Confidence            3

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

>KOG1570 consensus 60S ribosomal protein L10A [Translation, ribosomal structure and biogenesis]

Probab=99.96  E-value=9.8e-30  Score=238.27  Aligned_cols=216  Identities=25%  Similarity=0.398  Sum_probs=184.1

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccC-CCCCccceeeEeCCCCCCCCCCCCCCEEEEEe
Q 014066           16 GSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQVSRTNAFKIPLPHSLLGNDSDNPPEICLIM   94 (431)
Q Consensus        16 ~s~v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKki-p~k~k~~p~~I~LPHpl~~~~~~~~~kICLIv   94 (431)
                      ++.++++++..||..++.+..    ..|++.|-+  +|++|++|++| |.+...+.+.+.|||..+.     ..++|+|.
T Consensus         2 ~sk~~~~~l~~~v~~i~~~~~----~~k~~~~~~--tielQi~Lk~ydp~Kdkr~s~~~~l~~~~~p-----~~k~cv~g   70 (218)
T KOG1570|consen    2 SSKVEEEALREAVAEILLRSK----EFKNRNFVE--TIELQINLKNYDPQKDKRFSGSVKLPHAPRP-----KMKVCVIG   70 (218)
T ss_pred             CcchhHHHHHHHHHHHHhccc----cccCcccee--eeeeeecccccChhHhCcccceEecCCCCCc-----cceeeeec
Confidence            356889999999999887542    234455555  99999999998 5667778899999999875     78999999


Q ss_pred             cCCCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCee
Q 014066           95 DDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVP  174 (431)
Q Consensus        95 kD~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~Pip  174 (431)
                      +..+.         +...+-++|...+-.+++|.+..+-   ..+|+++||+|||..+++.+||++||+.+-+.|++|.+
T Consensus        71 d~~h~---------~~ak~~~~p~m~~d~lkklnk~Kkl---vkklakky~~flase~~ikQlpr~lgp~l~kaGkfps~  138 (218)
T KOG1570|consen   71 DQQHC---------DEAKAIDLPAMDIDALKKLNKNKKL---VKKLAKKYDAFLASESLIKQLPRILGPGLSKAGKFPSL  138 (218)
T ss_pred             hHHHH---------HHhhcCCCCCcCHHHHhcCcccchH---HHHHHHHhhhHHhhHHHHHHhhhhhcccccccccCCcc
Confidence            86543         1234556765555556666554444   88999999999999999999999999999999999999


Q ss_pred             ecCCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEE
Q 014066          175 VDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPV  254 (431)
Q Consensus       175 V~lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPI  254 (431)
                      +.- .+++.+.++..+.+..|++++--|++|.|||+.|++++|+.||.-.++++++.+.++|+|+++++||+||+++.-+
T Consensus       139 l~~-~d~l~akv~evk~t~k~q~kkvKOGavaVGhv~M~d~el~~nI~l~vnFlVSlLKknwQNvral~iKst~g~p~~l  217 (218)
T KOG1570|consen  139 LVH-GDSLYAKVEEVKSTIKFQMKKVLCLAVAVGHVGMTDEELVYNIHLAVNFLVSLLKKNWQNVRALYIKSTMGKPQRL  217 (218)
T ss_pred             ccc-hHHHHHHHHHHHhhHHHHHHhhhheeeeecCCCCCHHHHHHhhhhhhhhHHHHHhhcccchhheeeccCCCCceec
Confidence            975 4799999999999999999999999999999999999999999999999999999999999999999999998766


Q ss_pred             e
Q 014066          255 Y  255 (431)
Q Consensus       255 Y  255 (431)
                      |
T Consensus       218 y  218 (218)
T KOG1570|consen  218 Y  218 (218)
T ss_pred             C
Confidence            5

>KOG1569 consensus 50S ribosomal protein L1 [Translation, ribosomal structure and biogenesis]

Probab=99.81  E-value=5.2e-19  Score=174.03  Aligned_cols=185  Identities=20%  Similarity=0.230  Sum_probs=149.2

Q ss_pred             eEEEEEEecc----CCCCCccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCCchhHHHHHHHhhhCCCCcceeeehhhh
Q 014066           52 FVYLILTLKK----IPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKL  127 (431)
Q Consensus        52 ~V~L~VtLKk----ip~k~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~~~t~~e~kekl~a~~i~i~kVI~lkkL  127 (431)
                      ++++.|.|..    ........++.+++|||+.+.   +...|.+|++|....        +.++++|+   .++|..+|
T Consensus       114 ~~~l~i~l~~~a~~~~k~~~~~~~~v~vP~Pf~~g---e~r~IavFtn~~~kv--------eeArEaGA---~l~GG~dL  179 (323)
T KOG1569|consen  114 PVNLRIELNMLAEKETKGVAPLQGSVTVPHPFAHG---EIRKIAVFTNDASKV--------EEAREAGA---ALAGGTDL  179 (323)
T ss_pred             ceeeeEEeeeeeeeeccccCCCceeEeccccCCCC---ceEEEEEecCChHHH--------HHHHhccc---cccccHHH
Confidence            5555555544    222223456789999999874   367799999997542        22445565   47888899


Q ss_pred             hhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-cccHHHHHHHHHcc--ceEEccCCCEEE
Q 014066          128 KTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-HQNWKEQIEKVCGS--ALLYLRTGTCSV  204 (431)
Q Consensus       128 k~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~~dLk~~Ieka~~S--t~~~l~kG~~~s  204 (431)
                      .++++.    -.+.-+||+++|.++||+.|-+ |++.+++|  ||+|..++ +.||.+.|+++.++  +.|+....+.++
T Consensus       180 IkkI~~----Gei~~Dyd~~vA~Pdim~~l~~-Lr~iL~~r--~Pn~k~gtvg~nipemieeFk~G~~i~~d~~~~~~~~  252 (323)
T KOG1569|consen  180 IKKIKS----GEIVADYDFYVAHPDIMPELNR-LRKILGPR--FPNPKRGTVGRNIPEMIEEFKNGHEIKFDEERENILQ  252 (323)
T ss_pred             HHHhhc----CeEEEeeceeeecchHHHHHHH-HHHHhccc--CCCcccCccccchHHHHHHhhCCcccccccccCceee
Confidence            999886    4566669999999999999988 78888877  99999988 78999999999998  777776666679


Q ss_pred             EEEecCCCChhHHHHHHHHHHHHHHHhcCCCC-CCccEEEEEcCCCcceEEecc
Q 014066          205 LKVGKVSMGAEDIAENVIAAINGVAEIVPRKW-GNVRSFHLKLLESLALPVYQA  257 (431)
Q Consensus       205 VkVG~~sMs~eqIvENI~avl~~l~~~lPkg~-~NIksI~LKtt~S~aLPIY~s  257 (431)
                      ++||+++|+.+||.+||.++++.+..+.|... .+|.+.+|+|++|+.+-|-+.
T Consensus       253 ~~vGkl~mt~e~i~~Ni~a~i~av~t~rp~~~G~fv~ra~L~Ss~g~~i~l~i~  306 (323)
T KOG1569|consen  253 IKVGKLDMTSEQILANIQAVIAAVCTHRPKALGPFVVRALLRSSPGEGILLKID  306 (323)
T ss_pred             eeeeeecCCHHHHHHHHHHHHHHHHhcCCcccCceeeeeEeecCCCCceeEecc
Confidence            99999999999999999999999999999764 479999999999998776655

>TIGR01170 rplA_mito ribosomal protein L1, mitochondrial

Probab=99.66  E-value=7.3e-16  Score=138.97  Aligned_cols=137  Identities=18%  Similarity=0.142  Sum_probs=103.3

Q ss_pred             HHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCCCccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCCchh
Q 014066           24 VERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLT  103 (431)
Q Consensus        24 V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~~~t  103 (431)
                      +.+|++-|.++..     .. -.|.+  +|+|+|+|.--+.+.+ ..+.|.|||++++     +.+||||+++.+..   
T Consensus         3 i~eA~~~lk~~~~-----~~-~~~~e--tvel~i~L~~~~~~~~-irg~v~LP~~~~k-----~~kV~Vf~~~~~~~---   65 (141)
T TIGR01170         3 VIKAFVYLKTKSI-----SM-YVPKQ--SVNLDIGLLMELGKES-VQGMFSFPHPFGK-----EPKIAVFTKGASEV---   65 (141)
T ss_pred             HHHHHHHHHHhcc-----cC-CCCCc--eEEEEEEECCCCCCCC-ceEEEECCCCCCC-----CCEEEEECCChHHH---
Confidence            4567776665421     11 24665  9999999954343444 6789999999976     57999999987521   


Q ss_pred             HHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-cccH
Q 014066          104 KDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-HQNW  182 (431)
Q Consensus       104 ~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~~dL  182 (431)
                           +.+++.|+   .+++.++|..+++.    .++.. ||+|||++++|+.|+ .||+.|++||+||+|+.+| ..|+
T Consensus        66 -----~~Ak~aGa---~~vg~edLi~~i~~----g~~~~-fd~~iA~~~~m~~l~-~Lg~iLGprGlMP~~k~gTv~~di  131 (141)
T TIGR01170        66 -----EEAREAGA---DYVGGDDLIKKIED----GEIKP-FDYLIAHPDIVPELA-QLRRLLGPKGLMPSPKRGTVGDNL  131 (141)
T ss_pred             -----HHHHHcCC---CEeCHHHHHHHHhc----CCccc-ccEEEECHHHHHHHH-HhhcccccCcCCCCCCCCCcccCH
Confidence                 22345666   38999999777763    22211 999999999999999 8999999999999999987 5799


Q ss_pred             HHHHHHHHc
Q 014066          183 KEQIEKVCG  191 (431)
Q Consensus       183 k~~Ieka~~  191 (431)
                      ...|+++.+
T Consensus       132 ~~~I~~~k~  140 (141)
T TIGR01170       132 LSMIETFKK  140 (141)
T ss_pred             HHHHHHHhC
Confidence            999998865

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.

