Citrus Sinensis ID: 048213

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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-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530--
Protein Sequence
SDVSKESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVIDQ
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccHHHHcHHHHHHHHHHHHHHHHHHccccccEEEEccccccccccccccccccccHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHHcccccccccccEEEEEEcccccHHHHHHHHHccccEEEEEcccccccccccccccccccccccEEEEEEccHHHHHHcccccccEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHHcccccccccccccccHHHHHcccccccccHHHHHHccccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHcccccccccccccccccEEEEEHHHccHHHHccHHHHHHHHHHHccccccccccccEEEEEccccccccccccccccccccEEEccccccccccccccccccccccccccEEEEcccccccccccHHHHccccccEEcccccccccEEccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHccHHHHccccEEEEEEEcccccHHHHHHHHHccccEEEEEEccccHHHHHHHcccccccccccEEEEEEccHHHHHHHcccccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccHHccccccccHHHHHEcHcccccHHHHHHHHHHHccccccHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHEEcccccccccccccEEHHHHHHHHHHHHHHHHHHHHHHccccccccccccEEEEEEEccccccccccccccccccccEEEEcHHHHHHHHcccHHHcccHHHccEEEEEEccccccccccccHHHHHHHHHEEEccccccccEccEEcc
Coil and Loop (DISEMBL)
sdvskesevdepkrREEEIEEYVEKCRASVNDVIDEAEKFIGvdarankhcfkglcpnlkthRRLSKEAERQKEAVVNVQeagrfdrisyniipddslllsnKDYEAFESRMSTFNDILNalkspdvnmlgiygmggirkttpaKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWEnldfhavgiphgddhkgCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGdyiegsefKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEqlrwpsstnfkdiqpTAYKAIELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNllslpsslglltNLQTLCLYYCKlqdtsvlgeLKILEILRLRVNELTRAGSSQLKHLSvrglrasapnptesevalpklETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFncwnltclftssiissfvglqcleicecpvlkeiividq
Flexible Loop (DISEMBL)
sdvskesevdepkrreeeieeYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQKEAvvnvqeagrfdrisyniipddsllLSNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKaeneklfdrvifveesesgrarslcnrlkkEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALeqlrwpsstnfkdiqptAYKAIELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRagssqlkhlsvrglrasapnptesevalpkLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVIDQ
Low Complexity Region (SEG)
SDVSKesevdepkrreeeieeyvekCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYTAIASIDDllmygmglglFQGIKRMEVARARVVIDLTYMNllslpsslglltnlqtlclyycKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVIDQ
Disordered region (IsUnstruct)
*********************YVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKT*************AVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEES***RARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR**************************ALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVI**
Disordered Region (DISOPRED)
*DVSKESEV*E**R**EEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQK*************************************RMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRW**********PTAYKAIELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVID*
Disordered Region (DISEMBL)
*********************YVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVIDQ
Disordered Region (DISPRO)
******S*V**PKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQKEAVVNVQEAGRF*R*******************AFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVIDQ
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
SDVSKESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTxxxxxxxxxxxxxxxxxxxxxGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVIDQ
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	532	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.462	0.249	0.330	3e-28
O22727	967	Probable disease resistan	no	no	0.629	0.346	0.261	1e-24
Q940K0	889	Probable disease resistan	no	no	0.693	0.415	0.263	2e-24
O64789	925	Probable disease resistan	no	no	0.734	0.422	0.264	2e-24
O81825	919	Probable disease resistan	no	no	0.445	0.257	0.304	2e-23
O64973	889	Disease resistance protei	no	no	0.520	0.311	0.285	3e-23
Q8RXS5	888	Probable disease resistan	no	no	0.575	0.344	0.257	3e-23
Q8L3R3	885	Disease resistance protei	no	no	0.413	0.248	0.290	9e-22
Q9FG91	848	Probable disease resistan	no	no	0.400	0.251	0.308	8e-21
Q9C8T9	898	Putative disease resistan	no	no	0.558	0.330	0.259	2e-20

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score =  126 bits (317), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 93/281 (33%), Positives = 144/281 (51%), Gaps = 35/281 (12%)