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

Probab=89.33  E-value=0.97  Score=40.91  Aligned_cols=61  Identities=25%  Similarity=0.233  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCCC---ccceeeEeCCCCCCCCCCCCCCEEEEE
Q 014066           22 KTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVS---RTNAFKIPLPHSLLGNDSDNPPEICLI   93 (431)
Q Consensus        22 e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k~---k~~p~~I~LPHpl~~~~~~~~~kICLI   93 (431)
                      -.|++||.-|.+|..       .+.-.+.+.|||.++|.....+.   -.++..|.||||+-..    -.++.||
T Consensus        70 yeve~Ai~mLKkfQ~-------lDfT~pkQ~VYldL~Ldm~l~KKkkVePF~s~i~lPypF~~e----iNKv~VF  133 (133)
T PF13003_consen   70 YEVEKAIDMLKKFQI-------LDFTSPKQPVYLDLTLDMKLEKKKKVEPFASVILLPYPFTSE----INKVLVF  133 (133)
T ss_pred             HHHHHHHHHHHhccc-------ccCCCCCCcEEEeeeehhhhccccccCCCccceecccccccc----cceeeeC
Confidence            468999999998642       23333456999999997765542   2466789999999753    5666665

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	431
3o58_A	217	L10A, 60S ribosomal protein L1; ribosomal RNA and	3e-12
3iz5_A	216	60S ribosomal protein L1 (L1P); eukaryotic ribosom	1e-11
2zkr_5	212	60S ribosomal protein L10A; protein-RNA complex, 6	6e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
1i2a_A	219	50S ribosomal protein L1P; primary rRNA-binding pr	3e-07
1mzp_A	217	50S ribosomal protein L1P; ribosome, RNA-protein c	1e-06

>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 = 64.8 bits (158), Expect = 3e-12
 Identities = 29/119 (24%), Positives = 55/119 (46%), Gaps = 1/119 (0%)

Query: 127 LKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQI 186
           LK   +  +  +KL   Y+ F+A + ++  +P+LLG    K  K P PV     +   ++
Sbjct: 90  LKKLNKNKKLIKKLSKKYNAFIASEVLIKQVPRLLGPQLSKAGKFPTPVSHN-DDLYGKV 148

Query: 187 EKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK 245
             V  +    L+   C  + VG V M  + +   ++ ++N    ++ + W NV S  +K
Sbjct: 149 TDVRSTIKFQLKKVLCLAVAVGNVEMEEDVLVNQILMSVNFFVSLLKKNWQNVGSLVVK 207

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

 Score = 52.0 bits (125), Expect = 6e-08
 Identities = 28/119 (23%), Positives = 56/119 (47%), Gaps = 1/119 (0%)

Query: 127 LKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQI 186
           L+      +A + L D  D F+A+K ++  + + LG     + K+P P+D    +  E I
Sbjct: 85  LEELGGDDDAAKDLADDTDFFIAEKGLMQDIGRYLGTVLGPRGKMPEPLDPD-DDVVEVI 143

Query: 187 EKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK 245
           E++  +  L          +VG   M AE+IA+N+   +  +   + +   N+ + ++K
Sbjct: 144 ERMKNTVQLRSGERRTFHTRVGAEDMSAENIADNIDVILRRLHADLEKGPLNIDTVYVK 202

>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 = 52.5 bits (125), Expect = 2e-07
 Identities = 71/465 (15%), Positives = 127/465 (27%), Gaps = 149/465 (32%)

Query: 57  LTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNL 116
              K I  V   +AF          ++ D     C  + D PKS L+K   +  I     
Sbjct: 16  YQYKDILSVFE-DAFV---------DNFD-----CKDVQDMPKSILSK-EEIDHIIMSKD 59

Query: 117 PITKVIKI-----TKLKTDYRPFEAKRKLCDSYDIFLADK-RVVPLLPKLLGKHFFKKKK 170
            ++  +++     +K +   + F  +  L  +Y  FL    +     P ++ + + +++ 
Sbjct: 60  AVSGTLRLFWTLLSKQEEMVQKF-VEEVLRINYK-FLMSPIKTEQRQPSMMTRMYIEQRD 117

Query: 171 IP---VPVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLK----VGKVSMGAEDIAENVIA 223
                  V  K+   + Q       ALL LR     ++      GK  +  +      + 
Sbjct: 118 RLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177

Query: 224 AI--NGVAEIVPRKW---GNVRSFH--LKLLESLALPVYQAVPDLKLKIEGVKENEGEGQ 276
                 +       W    N  S    L++L+ L   +YQ  P+   + +          
Sbjct: 178 CKMDFKIF------WLNLKNCNSPETVLEMLQKL---LYQIDPNWTSRSDH--------- 219

Query: 277 DKDSEKENAEDVNDHGSKKKLKKKKGRIHEVRYMDSTIGEVLDE---------------- 320
              + K     +      ++L K K       Y +  +  VL                  
Sbjct: 220 -SSNIKLRIHSIQAE--LRRLLKSK------PYENCLL--VLLNVQNAKAWNAFNLSCKI 268

Query: 321 ----------DELGSDDDGEGDVGESEDGEDSEDGKMSSGDILGKKRKKGDKERAQKLPK 370
                     D L +       +         ++ K     +L K        R Q LP+
Sbjct: 269 LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK----SLLLKYLD----CRPQDLPR 320

Query: 371 KVAKVKKDELS------SDMKN-----EDVGKQKKQKKVGLSLKN--------------- 404
           +V       LS       D        + V   K    +  SL                 
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380

Query: 405 ----------------------DEEKSSGKEKKKSMLGKVKKEKK 427
                                 D      K  K S++ K  KE  
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425

>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 = 43.3 bits (101), Expect = 1e-04
 Identities = 46/289 (15%), Positives = 84/289 (29%), Gaps = 78/289 (26%)

Query: 34  WLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFKIPLPHSLLGNDS----DNPPE 89
           WL   +      +LE    +   +      +   ++  K+ + HS+           P E
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI-HSIQAELRRLLKSKPYE 244

Query: 90  ICL-IMDD--RPKS----NL-------TKDA-VMKKIKNDNLPITKVIKITKLKTDYRPF 134
            CL ++ +    K+    NL       T+   V   +       T  I +        P 
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAAT---TTHISLDHHSMTLTPD 301

Query: 135 EAKRKL-----CDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKH-QNWK----E 184
           E K  L     C   D+        P    ++ +         +   L    NWK    +
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAES--------IRDGLATWDNWKHVNCD 353

Query: 185 QIEKVCGSALLYLRTGT-------CSVLKVGKVSMGAED--IAENVIAAINGVAEIVPRK 235
           ++  +  S+L  L            SV              I   +++ I          
Sbjct: 354 KLTTIIESSLNVLEPAEYRKMFDRLSVFP--------PSAHIPTILLSLI---------- 395

Query: 236 WGN---------VRSFHLK-LLESLALPVYQAVPDLKLKIEGVKENEGE 274
           W +         V   H   L+E        ++P + L+++   ENE  
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA 444

>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 = 42.5 bits (99), Expect = 3e-04
 Identities = 42/373 (11%), Positives = 99/373 (26%), Gaps = 115/373 (30%)

Query: 16  GSRVSPKTVERA--VKALLKWLKSNSQTQKPQLLEQDDFVYL---------ILTLKKIPQ 64
               +   V R      L + L           L     V +          + L     
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLE---------LRPAKNVLIDGVLGSGKTWVAL----D 169

Query: 65  VSRTNAFKIPLPHSL----LGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITK 120
           V  +   +  +   +    L N +   PE  L M  +    +  +   +   + N+ +  
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNS--PETVLEMLQKLLYQIDPNWTSRSDHSSNIKL-- 225

Query: 121 VIKITKLKTDYRPFEAKRKLCDSYDIF--LADKRVVPLLPKLLGKHF------------- 165
             +I  ++ + R     +   +   +   + + +            F             
Sbjct: 226 --RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW--------NAFNLSCKILLTTRFK 275

Query: 166 ----FKKKKIPVPVDLKHQNW---KEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIA 218
               F        + L H +     ++++ +    L                    +D+ 
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL----------------DCRPQDLP 319

Query: 219 ENVIA----AINGVAEIV---PRKWGNVRSFHL-KLLESLALPVYQAVPDL------KLK 264
             V+      ++ +AE +      W N +  +  KL   +   +    P        +L 
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379

Query: 265 I--EGVKENEGEGQDK-------DSEKENAEDVNDHGSKKKLKKKKG-----RIHEVRYM 310
           +                      D  K +   V +   K  L +K+       I  + Y+
Sbjct: 380 VFPPSAHIPT-----ILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI-YL 433

Query: 311 DSTIGEVLDEDEL 323
           +  + ++ +E  L
Sbjct: 434 ELKV-KLENEYAL 445

>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 = 42.5 bits (99), Expect = 3e-04
 Identities = 51/337 (15%), Positives = 108/337 (32%), Gaps = 77/337 (22%)

Query: 22  KTVERAVKALLK----WLKSNSQTQKPQ-LLEQDDFVYLILTLKKIPQ------VSRTNA 70
           + V++ V+ +L+    +L S  +T++ Q  +    ++     L    Q      VSR   
Sbjct: 77  EMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP 136

Query: 71  FKIPLPHSLLGNDSDNPPEICLI--MDDRPKSNLTKDAVMKKIKNDNLPITKV--IKITK 126
           +   L  +LL      P +  LI  +    K+ +  D  +       +   K+  + +  
Sbjct: 137 YL-KLRQALL---ELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMD-FKIFWLNLKN 191

Query: 127 LKTDYRPFEAKRKLC---DSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWK 183
             +     E  +KL    D      +D      L     +   ++        LK + ++
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL-------LKSKPYE 244

Query: 184 EQIEKVCGSALLYLR-----------TGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIV 232
                     LL L              +C +L    ++   + + + + AA      + 
Sbjct: 245 N--------CLLVLLNVQNAKAWNAFNLSCKIL----LTTRFKQVTDFLSAATTTHISLD 292

Query: 233 PRKWGNVRSFHLKLLESLA------LPVYQAVPDLKLKIEGVKENEGEGQDKDSEKENAE 286
                        LL          LP  + +     ++  + E+    +D  +  +N +
Sbjct: 293 HHSMTLTPDEVKSLLLKYLDCRPQDLPR-EVLTTNPRRLSIIAESI---RDGLATWDNWK 348

Query: 287 DVNDHGSKKKLKKKKGRIHEVRYMDSTIGEVLDEDEL 323
            VN      KL            ++S++  VL+  E 
Sbjct: 349 HVN----CDKLTTI---------IESSL-NVLEPAEY 371

>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 = 50.1 bits (120), Expect = 3e-07
 Identities = 25/123 (20%), Positives = 58/123 (47%), Gaps = 9/123 (7%)

Query: 127 LKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVP----VDLKHQNW 182
           ++   +     RK+  ++D F+A   ++PL+ + +G     + K+P P     ++K    
Sbjct: 85  IEELGKNKRKLRKIAKAHDFFIAQADLMPLIGRYMGVILGPRGKMPKPVPANANIK---- 140

Query: 183 KEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSF 242
              +E++  + ++  R      + VG   M  E I +N+ A +N VA+   +   +++  
Sbjct: 141 -PLVERLKKTVVINTRDKPYFQVLVGNEKMTDEQIVDNIEAVLNVVAKKYEKGLYHIKDA 199

Query: 243 HLK 245
           ++K
Sbjct: 200 YVK 202

>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 = 47.7 bits (114), Expect = 1e-06
 Identities = 32/126 (25%), Positives = 55/126 (43%), Gaps = 13/126 (10%)

Query: 124 ITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVP----VDLKH 179
           + KL+   RP +   KL    + FL ++  + L  ++LG     + K P P     D+  
Sbjct: 90  LQKLQGQKRPVK---KLARQNEWFLINQESMALAGRILGPALGPRGKFPTPLPNTADIS- 145

Query: 180 QNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNV 239
               E I +   S L+  +      + +G   M  ED+AEN IA +N +         N+
Sbjct: 146 ----EYINRFKRSVLVKTKDQPQVQVFIGTEDMKPEDLAENAIAVLNAIENKAK-VETNL 200

Query: 240 RSFHLK 245
           R+ ++K
Sbjct: 201 RNIYVK 206

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	431
1i2a_A	219	50S ribosomal protein L1P; primary rRNA-binding pr	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
1mzp_A	217	50S ribosomal protein L1P; ribosome, RNA-protein c	100.0
3o58_A	217	L10A, 60S ribosomal protein L1; ribosomal RNA and	100.0
3iz5_A	216	60S ribosomal protein L1 (L1P); eukaryotic ribosom	100.0
2wwq_5	234	50S ribosomal protein L1; ribosomal protein, ribon	100.0
3qoy_A	242	50S ribosomal protein L1; beta-alpha-beta, structu	100.0
3bbo_D	352	Ribosomal protein L1; large ribosomal subunit, spi	100.0
3u42_A	229	50S ribosomal protein L1; rossmann fold, rRNA bind	100.0
2ftc_A	189	Mitochondrial ribosomal protein L1; mitochondrial	100.0
2ov7_A	137	50S ribosomal protein L1; 2.30A {Thermus thermophi	99.75

>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=1.4e-45  Score=351.19  Aligned_cols=212  Identities=23%  Similarity=0.293  Sum_probs=186.2

Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC-C-ccceeeEeCCCCCCCCCCCCCCEEEEEecC
Q 014066           19 VSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV-S-RTNAFKIPLPHSLLGNDSDNPPEICLIMDD   96 (431)
Q Consensus        19 v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k-~-k~~p~~I~LPHpl~~~~~~~~~kICLIvkD   96 (431)
                      +++++|.+||++|+++.       +...|+|  +|+|+|+|++++.+ . +..++.|.|||++++     +.+||||++|
T Consensus         1 ~~~~~l~eAv~~llk~~-------~~~kf~e--tVel~i~LK~~dp~~d~q~vrg~v~LPh~~~k-----~~~V~Vf~~~   66 (219)
T 1i2a_A            1 MDREALLQAVKEARELA-------KPRNFTQ--SFEFIATLKEIDMRKPENRIKTEVVLPHGRGK-----EAKIAVIGTG   66 (219)
T ss_dssp             CCHHHHHHHHHHHHHHS-------CCCSSCC--EEEEEEEESSCCTTSGGGCCEEEEECTTCCSS-----CCCEEEECCH
T ss_pred             CCHHHHHHHHHHHHHhc-------ccCCCCc--eEEEEEEecccCCcccccccceEEecCCCCCC-----CcEEEEEcCc
Confidence            35889999999988863       2356876  99999999887544 4 466789999999864     7899999998


Q ss_pred             CCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcch-HHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeee
Q 014066           97 RPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRP-FEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPV  175 (431)
Q Consensus        97 ~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKs-fE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV  175 (431)
                      ++.     ++    +.++|+   .+++.++| .+|+. ++++|+|+.+||+|||++++|+.||++||+.||++|+||+|+
T Consensus        67 ~~~-----~~----A~~aGa---~~vg~~~L-~ki~~~kk~~r~l~~~fD~~lA~~~~m~~l~k~LGk~LgprgkmP~pk  133 (219)
T 1i2a_A           67 DLA-----KQ----AEELGL---TVIRKEEI-EELGKNKRKLRKIAKAHDFFIAQADLMPLIGRYMGVILGPRGKMPKPV  133 (219)
T ss_dssp             HHH-----HH----HHHTTC---EEECHHHH-HHHHHCHHHHHHHHHHCSEEEEEGGGHHHHHHHTHHHHGGGTCCCEEE
T ss_pred             hhH-----HH----HHHCCC---CEEcHHHH-HHHHhhhhhhhhchhhCCEEEECHHHHHHHHHHHhhhhcccCCCCccc
Confidence            731     22    346676   69999999 77764 667899999999999999999999999999999999999999


Q ss_pred             cCCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEEe
Q 014066          176 DLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVY  255 (431)
Q Consensus       176 ~lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPIY  255 (431)
                      .+ +.||..+|+++++++.|++++++|++++||+++|+++||+|||.+++++|.+.+|.+|+||++|||||||||++|||
T Consensus       134 ~g-t~dv~~~v~~~k~~v~~r~~k~~~i~v~VG~~~~~~e~L~eNi~a~i~~l~~~~p~~~~~ik~v~lksTmgp~i~iy  212 (219)
T 1i2a_A          134 PA-NANIKPLVERLKKTVVINTRDKPYFQVLVGNEKMTDEQIVDNIEAVLNVVAKKYEKGLYHIKDAYVKLTMGPAVKVK  212 (219)
T ss_dssp             CT-TCCCHHHHHHHHTEEEEECTTSSEEEEEEEETTSCHHHHHHHHHHHHHHHHHHSTTGGGGEEEEEEEETTSCCEECC
T ss_pred             CC-CccHHHHHHHHhcceEEEecCCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHhCCccccceEEEEEECCCCCCEEeE
Confidence            99 58999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccC
Q 014066          256 QAV  258 (431)
Q Consensus       256 ~s~  258 (431)
                      .+.
T Consensus       213 ~~~  215 (219)
T 1i2a_A          213 KEK  215 (219)
T ss_dssp             ---
T ss_pred             hhh
Confidence            875

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

Probab=100.00  E-value=2.2e-46  Score=356.16  Aligned_cols=211  Identities=25%  Similarity=0.323  Sum_probs=189.1

Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccC-CCC-CccceeeEeCCCCCCCCCCCCCCEEEEEecC
Q 014066           19 VSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQV-SRTNAFKIPLPHSLLGNDSDNPPEICLIMDD   96 (431)
Q Consensus        19 v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKki-p~k-~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD   96 (431)
                      ++++++.+||+.+++       ..+.+.|+|  +|+|+|+|+++ |.+ .+...+.|.|||++++     ..+||||+++
T Consensus         3 ~~~~~~~eav~~~~~-------~~~~~kF~e--tvel~i~L~~~dp~k~d~~~rg~v~LPh~~~k-----~~kV~Vf~~~   68 (216)
T 3j21_A            3 FDRQKIVKAVKEAKA-------RAKPRNFTQ--SVEVAVNLKDIDLKRPENRFKLEVVLPHGRGK-----DVKIAVIADG   68 (216)
T ss_dssp             SSCSSCCCCTTTTCC-------CCCCSSSCC--EEEEEEEESSCCSSSGGGSCCEEEECSSCCSS-----CCCEEECCCS
T ss_pred             CCHHHHHHHHHHHHH-------hCcccCCCc--eEEEEEEECCCCCCCcCceeeEEEeCCCCCCC-----CcEEEEECCH
Confidence            567788899988876       234567887  99999999987 555 4667789999999976     6799999986