Query: 118 ILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENE---KLFDRVIFV----------- 163
           I + L S     +G++GMGG+ KTT  + +  K   E   + F  VIFV           
Sbjct: 155 IRDGLTSEKAQKIGVWGMGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREV 214

Query: 164 --------------EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHK 209
                         EESE   AR +   L KE+  L+ILD++W+ +D   +GIP  +++K
Sbjct: 215 QKQIAERLDIDTQMEESEEKLARRIYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEENK 274

Query: 210 GCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAK 269
           G KV+LT+R L+V  R M +  D  V  L E++AW LF K AGD +     + +AK V++
Sbjct: 275 GSKVILTSRFLEV-CRSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQ 333

Query: 270 KCAGLPVSIVTVARALRNKRLFD-WKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDG 328
           +C GLP++I+TV  A+R K+    W   L +L   S    K I+   ++ ++LSY  L+ 
Sbjct: 334 ECGGLPLAIITVGTAMRGKKNVKLWNHVLSKLS-KSVPWIKSIEEKIFQPLKLSYDFLE- 391

Query: 329 DELKNIFLLIG-YTAIASID--DLLMYGMGLGLFQGIKRME 366
           D+ K  FLL   +    SI+  +++ Y M  G  + +   E
Sbjct: 392 DKAKFCFLLCALFPEDYSIEVTEVVRYWMAEGFMEELGSQE 432

Disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  114 bits (286), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 98/375 (26%), Positives = 169/375 (45%), Gaps = 40/375 (10%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVD-ARANKHCFKGLCPN-LKTHR 63
           +++V   + R ++  E V+     VN +  E +  + V      K C  GLC   + +  
Sbjct: 53  QNKVAREESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSY 112

Query: 64  RLSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALK 123
           +  K      E V  ++  G FD +S    P     +  +  +    +        N L 
Sbjct: 113 KYGKRVFLLLEEVTKLKSEGNFDEVSQ---PPPRSEVEERPTQPTIGQEEMLKKAWNRLM 169

Query: 124 SPDVNMLGIYGMGGIRKTTPAKEVAIK-AENEKLFDRVIFVEESESGRARSL-------- 174
              V ++G++GMGG+ KTT  K++  K AE    FD VI++  S+  +   L        
Sbjct: 170 EDGVGIMGLHGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKL 229

Query: 175 ------------------CNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLT 216
                              +R+ K K  +++LD+IWE +D  A+GIP+  +   CKV  T
Sbjct: 230 HLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFT 289

Query: 217 ARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSE--FKWVAKDVAKKCAGL 274
            R   V   +M   +   V  L+ ++AW LFK   GD    S+     +A++VA+KC GL
Sbjct: 290 TRDQKVCG-QMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRGL 348

Query: 275 PVSIVTVARALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKN 333
           P+++  +   + +K +  +W+ A++ L   S+  F D+Q      ++ SY  L+ + +K+
Sbjct: 349 PLALSCIGETMASKTMVQEWEHAIDVLT-RSAAEFSDMQNKILPILKYSYDSLEDEHIKS 407

Query: 334 IFLLIGYTAIASIDD 348
            FL   Y A+   DD
Sbjct: 408 CFL---YCALFPEDD 419

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score =  114 bits (286), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 115/436 (26%), Positives = 192/436 (44%), Gaps = 67/436 (15%)

Query: 13  KRREEEIEEYVEKCRASVNDVIDEAEKFIGV-DARANKHCFKGLCPN-LKTHRRLSKEAE 70
           +RR E ++ ++++    VN V  E +  + V      K C  GLC   + +  +  K+  
Sbjct: 63  QRRLEAVQVWLDR----VNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVF 118

Query: 71  RQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSPDVNML 130
              E V  +   G FD +S    P     +  +  +    +        N L    V ++
Sbjct: 119 LLLEEVKKLNSEGNFDEVSQ---PPPRSEVEERPTQPTIGQEDMLEKAWNRLMEDGVGIM 175

Query: 131 GIYGMGGIRKTTPAKEVAIK-AENEKLFDRVIFV-------------------------- 163
           G++GMGG+ KTT  K++  K AE    FD VI++                          
Sbjct: 176 GLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLW 235

Query: 164 -EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDV 222
             ++ES +A  + +R+ K K  +++LD+IWE +D  A+GIP+  +   CKV  T RS +V
Sbjct: 236 KNKNESDKATDI-HRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREV 294