Q ss_pred             CCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeec
Q 014066           97 RPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVD  176 (431)
Q Consensus        97 ~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~  176 (431)
                      +..     +    .+.++|+.   +++.++|++.|+.|+++|+|+.+||+||||+++|+.||++||+.||+||+||+|+.
T Consensus        69 ~~~-----~----~Ak~aGad---~vg~e~L~k~~k~~k~~kkl~~~fD~~lA~~~im~~l~k~LGk~LgprgkmP~pk~  136 (216)
T 3j21_A           69 AVA-----E----AARKLGLD---VISSAELEEIASSPRQARKLAKKYDFFIAEAPLMPKIGRYLGRYLGPRNKMPVVVP  136 (216)
T ss_dssp             HHH-----H----HHHHHTCC---CCCTTHHHHHHHCCCSSSCCSSSCSEEEBCGGGHHHHHHHHHHHHTTSSSSCCTTT
T ss_pred             HHH-----H----HHHhcCCC---ccCHHHHHHHhcCHHHHhhhhhhCCEEEeCHHHHHHHHHHHHHHhccCCccCCCcC
Confidence            531     2    24566774   89999999888888889999999999999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEEe
Q 014066          177 LKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVY  255 (431)
Q Consensus       177 lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPIY  255 (431)
                      ++..|+..+|+++++++.|++++++|++++||+++|+++||+|||.+++++|.+.+|.+|+||++|||||||||++|||
T Consensus       137 gtv~dv~~~v~~~k~~v~~r~~k~~~i~v~VG~~~~~~e~L~eNi~a~i~~l~~~~p~~~k~Iksi~lksTmgp~i~i~  215 (216)
T 3j21_A          137 PTLTDLTPIVEKLKKTVRIQLKNNPVVHAPVGTEKMSDEEIAENIEAVLNAIIGKLERGESQVKSVYVKTTMGPAVKIE  215 (216)
T ss_dssp             TCBCSHHHHHHHHTCEEEEEEETTTEEECCCEESSSCHHHHHHHHHHHHHHHHHSCCCSSCSEEEEEEEESSSCCEECC
T ss_pred             CcHHHHHHHHHHHHhhceeecCCCCEEEEEecCCCCCHHHHHHHHHHHHHHHHHhccccccceEEEEEECCCCCCEEcc
Confidence            8757999999999999999999999999999999999999999999999999999999999999999999999999998

>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=4.2e-45  Score=346.46  Aligned_cols=208  Identities=20%  Similarity=0.233  Sum_probs=185.0

Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccC-CCC-CccceeeEeCCCCCCCCCCCCCCEEEEEecC
Q 014066           19 VSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQV-SRTNAFKIPLPHSLLGNDSDNPPEICLIMDD   96 (431)
Q Consensus        19 v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKki-p~k-~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD   96 (431)
                      ++++++.+||++|+++.       +...|+|  +|+|+|+||++ |.+ .+..++.|.|||++++     +.+||||++|
T Consensus         1 ~~~~~l~eAv~~llk~~-------~~~kf~e--tvel~i~Lk~~dp~k~d~~~rg~v~LPh~~~k-----~~~V~Vf~~~   66 (212)
T 2zkr_5            1 MADQEIENAVSRALEDA-------PERNFRE--TVDLAVNLRDLDLNDPSNRVDESVVLPAGTGQ-----ETTIVVFAEG   66 (212)
T ss_dssp             -CCTTHHHHHHHHHHTS-------CCCSSCC--EEEEEEEESSCCTTTTTTCCCCEEECSSCCSS-----CCCEEEECCH
T ss_pred             CCHHHHHHHHHHHHHhc-------ccCCCCc--eEEEEEEeCCCCCCcccccCceEEECCCCCCC-----CcEEEEEcCc
Confidence            46788999999988853       3456876  99999999888 443 4566789999999864     7899999998


Q ss_pred             CCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcc-hHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeee
Q 014066           97 RPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYR-PFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPV  175 (431)
Q Consensus        97 ~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyK-sfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV  175 (431)
                      ++.     ++    +.++|+   .+++.++| .+++ .|+++|+++.+||+|||++++|+.||++||+.||++|+||+|+
T Consensus        67 ~~~-----~~----A~~aGa---~~vg~~~L-~ki~~~kk~~k~~~~~fD~~lA~~~~m~~l~~~LGk~LgprgkmP~pk  133 (212)
T 2zkr_5           67 ETA-----LR----AEEVAD---DVLDEDEL-EELGGDDDAAKDLADDTDFFIAEKGLMQDIGRYLGTVLGPRGKMPEPL  133 (212)
T ss_dssp             HHH-----HH----HHHHTS---CCCCHHHH-HHHTTCHHHHHHHHHHCSEEEECTTTHHHHHHHTHHHHHHHTCCEEEC
T ss_pred             hhH-----HH----HHhcCC---CEeCHHHH-HHHHhhHHhhhcccccCCEEEECHHHHHHHHHHHhhhccccCCcCccc
Confidence            731     22    345676   58999999 7776 6999999999999999999999999999999999999999999


Q ss_pred             cCCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEE
Q 014066          176 DLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPV  254 (431)
Q Consensus       176 ~lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPI  254 (431)
                      .+ +.||...|+++++++.|++++++|++++||+++|+++||+|||.+++++|.+.+|.+|+||++|||||||||+++|
T Consensus       134 ~g-t~dv~~~i~~~k~~v~~r~~k~~~i~v~VG~~~~~~e~L~eNi~a~i~~l~~~~p~~~~~ik~v~lksTmgp~i~i  211 (212)
T 2zkr_5          134 DP-DDDVVEVIERMKNTVQLRSGERRTFHTRVGAEDMSAENIADNIDVILRRLHADLEKGPLNIDTVYVKTTMGPAMEV  211 (212)
T ss_dssp             CS-SSCCHHHHHHHHTEEECCCSSSSEEEEEEEETTSCHHHHHHHHHHHHHHHHTTTCCCTTTEEEEEEEESSSCCEEC
T ss_pred             CC-CcCHHHHHHHHHcceEEEecCCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCccccccEEEEEEECCCCCCEEC
Confidence            99 5899999999999999999999999999999999999999999999999999999999999999999999999987

>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=1.7e-44  Score=343.31  Aligned_cols=211  Identities=22%  Similarity=0.252  Sum_probs=186.8

Q ss_pred             CCCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC-C-ccceeeEeCCCCCCCCCCCCCCEEEEEec
Q 014066           18 RVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV-S-RTNAFKIPLPHSLLGNDSDNPPEICLIMD   95 (431)
Q Consensus        18 ~v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k-~-k~~p~~I~LPHpl~~~~~~~~~kICLIvk   95 (431)
                      .|+++++++||++|++| +    ..+...|+|  +|+|+|+|++++.+ . +..++.|.|||++++     +.+||||++
T Consensus         2 ~v~~~~l~~Av~~ll~~-~----~~~~~kf~e--tvel~i~LK~~dp~~d~q~~rg~v~LPh~~~k-----~~~V~Vf~~   69 (217)
T 1mzp_A            2 LADKESLIEALKLALST-E----YNVKRNFTQ--SVEIILTFKGIDMKKGDLKLREIVPLPKQPSK-----AKRVLVVPS   69 (217)
T ss_dssp             CCCHHHHHHHHHHHHST-T----TCCCCSSCC--EEEEEEEESSCCGGGTTTCCEEEEECSSCCSS-----CCCEEEECC
T ss_pred             ccCHHHHHHHHHHHHhh-c----cccccCCCc--cEEEEEEecCCCCcccccccceeecCCCCCCC-----CcEEEEEcC
Confidence            37899999999999987 2    134577876  99999999888554 4 467789999999864     789999999


Q ss_pred             CCCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcc-hHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCee
Q 014066           96 DRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYR-PFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVP  174 (431)
Q Consensus        96 D~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyK-sfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~Pip  174 (431)
                      |++.     ++    +.++|+  ..+++.++| .+++ .|+++|+|+.+||+|||++++|+.||++||+.||++|+||+|
T Consensus        70 ~~~~-----~~----A~~aGa--d~~vg~~~L-~ki~~~kk~~k~~~~~fD~~lA~~~~m~~l~~~LG~~LgprgkmP~p  137 (217)
T 1mzp_A           70 SEQL-----EY----AKKASP--KVVITREEL-QKLQGQKRPVKKLARQNEWFLINQESMALAGRILGPALGPRGKFPTP  137 (217)
T ss_dssp             HHHH-----HH----HHHTCC--SEECCHHHH-HHHTTCHHHHHHHHHSCSEEEECGGGHHHHHHHTHHHHGGGTCCEEE
T ss_pred             chhH-----HH----HHhcCC--CeeeCHHHH-HHHHhhHHhhhhchhhCCEEEECHHHHHHHHHHHhhhccccCCCCcc
Confidence            8731     22    345676  248999999 6665 478889999999999999999999999999999999999999


Q ss_pred             ecCCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEE
Q 014066          175 VDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPV  254 (431)
Q Consensus       175 V~lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPI  254 (431)
                      +.+ +.||...|+++++++.|++++++|++++||+++|+++||+|||.+++++|.+.+|. |+||++|||||||||+++|
T Consensus       138 ~~g-t~dv~~~v~~~k~~v~~r~~k~~~i~v~VG~~~~~~e~L~eNi~a~i~~l~~~~p~-~~~ik~v~lksTmgp~i~i  215 (217)
T 1mzp_A          138 LPN-TADISEYINRFKRSVLVKTKDQPQVQVFIGTEDMKPEDLAENAIAVLNAIENKAKV-ETNLRNIYVKTTMGKAVKV  215 (217)
T ss_dssp             CCS-SSCCHHHHHHHHTEEEEECSSSSEEEEEEEETTSCHHHHHHHHHHHHHHHHHHCCC-TTTEEEEEEEETTSCCEEC
T ss_pred             cCC-CccHHHHHHHHhcceEEEecCCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCcc-chheEEEEEECCCCCCeeC
Confidence            999 58999999999999999999999999999999999999999999999999999999 9999999999999999986

>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=1.4e-48  Score=371.30  Aligned_cols=216  Identities=24%  Similarity=0.383  Sum_probs=192.4

Q ss_pred             CCCCCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccC-CCCCccceeeEeCCCCCCCCCCCCCCEEEEEe
Q 014066           16 GSRVSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQVSRTNAFKIPLPHSLLGNDSDNPPEICLIM   94 (431)
Q Consensus        16 ~s~v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKki-p~k~k~~p~~I~LPHpl~~~~~~~~~kICLIv   94 (431)
                      ||.+++++|++||++|+++.+    +.+.+.|+|  +|+|+|+||++ |.+.+..++.|.|||++++     +.+||||+
T Consensus         1 ~sk~~~~~~~~av~~~l~~~~----~~~~~kf~e--tVel~i~Lk~idp~kd~~~rg~v~LPh~~~k-----~~~V~Vf~   69 (217)
T 3o58_A            1 MSKITSSQVREHVKELLKYSN----ETKKRNFLE--TVELQVGLKNYDPQRDKRFSGSLKLPNCPRP-----NMSICIFG   69 (217)
T ss_dssp             ---CCSTTHHHHTTSSSSCCS----SSSCCSSCC--CCCCCCCSCCSCSSSSSCCSCCCSCCCCCSS-----CCCCCCCS
T ss_pred             CCccCHHHHHHHHHHHHHhcc----cccccCCCc--cEEEEEEecccCCCCCCcCCeEEECCCCCCC-----CcEEEEEc
Confidence            578999999999999998542    135567876  99999999988 5556677789999999875     68999999