Query: 223 LSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWV--AKDVAKKCAGLPVSIVT 280
              +M   +   V  L+ ++AW LFK   GD    S+   V  A++VA+KC GLP+++  
Sbjct: 295 CG-EMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNV 353

Query: 281 VARALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG 339
           +   + +K +  +W+ A+      S+  F D+Q      ++ SY  L  + +K+ FL   
Sbjct: 354 IGETMSSKTMVQEWEHAIHVFN-TSAAEFSDMQNKILPILKYSYDSLGDEHIKSCFL--- 409

Query: 340 YTAIASID------DLLMYGMGLGLF---QGIKRMEVARARVVIDLTYMNLLSLPSSLGL 390
           Y A+   D       L+ Y +  G     Q IKR       ++  LT  NLL+       
Sbjct: 410 YCALFPEDGEIYNEKLIDYWICEGFIGEDQVIKRARNKGYAMLGTLTRANLLT------- 462

Query: 391 LTNLQTLCLYYCKLQD 406
                 +  YYC + D
Sbjct: 463 -----KVGTYYCVMHD 473

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  114 bits (286), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 117/443 (26%), Positives = 199/443 (44%), Gaps = 52/443 (11%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVD-ARANKHCFKGLCPN-LKTHR 63
           +++V   + R ++  E V+     VN +  E +  + V      K C  GLC   + +  
Sbjct: 54  QNKVAREESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCTKYVCSSY 113

Query: 64  RLSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALK 123
           +  K+     E V  ++  G FD +S    P     +  +  +    +        N L 
Sbjct: 114 KYGKKVFLLLEEVKILKSEGNFDEVSQ---PPPRSEVEERPTQPTIGQEEMLEKAWNRLM 170

Query: 124 SPDVNMLGIYGMGGIRKTTPAKEVAIK-AENEKLFDRVIFVEESESGRARSL-------- 174
              V ++G++GMGG+ KTT  K++  K AE    FD VI++  S+  +   L        
Sbjct: 171 EDGVGIMGLHGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKL 230

Query: 175 ------------------CNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLT 216
                              +R+ K K  +++LD+IWE +D  A+GIP+  +   CKV  T
Sbjct: 231 HLCDDLWKNKNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFT 290

Query: 217 ARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSE--FKWVAKDVAKKCAGL 274
            RS +V   +M   +   V  L+ ++AW LFK   GD    S+     +A++VA+KC GL
Sbjct: 291 TRSREVCG-EMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVGLAREVAQKCRGL 349

Query: 275 PVSIVTVARALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKN 333
           P+++  +   + +K +  +W+ A++ L   S+  F  ++      ++ SY  L  + +K+
Sbjct: 350 PLALNVIGETMASKTMVQEWEYAIDVLT-RSAAEFSGMENKILPILKYSYDSLGDEHIKS 408

Query: 334 IFLLIG--------YTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLP 385
            FL           YT    ID L+  G  +G  Q IKR       ++  LT  NLL   
Sbjct: 409 CFLYCALFPEDGQIYTETL-IDKLICEGF-IGEDQVIKRARNKGYAMLGTLTRANLL--- 463

Query: 386 SSLGL-LTNLQT-LCLYYCKLQD 406
           + +G  L NL T + +Y+C + D
Sbjct: 464 TKVGTELANLLTKVSIYHCVMHD 486

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O81825|DRL28_ARATH Probable disease resistance protein At4g27220 OS=Arabidopsis thaliana GN=At4g27220 PE=2 SV=1

 Score =  110 bits (276), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 83/273 (30%), Positives = 130/273 (47%), Gaps = 36/273 (13%)

Query: 126 DVNMLGIYGMGGIRKTTPAKEV---AIKAENEKLFDRVI--------------------- 161
           +V  +G++GMGG+ KTT  + +    +K    + F  VI                     
Sbjct: 133 NVQKIGVWGMGGVGKTTLVRTLNNDLLKYAATQQFALVIWVTVSKDFDLKRVQMDIAKRL 192

Query: 162 ---FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHG-DDHKGCKVLLTA 217
              F  E  +    ++C RL   K  L+ILD++W  +D   +GIP   +  K  KV+LT+
Sbjct: 193 GKRFTREQMNQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGIPLALERSKDSKVVLTS 252

Query: 218 RSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVS 277
           R L+V  ++M + ++  V  L+E EAW LF    G+       K +AKDV+ +C GLP++
Sbjct: 253 RRLEV-CQQMMTNENIKVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECCGLPLA 311

Query: 278 IVTVARALRNKRLFD-WKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
           I+T+ R LR K   + WK  L  L+   S    D +   +  ++LSY  L  D +K+ FL
Sbjct: 312 IITIGRTLRGKPQVEVWKHTLNLLK--RSAPSIDTEEKIFGTLKLSYDFLQ-DNMKSCFL 368

Query: 337 ---LIGYTAIASIDDLLMYGMGLGLFQGIKRME 366
              L        + +L+MY +  GL  G    E
Sbjct: 369 FCALFPEDYSIKVSELIMYWVAEGLLDGQHHYE 401

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  110 bits (275), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 92/322 (28%), Positives = 150/322 (46%), Gaps = 45/322 (13%)

Query: 51  CFKGLCP-NLKTHRRLSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFE 109
           C  G C  +LK   R  K      + V ++   G FD +S      ++   ++ D   F+
Sbjct: 101 CLCGFCSKDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVS------EATPFADVDEIPFQ 154

Query: 110 SRMSTFNDIL----NALKSPDVNMLGIYGMGGIRKTTPAKEVAIK-AENEKLFDRVIFVE 164
             +     +L    N L      +LG+YGMGG+ KTT   ++  K ++ +  FD VI+V 
Sbjct: 155 PTIVGQEIMLEKAWNRLMEDGSGILGLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVV 214

Query: 165 ESESGRARSL---------------------------CNRLKKEKMILVILDNIWENLDF 197
            S S   R +                            N L++ K +L +LD+IWE ++ 
Sbjct: 215 VSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVLRRRKFVL-LLDDIWEKVNL 273

Query: 198 HAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEG 257
            AVG+P+     GCKV  T RS DV  R M       V  L+ +E+W LF+   G    G
Sbjct: 274 KAVGVPYPSKDNGCKVAFTTRSRDVCGR-MGVDDPMEVSCLQPEESWDLFQMKVGKNTLG 332

Query: 258 S--EFKWVAKDVAKKCAGLPVSIVTVARALRNKR-LFDWKDALEQLRWPSSTNFKDIQPT 314
           S  +   +A+ VA+KC GLP+++  +  A+  KR + +W  A++ L   S+ +F  ++  
Sbjct: 333 SHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAIDVLT-SSAIDFSGMEDE 391

Query: 315 AYKAIELSYVKLDGDELKNIFL 336
               ++ SY  L+G+ +K+ FL
Sbjct: 392 ILHVLKYSYDNLNGELMKSCFL 413

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score =  110 bits (274), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 91/353 (25%), Positives = 160/353 (45%), Gaps = 47/353 (13%)

Query: 45  ARANKHCFKGLCP-NLKTHRRLSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNK 103
            +  + C  G C  NL +  R  K   +  E V  ++  G F  ++  +   D+  +  +
Sbjct: 94  VQVQRLCLCGFCSKNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERV---DAARVEER 150

Query: 104 DYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTT--------------------- 142
                 +         N L   ++ +LG++GMGG+ KTT                     
Sbjct: 151 PTRPMVAMDPMLESAWNRLMEDEIGILGLHGMGGVGKTTLLSHINNRFSRVGGEFDIVIW 210

Query: 143 --PAKEVAIKAENEKLFDRV-----IFVEESESGRARSLCNRLKKEKMILVILDNIWENL 195
              +KE+ I+   +++++++      + +++E  +A ++ N LK ++ +L +LD+IW  +
Sbjct: 211 IVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLKHKRFVL-LLDDIWSKV 269

Query: 196 DFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYI 255
           D   VG+P      GCK++ T R  ++  R M    D  V  L  D+AW LF K  G+  
Sbjct: 270 DLTEVGVPFPSRENGCKIVFTTRLKEICGR-MGVDSDMEVRCLAPDDAWDLFTKKVGEIT 328