Q ss_pred             cCCCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCee
Q 014066           95 DDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVP  174 (431)
Q Consensus        95 kD~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~Pip  174 (431)
                      +|+...         .++++|++   +++.++|+..|+.|+.+|+|+.+||+||||+++|+.||++||+.|++++|||+|
T Consensus        70 ~~~~~~---------~Ak~aGa~---~vg~~~L~~~~k~~k~~~~l~~~fD~~iA~~~im~~l~riLG~~l~p~gk~P~p  137 (217)
T 3o58_A           70 DAFDVD---------RAKSCGVD---AMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLIKQVPRLLGPQLSKAGKFPTP  137 (217)
T ss_dssp             STTSSG---------GGTTTTCC---CCCSTTTTTTSCSSSHHHHHHCSSSCCCCCCCCSSCCSSSSSSTTHHHHCSSCC
T ss_pred             CcHhHH---------HHHHcCCC---EeCHHHHHHHhhchhHhhhhhhhCCEEEECHHHHHHHHHHhhhhhcccCCcCCC
Confidence            997542         23456664   899999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEE
Q 014066          175 VDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPV  254 (431)
Q Consensus       175 V~lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPI  254 (431)
                      ++++ .|+.++|+++++++.|++++++|++++||+++|+++||+|||.+++++|.+.+|++|+||++|||||||||++||
T Consensus       138 ~~vt-~dv~~~v~~~k~~v~~r~~k~~~i~v~IG~~~~~~e~l~eNi~avi~~l~~~~pk~~~~iksi~lksTmgp~i~i  216 (217)
T 3o58_A          138 VSHN-DDLYGKVTDVRSTIKFQLKKVLCLAVAVGNVEMEEDVLVNQILMSVNFFVSLLKKNWQNVGSLVVKSSMGPAFRL  216 (217)
T ss_dssp             SCTT-TCSSSGGGGTTSCCSCCCCSSSCCCCCCCSSSCCSHHHHHHHHHTCSTTTCCSSSCSCCCSCCCCCSSSSCSCCC
T ss_pred             cCCc-hhHHHHHHHHhceEEEEeCCCCEEEEeeccCCCCHHHHHHHHHHHHHHHHHhcccCCceEEEEEEECCCCCCEec
Confidence            9975 799999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             e
Q 014066          255 Y  255 (431)
Q Consensus       255 Y  255 (431)
                      |
T Consensus       217 y  217 (217)
T 3o58_A          217 Y  217 (217)
T ss_dssp             -
T ss_pred             C
Confidence            9

>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=5e-38  Score=301.95  Aligned_cols=201  Identities=15%  Similarity=0.177  Sum_probs=173.1

Q ss_pred             HHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccC-CCC-CccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCC
Q 014066           23 TVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKI-PQV-SRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKS  100 (431)
Q Consensus        23 ~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKki-p~k-~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~  100 (431)
                      .+.+||..|.+        .+...|+|  +|+|+|+| ++ |.+ .+..++.|.|||++++     +.+||||++|++. 
T Consensus        22 ~~~eAv~~lk~--------~~~~kF~e--tvel~i~L-~vdp~k~dq~vrg~V~LPh~~~k-----~~rV~Vfa~~~~~-   84 (234)
T 2wwq_5           22 DINEAIALLKE--------LATAKFVE--SVDVAVNL-GIDARKSDQNVRGATVLPHGTGR-----SVRVAVFTQGANA-   84 (234)
T ss_dssp             CHHHHHHHHHH--------TCCCSSCC--EEEEEEEE-CSCCCSSTTSCCEEEECSSCCSS-----CCCEEEECSSSCH-
T ss_pred             CHHHHHHHHHH--------hccCCCCc--eEEEEEEE-CCCCcccCcccceEEeCCCCCCC-----CcEEEEEcCchhH-
Confidence            46788887643        12356876  99999999 55 554 4667789999999865     6899999999852 


Q ss_pred             chhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-c
Q 014066          101 NLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-H  179 (431)
Q Consensus       101 ~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~  179 (431)
                          ++    +.++|+   .++|.++|..+++..      +.+||+|||++++|+.|++ ||+.|++||+||+|+.+| +
T Consensus        85 ----~~----Ak~aGa---d~vg~edLi~kik~~------~~~fD~~iAtp~~m~~l~~-LGkiLgprGlmP~pk~gTvt  146 (234)
T 2wwq_5           85 ----EA----AKAAGA---ELVGMEDLADQIKKG------EMNFDVVIASPDAMRVVGQ-LGQVLGPRGLMPNPKVGTVT  146 (234)
T ss_dssp             ----HH----HHHHTC---SEECSHHHHHHHHHT------CCCSSEEEECHHHHHHTTS-SCSCCCSSCCSCCTTTTCBC
T ss_pred             ----HH----HHHcCC---CEEcHHHHHHHHHcC------cccCCEEEECHHHHHHHHH-HhhhhccCCCCCCccCCCcc
Confidence                33    335576   489999998887542      4799999999999999999 999999999999999997 7


Q ss_pred             ccHHHHHHHHHcc-ceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCC--CCccEEEEEcCCCcceEEec
Q 014066          180 QNWKEQIEKVCGS-ALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKW--GNVRSFHLKLLESLALPVYQ  256 (431)
Q Consensus       180 ~dLk~~Ieka~~S-t~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~--~NIksI~LKtt~S~aLPIY~  256 (431)
                      .||...|++++++ +.|++.+++|++++||+++|+++||+|||.+++++|.+.+|.+|  +||++|||+|||||++||-.
T Consensus       147 ~dv~~~V~~~k~g~v~~r~~k~~~i~v~VG~~~f~~e~L~eNi~a~i~~l~~~~p~~~kg~~Ik~v~lksTmgp~i~id~  226 (234)
T 2wwq_5          147 PNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDFDADKLKENLEALLVALKKAKPTQAKGVYIKKVSISTTMGAGVAVDQ  226 (234)
T ss_dssp             SCSHHHHHHHHHHEEEECCSSSCEEEEEEEETTSCHHHHHHHHHHHHHHHHHSCCSSCCSCCEEEEEEEESSSCEEEESS
T ss_pred             ccHHHHHHHHHcCeeEEEecCCcEEEEEEcCCCCCHHHHHHHHHHHHHHHHHhCcccccCCeEEEEEEECCCCCCEEEeh
Confidence            8999999999987 69999999999999999999999999999999999999999999  59999999999999999876


Q ss_pred             cC
Q 014066          257 AV  258 (431)
Q Consensus       257 s~  258 (431)
                      +.
T Consensus       227 ~~  228 (234)
T 2wwq_5          227 AG  228 (234)
T ss_dssp             SC
T ss_pred             HH
Confidence            54

>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=1.6e-37  Score=299.57  Aligned_cols=205  Identities=19%  Similarity=0.249  Sum_probs=176.7

Q ss_pred             HHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC-CccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCCc
Q 014066           23 TVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV-SRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSN  101 (431)
Q Consensus        23 ~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k-~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~~  101 (431)
                      .+.+||..++++...     +.+.|.|  +|+|+|+|...|.+ .+.+.+.|.|||++++     ..+||||+++++.  
T Consensus        22 ~l~eAi~~~k~~~~~-----~~rkF~e--tVel~i~L~vDp~k~d~~vrg~V~LPh~~gk-----~~kV~Vfa~~~~~--   87 (242)
T 3qoy_A           22 TLEEAVDLLKKMEEV-----LQRRFDE--TVELAMRLNVDPRYADQMVRGSVVLPHGLGK-----PIKVVVFAEGEYA--   87 (242)
T ss_dssp             CHHHHHHHHHHHHHH-----HCCSSCC--EEEEEEEESCCTTSGGGCCEEEEECSCCCSS-----CCCEEEECCHHHH--
T ss_pred             CHHHHHHHHHhhccc-----ccCCCCC--cEEEEEEeccCCCCCCCccceEecCCCCCCC-----CcEEEEEcCHHHH--
Confidence            478899998875432     3477887  99999999633555 4567789999999976     6899999997531  


Q ss_pred             hhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-cc
Q 014066          102 LTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-HQ  180 (431)
Q Consensus       102 ~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~~  180 (431)
                         ++    ++++|++   +++.++|..++.     ++.+.+||+|||++++|+.|++ ||+.|++||+||+|+.+| +.
T Consensus        88 ---~e----Ak~aGad---~vg~~dLi~ki~-----k~g~~~fD~~iAtpd~m~~l~~-LGriLGPrGlmP~pk~gTvt~  151 (242)
T 3qoy_A           88 ---KK----AEEAGAD---YVGGDELINKIL-----KEEWTDFDVAIATPEMMPKVAK-LGRILGPRGLMPSPKTGTVTT  151 (242)
T ss_dssp             ---HH----HHHTTCS---EEESHHHHHHHH-----HHTCCCCSEEEECTTTHHHHGG-GHHHHGGGTCSCCGGGTCBCS
T ss_pred             ---HH----HHHcCCC---EECcHHHHHHHH-----hCCCccCCEEEECHHHHHHHHH-HhHHhccccCCCcccCCccch
Confidence               22    4567774   889999987651     2467899999999999999999 999999999999999997 68