Query: 256 EGS--EFKWVAKDVAKKCAGLPVSIVTVARALRNKRLF-DWKDALEQLRWPSSTNFKDIQ 312
            GS  E   VA+ VAKKC GLP+++  +   +  KR   +W+ A++ L   S+  F  ++
Sbjct: 329 LGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLT-SSAAEFSGME 387

Query: 313 PTAYKAIELSYVKLDGDELKNIFLLIGYTAIASID------DLLMYGMGLGLF 359
                 ++ SY  L  ++LK   L   Y A+   D      DL+ Y +G G  
Sbjct: 388 DEILPILKYSYDNLKSEQLK---LCFQYCALFPEDHNIEKNDLVDYWIGEGFI 437

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  105 bits (262), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 74/255 (29%), Positives = 126/255 (49%), Gaps = 35/255 (13%)

Query: 113 STFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIK-AENEKLFDRVIFV-------- 163
           S  + + N L    V ++G+YGMGG+ KTT   ++  K ++    FD VI+V        
Sbjct: 162 SMLDKVWNCLMEDKVWIVGLYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATV 221

Query: 164 -------------------EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPH 204
                              E++++ RA  + N L+++K +L +LD+IWE ++   +G+P+
Sbjct: 222 HKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKFVL-LLDDIWEKVELKVIGVPY 280

Query: 205 GDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGS--EFKW 262
                GCKV  T  S +V  R M       +  L    AW L KK  G+   GS  +   
Sbjct: 281 PSGENGCKVAFTTHSKEVCGR-MGVDNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQ 339

Query: 263 VAKDVAKKCAGLPVSIVTVARALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIEL 321
           +A+ V++KC GLP+++  +   +  KR   +W+ A E L   S+T+F  ++      ++ 
Sbjct: 340 LARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEVL--TSATDFSGMEDEILPILKY 397

Query: 322 SYVKLDGDELKNIFL 336
           SY  L+G++ K+ FL
Sbjct: 398 SYDSLNGEDAKSCFL 412

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG91|DRL32_ARATH Probable disease resistance protein At5g43730 OS=Arabidopsis thaliana GN=At5g43730 PE=2 SV=1

 Score =  102 bits (254), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 76/246 (30%), Positives = 119/246 (48%), Gaps = 33/246 (13%)

Query: 121 ALKSPDVNMLGIYGMGGIRKTTPAKEVAIK-AENEKLFDRVIFV---------------- 163
           +L   ++  LG+YGMGGI KTT  + +  K  E E  FD VI+V                
Sbjct: 166 SLIDDEIRTLGLYGMGGIGKTTLLESLNNKFVELESEFDVVIWVVVSKDFQLEGIQDQIL 225

Query: 164 ----------EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKV 213
                      E+ES +A  + N LK++K +L +LD++W  +D   +G+P      G K+
Sbjct: 226 GRLRPDKEWERETESKKASLINNNLKRKKFVL-LLDDLWSEVDLIKIGVPPPSRENGSKI 284

Query: 214 LLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGS--EFKWVAKDVAKKC 271
           + T RS +V  + M + +   V  L  DEAW LF+   GD I  S  +   +A+ VA KC
Sbjct: 285 VFTTRSKEV-CKHMKADKQIKVDCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKC 343

Query: 272 AGLPVSIVTVARALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDE 330
            GLP+++  + +A+  K    +W+ A+  L  P    F  ++      ++ SY  L   E
Sbjct: 344 HGLPLALNVIGKAMVCKETVQEWRHAINVLNSPGH-KFPGMEERILPILKFSYDSLKNGE 402

Query: 331 LKNIFL 336
           +K  FL
Sbjct: 403 IKLCFL 408

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T9|DRL19_ARATH Putative disease resistance protein At1g63350 OS=Arabidopsis thaliana GN=At1g63350 PE=2 SV=1

 Score =  101 bits (251), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 91/351 (25%), Positives = 158/351 (45%), Gaps = 54/351 (15%)

Query: 23  VEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQKEAVVNVQEA 82
           VE   + VND+++        +A   + C  G C      + L+      K   + ++E 
Sbjct: 76  VETIESRVNDLLN------ARNAELQRLCLCGFCS-----KSLTTSYRYGKSVFLKLREV 124