Q ss_pred             cHHHHHHHHHc-cceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCC--CCCccEEEEEcCCCcceEEecc
Q 014066          181 NWKEQIEKVCG-SALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRK--WGNVRSFHLKLLESLALPVYQA  257 (431)
Q Consensus       181 dLk~~Ieka~~-St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg--~~NIksI~LKtt~S~aLPIY~s  257 (431)
                      |+...|+++++ ++.|++.+++|++++||+++|+++||+|||.+++++|.+.+|.+  |+||++|||+|||||+++|+.+
T Consensus       152 dv~~~V~~~k~G~v~fr~~k~~~i~v~VG~~~m~~e~L~eNi~a~i~~l~~~~p~~~kg~~Ik~v~lkSTmGp~i~i~~~  231 (242)
T 3qoy_A          152 NVEQAIKDAKRGRVEFKVDKAGNVHMPVGKISFEKEKLIDNLYAAIDAVVRAKPPGAKGQYIKNMAVSLTMSPSVKLDIN  231 (242)
T ss_dssp             CHHHHHHHHHTTEEEEECCTTSEEEEEEEETTSCHHHHHHHHHHHHHHHHHTCCTTCCSCSEEEEEEEETTSCCEEBCHH
T ss_pred             hHHHHHHHHhcCcEEEEecCCcEEEEEecCCCCCHHHHHHHHHHHHHHHHHhCCcccCCceEEEEEEECCCCCCEEEEhh
Confidence            99999999998 68999999999999999999999999999999999999999984  9999999999999999999865

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

Probab=100.00  E-value=8.4e-38  Score=313.16  Aligned_cols=204  Identities=15%  Similarity=0.171  Sum_probs=174.4

Q ss_pred             HHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC--CccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCCc
Q 014066           24 VERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV--SRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSN  101 (431)
Q Consensus        24 V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k--~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~~  101 (431)
                      +.+||+.|.+        .+...|+|  +|+|+|+| +++.+  .+...+.|.|||++++     ..+||||++|++.  
T Consensus       137 l~EAi~llK~--------~~~~KFdE--TVEl~I~L-~vDpkk~dq~vRGtV~LPhgtgk-----~~kVcVfa~ge~~--  198 (352)
T 3bbo_D          137 LKTALSLMKQ--------MSSTKFVE--TAEAHFRL-NIDPKYNDQQLRATVSLPKGTGK-----TVKIAVLAQGDKI--  198 (352)
T ss_dssp             TTTTHHHHST--------TCCSSSCC--EECCEEEE-CSCTTSSTTCCEEEECCTTTSSS-----SSCEEEECCTTTT--
T ss_pred             HHHHHHHHHh--------ccccCCCc--eEEEEEEe-CCCCcccccccceeecCCCCCCC-----ccEEEEEeCchhH--
Confidence            5677776654        24567887  99999999 66444  4667789999999864     7899999999853  


Q ss_pred             hhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-cc
Q 014066          102 LTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-HQ  180 (431)
Q Consensus       102 ~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~~  180 (431)
                         ++    +.++|+   .++|.++|...++      +++.+||+|||++++|+.|++ ||+.|++||+||+|+.+| ..
T Consensus       199 ---ee----Ak~AGA---dvVG~edLikkIK------kg~~dFD~fIAtpdmM~~lgr-LGkiLGPRGlMPnPk~GTVt~  261 (352)
T 3bbo_D          199 ---DE----AKAAGA---DIVGGEELIEQIK------GGFMDFDKLIATSDMMAKVAS-LGRILGPRGLMPTPKAGTVTP  261 (352)
T ss_dssp             ---HH----HHTTTC---SEEECTTTHHHHT------TTCCCCSEEEECSSSHHHHGG-GGGTTTTTTCSCCTTTTCBSS
T ss_pred             ---HH----HHHcCC---CccCHHHHHHHHH------hchhhcCEEEECHHHHHHHHh-hcccccccCCCCCCcCCcccc
Confidence               23    345676   5999999998864      789999999999999999999 999999999999999997 68


Q ss_pred             cHHHHHHHHHcc-ceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCC--CccEEEEEcCCCcceEEecc
Q 014066          181 NWKEQIEKVCGS-ALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWG--NVRSFHLKLLESLALPVYQA  257 (431)
Q Consensus       181 dLk~~Ieka~~S-t~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~--NIksI~LKtt~S~aLPIY~s  257 (431)
                      ||...|++++++ +.|++++++|++++||+++|+++||+|||.+++++|...+|.+|.  ||++|||+|||||++|||.+
T Consensus       262 Dva~aV~e~K~G~v~fR~dK~g~ihv~VGk~sfs~EqL~ENI~Avi~~L~k~kP~~~KG~yIksv~LkSTMGPgi~I~~~  341 (352)
T 3bbo_D          262 NVAQAVEEFKKGKVEFRVDKTGIVHIPFGKLNFEEEDLLINLFATIKSVETNKPTGAKGVYWKSAHISSSMGPSIRLNIR  341 (352)
T ss_dssp             CHHHHHTTTTTCCEEEECCSSCEECCCCEETTSCHHHHHHHHHHHHHHHHTTCCTTCCSCSEEEEECCBSSSCCCEECTT
T ss_pred             cHHHHHHHHHcCeeEEEeCCCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhCcccccCceEEEEEEECCCCCCEEEEhh
Confidence            999999999987 699999999999999999999999999999999999999999995  99999999999999999974


Q ss_pred             -CCCCc
Q 014066          258 -VPDLK  262 (431)
Q Consensus       258 -~~~~~  262 (431)
                       ++|..
T Consensus       342 ~l~d~~  347 (352)
T 3bbo_D          342 EMLDYK  347 (352)
T ss_dssp             C-----
T ss_pred             hccccc
Confidence             44443

>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=5e-33  Score=266.44  Aligned_cols=201  Identities=15%  Similarity=0.140  Sum_probs=172.5

Q ss_pred             HHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC-CccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCCch
Q 014066           24 VERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV-SRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNL  102 (431)
Q Consensus        24 V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k-~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~~~  102 (431)
                      +.+||..|.++        ....|+|  +|+|+|+|...|.+ .+.+.+.|.|||++++     ..+||||++++..   
T Consensus        23 ~~eAi~~lk~~--------~~~kF~e--tvel~i~L~vd~~k~dq~vrg~v~LP~g~gk-----~~kV~Vfa~~~~~---   84 (229)
T 3u42_A           23 IDEAAHLVKEL--------ATAKFDE--TVEVHAKLGIDPRRSDQNVRGTVSLPHGLGK-----QVRVLAIAKGEKI---   84 (229)
T ss_dssp             HHHHHHHHHHH--------CCSSSCC--EEEEEEEESSCTTCGGGCCEEEEECSSSCST-----TSCEEEECCTHHH---
T ss_pred             HHHHHHHHHHh--------CCCCCCc--cEEEEEEEccCCCCCCCceeEEEECCCCCCC-----ceEEEEecChHhH---
Confidence            78888777653        1245776  99999999766665 3567789999999976     6899999987532   


Q ss_pred             hHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-ccc
Q 014066          103 TKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-HQN  181 (431)
Q Consensus       103 t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~~d  181 (431)
                        +    .++++|+.   +++.++|..+++      ..+.+||+|||++++|+.|++.||+.|++||+||+|..+| ..|
T Consensus        85 --~----eAk~aGAd---~vG~~dLi~kIk------~g~~~fD~~iAtpd~m~~vg~~LG~iLGPrGlMPnpk~GTvt~d  149 (229)
T 3u42_A           85 --K----EAEEAGAD---YVGGEEIIQKIL------DGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFN  149 (229)
T ss_dssp             --H----HHHHTTCS---EEECTHHHHHHH------TTCCCCSEEEECGGGHHHHHHHHHHHHHHHTCCCCGGGTCBSSC
T ss_pred             --H----HHHhcCCc---eeCcHHHHHHHh------cCCccccEEEEchHHHHHHHHhhccccccccccccCCCCCCCCC
Confidence              2    24567874   889999987654      4567899999999999999988999999999999999988 579


Q ss_pred             HHHHHHHHHc-cceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCC--ccEEEEEcCCCcceEEecc
Q 014066          182 WKEQIEKVCG-SALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGN--VRSFHLKLLESLALPVYQA  257 (431)
Q Consensus       182 Lk~~Ieka~~-St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~N--IksI~LKtt~S~aLPIY~s  257 (431)
                      +.+.|+++.. ++.|+..+..|++++||+++|+++||+|||.+++++|....|.+|++  |++|||+|||||++.|..+
T Consensus       150 v~~~v~~~K~g~v~~r~dk~g~i~~~IGk~~f~~e~L~eNi~a~i~~i~~~kp~~~kg~~ik~v~lssTmGp~i~id~~  228 (229)
T 3u42_A          150 IGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTVMGPSVRINPH  228 (229)
T ss_dssp             HHHHHHHHHTTEEEEECCTTSEEEEEEEETTSCHHHHHHHHHHHHHHHHHTCCTTCCSCSEEEEEEECSSSCCEEBCTT
T ss_pred             HHHHHHHHhCceEEEEeCCCCeecccccCCCCCHHHHHHHHHHHHHHHHHhCccccCCCeEEEEEEECCCCcCeEeCCC
Confidence            9999999986 57899999999999999999999999999999999999999999976  9999999999999998654

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

Probab=100.00  E-value=4.5e-33  Score=259.80  Aligned_cols=181  Identities=17%  Similarity=0.138  Sum_probs=154.3

Q ss_pred             eEEEEEEeccCCCCCccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhc
Q 014066           52 FVYLILTLKKIPQVSRTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDY  131 (431)
Q Consensus        52 ~V~L~VtLKkip~k~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~ky  131 (431)
                      .|+|++++++ +.+...+.+.|.|||++.+.    ..+||||+++++..    +    .++++|+   .+++.++|..++
T Consensus         2 ~ieL~m~l~~-~r~~~~~rg~V~LPhg~~k~----~~~V~Vfa~~~~~~----~----~Ak~aGa---d~vg~~dLi~ki   65 (189)
T 2ftc_A            2 DLTLDMALGK-KKNVEPFTSVLSLPYPFASE----INKVAVFTENASEV----K----IAEENGA---AFAGGTSLIQKI   65 (189)
T ss_pred             eEEEEEEecC-CccCcccceEEECCCCCCCC----CCEEEEEeCChhHH----H----HHHHcCC---CCcCHHHHHHHH
Confidence            5889999998 55544558899999998753    56999999986321    2    2456677   478899997776