Query: 83  GRFDRISYNIIPDDSLLLSNKDYEAFE------SRMSTFNDILNALKSPDVNMLGIYGMG 136
            + +R  + +I D +   S  + E  +       + +  ++  N L    V ++G+YGMG
Sbjct: 125 EKLERRVFEVISDQA---STSEVEEQQLQPTIVGQETMLDNAWNHLMEDGVGIMGLYGMG 181

Query: 137 GIRKTTPAKEVAIKAENEKL-FDRVIFVEESE-----------------SG--------- 169
           G+ KTT   ++  K       FD VI+V  S+                 SG         
Sbjct: 182 GVGKTTLLTQINNKFSKYMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKY 241

Query: 170 -RARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMD 228
            +   L N L+K + +L  LD+IWE ++   +G+P       CKV+ T RSLDV +  M 
Sbjct: 242 QKGVYLYNFLRKMRFVL-FLDDIWEKVNLVEIGVPFPTIKNKCKVVFTTRSLDVCT-SMG 299

Query: 229 SQQDFWVGVLKEDEAWSLFKKMAGDYIEGS--EFKWVAKDVAKKCAGLPVSIVTVARALR 286
            ++   V  L +++A+ LF+K  G    GS  E + +++ VAKKC GLP+++  V+  + 
Sbjct: 300 VEKPMEVQCLADNDAYDLFQKKVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMS 359

Query: 287 NKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
            KR   +W+ A+  L    +  F  +       ++ SY  L G+++K   L
Sbjct: 360 CKRTVQEWRHAIYVLN-SYAAKFSGMDDKILPLLKYSYDSLKGEDVKMCLL 409

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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	532
359488027	1520	PREDICTED: disease resistance protein At	0.689	0.241	0.477	2e-92
147802546	1409	hypothetical protein VITISV_007222 [Viti	0.689	0.260	0.477	8e-92
296087869	1711	unnamed protein product [Vitis vinifera]	0.896	0.278	0.379	7e-89
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.703	0.220	0.439	3e-85
302143649	1436	unnamed protein product [Vitis vinifera]	0.896	0.332	0.377	4e-85
359488288	1340	PREDICTED: LOW QUALITY PROTEIN: probable	0.710	0.282	0.435	8e-85
147833354	1494	hypothetical protein VITISV_041837 [Viti	0.684	0.243	0.436	9e-85
359488103	1530	PREDICTED: disease resistance protein At	0.659	0.229	0.437	3e-81
147777048	1460	hypothetical protein VITISV_009359 [Viti	0.682	0.248	0.424	9e-80
359488095	1347	PREDICTED: probable disease resistance p	0.680	0.268	0.428	9e-80

>gi|359488027|ref|XP_002269288.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  345 bits (886), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 187/392 (47%), Positives = 252/392 (64%), Gaps = 25/392 (6%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRL 65
           E  VDE  R  +EIE  V+K    V+  ++EA  F  V+ +AN+ CF G CPNLK+  +L
Sbjct: 52  ERSVDEAIRNGDEIEADVDKWLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQL 111

Query: 66  SKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSP 125
           S+EA+++   V  +Q  G+F+R+SY            K +EA ESRM+T ++I+ AL+  
Sbjct: 112 SREAKKRARVVAEIQGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRDA 171

Query: 126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------------------------ 161
            VN++G++GM G+ KTT  K+VA +AE EKLFD+V+                        
Sbjct: 172 HVNIIGVWGMAGVGKTTLMKQVAKQAEEEKLFDKVVMAYISSTPELKKIQGELADMLGLK 231

Query: 162 FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLD 221
           F EESE GRA  LC RLKK K IL+ILD+IW  LD   VGIP GDDHKGCK++LT+R+  
Sbjct: 232 FEEESEMGRAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKH 291

Query: 222 VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV 281
           +LS +M +Q+DF V  L+E+EA  LFKKMAGD IE  + + +A DVAK+CAGLP++IVTV
Sbjct: 292 ILSNEMGTQKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTV 351

Query: 282 ARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYT 341
           A+AL+NK L  W+DAL QL+    TN K +    Y  +ELSY  L+GDE+K++FLL G  
Sbjct: 352 AKALKNKGLSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYKHLEGDEVKSLFLLCGLM 411

Query: 342 A-IASIDDLLMYGMGLGLFQGIKRMEVARARV 372
           +    IDDLL YGMGL LFQG   +E A+ R+
Sbjct: 412 SNKIYIDDLLKYGMGLRLFQGTNTLEEAKNRI 443

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147802546|emb|CAN77665.1| hypothetical protein VITISV_007222 [Vitis vinifera]

 Score =  344 bits (882), Expect = 8e-92,   Method: Compositional matrix adjust.
 Identities = 187/392 (47%), Positives = 251/392 (64%), Gaps = 25/392 (6%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRL 65
           E  VDE  R  +EIE  V+K    V+  ++EA  F  V+ +AN+ CF G CPNLK+  +L
Sbjct: 52  ERSVDEAIRNGDEIEADVDKWLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQL 111

Query: 66  SKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSP 125
           S+EA+++   V  +Q  G+F+R+SY            K +EA ESRM+T ++I+ AL+  
Sbjct: 112 SREAKKRARVVAEIQGDGKFERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRDA 171

Query: 126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------------------------ 161
            VN++G++GM G+ KTT  K+VA + E EKLFD+V+                        
Sbjct: 172 HVNIIGVWGMAGVGKTTLMKQVAKQVEEEKLFDKVVMAYISSTPELKKIQGELADMLGLK 231

Query: 162 FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLD 221
           F EESE GRA  LC RLKK K IL+ILD+IW  LD   VGIP GDDHKGCK++LT+R+  
Sbjct: 232 FEEESEMGRAARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKH 291

Query: 222 VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV 281
           VLS +M +Q+DF V  L+E+EA  LFKKMAGD IE  + + +A DVAK+CAGLP++IVTV
Sbjct: 292 VLSNEMGTQKDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTV 351

Query: 282 ARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYT 341
           A+AL+NK L  W+DAL QL+    TN K +    Y  +ELSY  L+GDE+K++FLL G  
Sbjct: 352 AKALKNKGLSIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYNHLEGDEVKSLFLLCGLM 411

Query: 342 A-IASIDDLLMYGMGLGLFQGIKRMEVARARV 372
           +    IDDLL YGMGL LFQG   +E A+ R+
Sbjct: 412 SNKIYIDDLLKYGMGLRLFQGTNTLEEAKNRI 443

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087869|emb|CBI35152.3| unnamed protein product [Vitis vinifera]

 Score =  334 bits (856), Expect = 7e-89,   Method: Compositional matrix adjust.
 Identities = 213/561 (37%), Positives = 308/561 (54%), Gaps = 84/561 (14%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRL 65
           +  VDE  R   +IE+ V K     +  I +  KF+  D  A K CF GLCPNLK+  +L
Sbjct: 52  QHSVDEAIRNGHKIEDDVCKWMTRADGFIQKDCKFLE-DEEARKSCFNGLCPNLKSRYQL 110

Query: 66  SKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSP 125
           S+EA ++    V + EAG+F+R SY     +   + +   EA ESRM T N+++ AL+  
Sbjct: 111 SREARKKAGVAVEIHEAGQFERASYRAPLQE---IRSAPSEALESRMLTLNEVMKALRDA 167

Query: 126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------------------------ 161
            +N +G++G+GG+ KTT  K+VA +A  EKLFD+V+                        
Sbjct: 168 KINKIGVWGLGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMK 227

Query: 162 FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLD 221
           F EESE GRA  L  R+ +EK IL+ILD+IW  LD   +GIP  D HKGCK++LT+R+  
Sbjct: 228 FEEESEQGRAARLYQRMNEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEH 287

Query: 222 VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV 281
           +LS +MD+Q+DF V  L+EDE W LFK  AG  IE  E + +A DVAK+CAGLP+++VTV
Sbjct: 288 ILSNEMDTQKDFRVQPLQEDETWILFKNTAGS-IENPELQPIAVDVAKECAGLPLAVVTV 346

Query: 282 ARALRNKRLFD-WKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGY 340
           A AL+ ++    W+DA  QL+  +STN   +    Y +++LSY  L G E+K+ FLL G 
Sbjct: 347 ATALKGEKSVSIWEDARLQLKSQTSTNVTGLTTNVYSSLKLSYEHLKGVEVKSFFLLCGL 406