Q ss_pred             chHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-cccHHHHHHHHHccceEEccCCC--EEEEEEe
Q 014066          132 RPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-HQNWKEQIEKVCGSALLYLRTGT--CSVLKVG  208 (431)
Q Consensus       132 KsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~~dLk~~Ieka~~St~~~l~kG~--~~sVkVG  208 (431)
                      +.      -..+||+|||++++|+.|+++ |+.|++  |||+|+.+| ..|+.+.|+++++++.|++.+..  |++++||
T Consensus        66 ~~------~~~~fD~~iAtp~~m~~l~~l-~~~Lg~--KmP~pk~gTvt~dv~~~v~~~k~g~~~r~~k~~~~~i~v~VG  136 (189)
T 2ftc_A           66 WD------DEIVADFYVAVPEIMPELNRL-RKKLNK--KYPKLSRNSIGRDIPKMLELFKNGHEIKVDEERENFLQTKIA  136 (189)
T ss_pred             Hc------CCccCCEEEECHHHHHHHHHh-hccccC--CCCcccCCCccccHHHHHHHHhcceEEEeccCCCcEEEEEEE
Confidence            53      237899999999999999985 667874  599999997 78999999999999999999888  9999999


Q ss_pred             cCCCChhHHHHHHHHHHHHHHHhcCCCC-CCccEEEEEcCCCcceEEecc
Q 014066          209 KVSMGAEDIAENVIAAINGVAEIVPRKW-GNVRSFHLKLLESLALPVYQA  257 (431)
Q Consensus       209 ~~sMs~eqIvENI~avl~~l~~~lPkg~-~NIksI~LKtt~S~aLPIY~s  257 (431)
                      +++|+++||+|||.+++++|.+.+|.+| +||+++||+|||||+++|-..
T Consensus       137 ~~~~~~e~L~eNi~a~i~~l~~~~p~~~g~~ik~v~lssTmgp~i~i~~~  186 (189)
T 2ftc_A          137 TLDMSSDQIAANLQAVINEVCRHRPLNLGPFVVRAFLRSSTSEGLLLKID  186 (189)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCchhcCccEEEEEEECCCCCCEEEehh
Confidence            9999999999999999999999999999 799999999999999988643

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

Probab=99.75  E-value=2e-17  Score=147.13  Aligned_cols=66  Identities=20%  Similarity=0.165  Sum_probs=63.0

Q ss_pred             ccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCC--CCccEEEEEcCCCcceEEec
Q 014066          191 GSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKW--GNVRSFHLKLLESLALPVYQ  256 (431)
Q Consensus       191 ~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~--~NIksI~LKtt~S~aLPIY~  256 (431)
                      +++.|++.+..|++++||+++|+++||+|||.+++++|...+|.+|  +||++|||+|||||+++|-.
T Consensus        68 g~v~fr~dk~~~ih~~VGk~sf~~e~L~eNi~a~i~~l~~~kp~~~kg~~ik~v~issTMGp~i~id~  135 (137)
T 2ov7_A           68 GRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRINP  135 (137)
T ss_dssp             CEEEEECCTTSEEEEEEEETTSCHHHHHHHHHHHHHHHHTTSCSSCCSCSEEEEEEEETTSCCEEBCT
T ss_pred             CeEEEEECCCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHhCcccccCceEEEEEEECCCCCCEEecC
Confidence            7789999999999999999999999999999999999999999999  59999999999999999754

---

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	431
d1mzpa_	217	e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Sulfo	6e-12
d1i2aa_	212	e.24.1.1 (A:) Ribosomal protein L1 {Archaeon Metha	4e-10

>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 = 62.4 bits (151), Expect = 6e-12
 Identities = 46/229 (20%), Positives = 84/229 (36%), Gaps = 27/229 (11%)

Query: 19  VSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVSRTNAFK--IPLP 76
              +++  A+K       S     K    +    V +ILT K I         +  +PLP
Sbjct: 3   ADKESLIEALKLA----LSTEYNVKRNFTQS---VEIILTFKGIDMKKGDLKLREIVPLP 55

Query: 77  HSLLGNDSDNPPEICLIMDDRPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEA 136
                    +  +  L++    +    K A  K +               L+        
Sbjct: 56  KQP------SKAKRVLVVPSSEQLEYAKKASPKVVITREE----------LQKLQGQKRP 99

Query: 137 KRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLKHQNWKEQIEKVCGSALLY 196
            +KL    + FL ++  + L  ++LG     + K P P+     +  E I +   S L+ 
Sbjct: 100 VKKLARQNEWFLINQESMALAGRILGPALGPRGKFPTPLP-NTADISEYINRFKRSVLVK 158

Query: 197 LRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLK 245
            +      + +G   M  ED+AEN IA +N + E   +   N+R+ ++K
Sbjct: 159 TKDQPQVQVFIGTEDMKPEDLAENAIAVLNAI-ENKAKVETNLRNIYVK 206

>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 = 57.1 bits (137), Expect = 4e-10
 Identities = 40/198 (20%), Positives = 82/198 (41%), Gaps = 20/198 (10%)

Query: 50  DDFVYLILTLKKIPQVSRTNAFK--IPLPHSLLGNDSDNPPEICLIMDDRPKSNLTKDAV 107
                 I TLK+I      N  K  + LPH               ++     +   ++  
Sbjct: 23  TQSFEFIATLKEIDMRKPENRIKTEVVLPHGR------GKEAKIAVIGTGDLAKQAEELG 76

Query: 108 MKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFK 167
           +  I+ +      + ++ K K   R      K+  ++D F+A   ++PL+ + +G     
Sbjct: 77  LTVIRKEE-----IEELGKNKRKLR------KIAKAHDFFIAQADLMPLIGRYMGVILGP 125

Query: 168 KKKIPVPVDLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAING 227
           + K+P PV   + N K  +E++  + ++  R      + VG   M  E I +N+ A +N 
Sbjct: 126 RGKMPKPVP-ANANIKPLVERLKKTVVINTRDKPYFQVLVGNEKMTDEQIVDNIEAVLNV 184

Query: 228 VAEIVPRKWGNVRSFHLK 245
           VA+   +   +++  ++K
Sbjct: 185 VAKKYEKGLYHIKDAYVK 202

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	431
d1i2aa_	212	Ribosomal protein L1 {Archaeon Methanococcus janna	100.0
d1mzpa_	217	Ribosomal protein L1 {Archaeon Sulfolobus acidocal	100.0
d1ad2a_	224	Ribosomal protein L1 {Thermus thermophilus [TaxId:	99.97

>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=8.4e-41  Score=314.20  Aligned_cols=209  Identities=24%  Similarity=0.298  Sum_probs=185.6

Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCCC--ccceeeEeCCCCCCCCCCCCCCEEEEEecC
Q 014066           19 VSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVS--RTNAFKIPLPHSLLGNDSDNPPEICLIMDD   96 (431)
Q Consensus        19 v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k~--k~~p~~I~LPHpl~~~~~~~~~kICLIvkD   96 (431)
                      |+++.+.+||+.++++       .+++.|.|  +|+|+|+|++++.+.  +...+.|.|||++++     ..+||||+++
T Consensus         1 ~~~~~~~~ai~~~~~~-------~k~rkF~e--svel~i~Lk~iD~kk~d~~irg~v~LPh~~gk-----~~kV~Vf~~~   66 (212)
T d1i2aa_           1 MDREALLQAVKEAREL-------AKPRNFTQ--SFEFIATLKEIDMRKPENRIKTEVVLPHGRGK-----EAKIAVIGTG   66 (212)
T ss_dssp             CCHHHHHHHHHHHHHH-------SCCCSSCC--EEEEEEEESSCCTTSGGGCCEEEEECTTCCSS-----CCCEEEECCH
T ss_pred             CCHHHHHHHHHHHHHh-------CCccCCCc--eEEEEEecCCCCCCcccceeeeEeeCCCCCCC-----cceEEEEech
Confidence            5889999999999984       34567887  999999999886553  456788999999986     5789999986


Q ss_pred             CCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeec
Q 014066           97 RPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVD  176 (431)
Q Consensus        97 ~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~  176 (431)
                      +..         +.+.++|+   .+++.++|...++.....++++.+||+|||++++|+.|+++||+.||+|++||+|++
T Consensus        67 e~~---------~~Ak~aga---~~vg~~el~~~~~~~~~~kk~~~~~D~~iat~~~m~~l~k~lgkiLGpkglmP~p~~  134 (212)
T d1i2aa_          67 DLA---------KQAEELGL---TVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLMPLIGRYMGVILGPRGKMPKPVP  134 (212)
T ss_dssp             HHH---------HHHHHTTC---EEECHHHHHHHHHCHHHHHHHHHHCSEEEEEGGGHHHHHHHTHHHHGGGTCCCEEEC
T ss_pred             hhH---------HHhhhccc---cccCcHHHHHHHhhhhhhhcccccCCeEEecchHHHHHHHHhhhhhhhhhccccCCc
Confidence            431         33456776   488888888877776678899999999999999999999999999999999999998


Q ss_pred             CCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEE
Q 014066          177 LKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPV  254 (431)
Q Consensus       177 lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPI  254 (431)
                      ++ .++.+.|+++++++.|+.++++|++++||+++|+++||+|||.+++++|...+|+||.||++|||+|||||+++|
T Consensus       135 ~t-~di~~~v~~~k~~~~~~~~~~~~i~~~IG~~~m~~e~i~eNi~a~~~~i~~~~pkg~~~Ik~v~lssTmgp~~~i  211 (212)
T d1i2aa_         135 AN-ANIKPLVERLKKTVVINTRDKPYFQVLVGNEKMTDEQIVDNIEAVLNVVAKKYEKGLYHIKDAYVKLTMGPAVKV  211 (212)
T ss_dssp             TT-CCCHHHHHHHHTEEEEECTTSSEEEEEEEETTSCHHHHHHHHHHHHHHHHHHSTTGGGGEEEEEEEETTSCCEEC
T ss_pred             cc-chhhHHHHHHhcceeeeecCCceEEEeeeeccCCHHHHHHHHHHHHHHHHhhCcCCceeEEEEEEECCCCCCEec
Confidence            86 699999999999999999999999999999999999999999999999999999999999999999999999986

>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=2.2e-38  Score=298.91  Aligned_cols=211  Identities=21%  Similarity=0.236  Sum_probs=179.4

Q ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCC--CccceeeEeCCCCCCCCCCCCCCEEEEEecC
Q 014066           19 VSPKTVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQV--SRTNAFKIPLPHSLLGNDSDNPPEICLIMDD   96 (431)
Q Consensus        19 v~~e~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k--~k~~p~~I~LPHpl~~~~~~~~~kICLIvkD   96 (431)
                      ++++++.+||+.++.+.     ..+++.|.|  +|+|+|+|+.++.+  .....+.|.|||++++     ..+||||+++
T Consensus         3 ~~~~~~~eai~~~~~~~-----~~~krkF~e--svdl~v~Lk~iD~kk~d~~irg~v~LP~~~~k-----~~kI~Vfa~~   70 (217)
T d1mzpa_           3 ADKESLIEALKLALSTE-----YNVKRNFTQ--SVEIILTFKGIDMKKGDLKLREIVPLPKQPSK-----AKRVLVVPSS   70 (217)
T ss_dssp             CCHHHHHHHHHHHHSTT-----TCCCCSSCC--EEEEEEEESSCCGGGTTTCCEEEEECSSCCSS-----CCCEEEECCH
T ss_pred             CcHHHHHHHHHHHHhhc-----cccccCCcc--eEEEEEEecCCCCCCCcceeeEEEECCCCCCC-----CceEEEEcCc
Confidence            68899999999987531     235577987  99999999988554  3566789999999986     5799999975


Q ss_pred             CCCCchhHHHHHHHhhhCCCCcceeeehhhhhhhcc-hHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeee
Q 014066           97 RPKSNLTKDAVMKKIKNDNLPITKVIKITKLKTDYR-PFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPV  175 (431)
Q Consensus        97 ~~~~~~t~~e~kekl~a~~i~i~kVI~lkkLk~kyK-sfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV  175 (431)
                      +..         +.+.++|+.   +++..+|..++. .+.+.++|+.+||+|||++++|+.+++.||+.||+||+||+|+
T Consensus        71 e~~---------~~Ak~aGa~---~Vg~~dli~ki~~~~~~~~kl~~~~d~fla~~~~m~~~~~~lGkiLGprgkMP~pk  138 (217)
T d1mzpa_          71 EQL---------EYAKKASPK---VVITREELQKLQGQKRPVKKLARQNEWFLINQESMALAGRILGPALGPRGKFPTPL  138 (217)
T ss_dssp             HHH---------HHHHHTCCS---EECCHHHHHHHTTCHHHHHHHHHSCSEEEECGGGHHHHHHHTHHHHGGGTCCEEEC
T ss_pred             cch---------HHHhhcccc---ccchHHHHHHhhcccccccceecccCeEEEcCchhhhHHHHhhhhhcccccccccc
Confidence            421         224567774   556666655554 4556789999999999999999999999999999999999999


Q ss_pred             cCCcccHHHHHHHHHccceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCCccEEEEEcCCCcceEEe
Q 014066          176 DLKHQNWKEQIEKVCGSALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGNVRSFHLKLLESLALPVY  255 (431)
Q Consensus       176 ~lt~~dLk~~Ieka~~St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~NIksI~LKtt~S~aLPIY  255 (431)
                      .+| .+|.+.|+++++++.|+.++++|++++||+++|+.+||+||+.+++++|.+. +.+|.||++|||+|||||+++|-
T Consensus       139 ~gt-~di~~~v~~~k~~v~~r~~k~~~i~~~IG~~~m~~e~L~eNi~a~i~~i~~~-~~~~~~Ik~v~iksTmGp~i~i~  216 (217)
T d1mzpa_         139 PNT-ADISEYINRFKRSVLVKTKDQPQVQVFIGTEDMKPEDLAENAIAVLNAIENK-AKVETNLRNIYVKTTMGKAVKVK  216 (217)
T ss_dssp             CSS-SCCHHHHHHHHTEEEEECSSSSEEEEEEEETTSCHHHHHHHHHHHHHHHHHH-CCCTTTEEEEEEEETTSCCEECC
T ss_pred             ccc-ccHHHHHHHHHhcceeecccceEEEEeecccCCCHHHHHHHHHHHHHHHHhc-cccCCcEEEEEEECCCCCCEecC
Confidence            987 6999999999999999999999999999999999999999999999999887 44799999999999999999873

>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=99.97  E-value=1.3e-31  Score=253.36  Aligned_cols=202  Identities=16%  Similarity=0.144  Sum_probs=169.7

Q ss_pred             HHHHHHHHHHHHHHhccCCCCCCCCCCCCeEEEEEEeccCCCCC-ccceeeEeCCCCCCCCCCCCCCEEEEEecCCCCCc
Q 014066           23 TVERAVKALLKWLKSNSQTQKPQLLEQDDFVYLILTLKKIPQVS-RTNAFKIPLPHSLLGNDSDNPPEICLIMDDRPKSN  101 (431)
Q Consensus        23 ~V~kAVkaLlk~~~~~~~~~K~~Lfeed~~V~L~VtLKkip~k~-k~~p~~I~LPHpl~~~~~~~~~kICLIvkD~~~~~  101 (431)
                      .+.+||+.|.++        ....|.|  +|+|+|+|+..+.+. ....+.|.|||++.+     ..+||||++++..  
T Consensus        17 si~EAi~~lk~~--------~~~kF~e--svel~i~L~~~~~k~~~~i~g~v~LP~~~~k-----~~ki~v~~~~e~~--   79 (224)
T d1ad2a_          17 TIDEAAHLVKEL--------ATAKFDE--TVEVHAKLGIDPRRSDQNVRGTVSLPHGLGK-----QVRVLAIAKGEKI--   79 (224)
T ss_dssp             CHHHHHHHHHTT--------CCSSSCC--EEEEEEEESSCTTCGGGCCEEEEECSSSCST-----TSCEEEECCTHHH--
T ss_pred             CHHHHHHHHHHc--------CCCCCCc--eEEEEEEEcccccccccccceeEEecccccc-----ceeEEEecchHHH--
Confidence            478888876541        2345876  999999997655553 456789999999876     6899999987532  


Q ss_pred             hhHHHHHHHhhhCCCCcceeeehhhhhhhcchHHHHhhccccccEEEEcCCchhhhhhhhcccccCCCCCCeeecCC-cc
Q 014066          102 LTKDAVMKKIKNDNLPITKVIKITKLKTDYRPFEAKRKLCDSYDIFLADKRVVPLLPKLLGKHFFKKKKIPVPVDLK-HQ  180 (431)
Q Consensus       102 ~t~~e~kekl~a~~i~i~kVI~lkkLk~kyKsfE~kRKL~~sYDlFLAD~rI~~~LpklLGK~F~kkkK~PipV~lt-~~  180 (431)
                             +.+.+.|+   .+++.++|..+++      +.+..||+|||++++|+.|.+.||+.|++||+||.|..++ ..
T Consensus        80 -------~~Ak~aGa---~~vg~~eli~ki~------~~~~~fd~~ia~~~~m~~v~~~lgriLGprGlMP~pk~Gtv~~  143 (224)
T d1ad2a_          80 -------KEAEEAGA---DYVGGEEIIQKIL------DGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGF  143 (224)
T ss_dssp             -------HHHHHTTC---SEEECGGGHHHHH------TTCCCCSEEEECGGGHHHHHHHHHHHHHHHTCSCCTTTTCBCS
T ss_pred             -------HHHHhcCc---cccCcHHHHHHHh------cCCccchhHHhHHHHHHHHHHhhhhccCcccCCCCCCCCCcch
Confidence                   22456676   3778888876653      4567899999999999999988999999999999999887 57


Q ss_pred             cHHHHHHHHHc-cceEEccCCCEEEEEEecCCCChhHHHHHHHHHHHHHHHhcCCCCCC--ccEEEEEcCCCcceEEecc
Q 014066          181 NWKEQIEKVCG-SALLYLRTGTCSVLKVGKVSMGAEDIAENVIAAINGVAEIVPRKWGN--VRSFHLKLLESLALPVYQA  257 (431)
Q Consensus       181 dLk~~Ieka~~-St~~~l~kG~~~sVkVG~~sMs~eqIvENI~avl~~l~~~lPkg~~N--IksI~LKtt~S~aLPIY~s  257 (431)
                      ++...|+++.+ ++.|+..+.++++++||+++|+.+||+|||.+++++|...+|.+|++  |++|||+|||||++.|-.+
T Consensus       144 di~~~v~~~k~g~v~~r~~k~g~i~~~IG~~~m~~e~i~eNi~~~i~~i~~~~p~~~k~~~ik~v~l~sTmGp~~~id~~  223 (224)
T d1ad2a_         144 NIGEIIREIKAGRIEFRNDKTGAIHAPVGKACFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRINPH  223 (224)
T ss_dssp             CHHHHHHHHHTTEEEEECCTTSEEEEEEEETTSCHHHHHHHHHHHHHHHHTTCCTTCCSCSEEEEEEECTTSCCEEECTT
T ss_pred             hHHHHHHHHhCCeEEEeeCCCceeeeeeccccCCHHHHHHHHHHHHHHHHHhCccccCCCeEeEEEEECCCCCCEEeCCC
Confidence            89999999987 46899999999999999999999999999999999999999999976  9999999999999988543