Query: 341 TAIASID--DLLMYGMGLGLFQGIKRMEVARARV-------------------------- 372
            +   I   DLL YG+GL LFQG   +E A+ R+                          
Sbjct: 407 ISQNDIHIWDLLKYGVGLRLFQGTNTLEEAKNRIDTLVGNLKSSNLLLETGHNAVVRMHD 466

Query: 373 ------------------VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELK 414
                             V+DL+ M L SLP SL  LTNL+TLCL  CK+ D  ++ +LK
Sbjct: 467 LVRMQIPNKFFEEMKQLKVLDLSRMQLPSLPLSLHCLTNLRTLCLDGCKVGDIVIIAKLK 526

Query: 415 ILEILRLRVNELTRAGS--SQLKHLSVRGLRASAP---NPTESEVALPKLETVCLSSINI 469
            LEIL L+ +++ +     +QL HL +  L  S+     P++   +L +LE +C++  N 
Sbjct: 527 KLEILSLKDSDMEQLPREIAQLTHLRLLDLSGSSKLKVIPSDVISSLSQLENLCMA--NS 584

Query: 470 ERIWQNQVAAMSCGIQNLKRL 490
              W+ +  + +C +  LK L
Sbjct: 585 FTQWEGEAKSNAC-LAELKHL 604

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865073|emb|CAN83232.1| hypothetical protein VITISV_021876 [Vitis vinifera]

 Score =  322 bits (825), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 178/405 (43%), Positives = 248/405 (61%), Gaps = 31/405 (7%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRL 65
           +  VDE       IE+ V K     +  I  A KF+  +  A K CF GLCPNLK+  +L
Sbjct: 52  QHSVDEAIGNGHIIEDDVRKWMKRADGFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQL 111

Query: 66  SKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSP 125
           S+EA ++    V +  AG+F+R+SY     +   +     EA ESRM T N+++ AL+  
Sbjct: 112 SREARKKAGVAVEIHGAGQFERVSYRAPLQE---IRTAPSEALESRMLTLNEVMEALRDA 168

Query: 126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV---------------------- 163
           ++N +G++GMGG+ K+T  K+VA +AE EKLF +V+ V                      
Sbjct: 169 NINRIGVWGMGGVGKSTLVKQVAEQAEQEKLFRKVVMVPVIQTPDFKGIQQQIADKLGMK 228

Query: 164 --EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLD 221
             E SE GRA  L  R+K+E  IL+ILD++W  L+   VGIP  DDHKGCK++LT+R+  
Sbjct: 229 FEEVSEQGRADRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQ 288

Query: 222 VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV 281
           VLS +M +Q+DF V  L+EDE W LFK  AGD IE  E + +A DVAK+CAGLP++IVTV
Sbjct: 289 VLSNEMSTQKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTV 348

Query: 282 ARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG-Y 340
           A+AL+NK +  WKDAL+QL   +STN   ++   Y +++LSY  L+GDE+K++FLL G +
Sbjct: 349 AKALKNKNVSIWKDALQQLNSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLFLLCGLF 408

Query: 341 TAIASIDDLLMYGMGLGLFQGIKRMEVARARV---VIDLTYMNLL 382
           +    I DLL YGMGL LFQG   +E A+ R+   V +L   NLL
Sbjct: 409 SNYIYIRDLLKYGMGLRLFQGTNTLEEAKNRIDTLVDNLKSSNLL 453

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143649|emb|CBI22402.3| unnamed protein product [Vitis vinifera]

 Score =  322 bits (824), Expect = 4e-85,   Method: Compositional matrix adjust.
 Identities = 212/561 (37%), Positives = 305/561 (54%), Gaps = 84/561 (14%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRL 65
           +  VDE  R   +IE+ V K     +  I +  KF+  D  A K CF GLCPNLK+  +L
Sbjct: 52  QHSVDEAIRNGHKIEDDVCKWMTRADGFIQKDCKFLE-DEEARKSCFNGLCPNLKSRYQL 110

Query: 66  SKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSP 125
           S+EA ++    V +   G+F++++Y   P   +    +  EA ESRM T N+++ AL+  
Sbjct: 111 SREASKKAGVSVQILGDGQFEKVAYRA-PLQGI--RCRPSEALESRMLTLNEVMEALRDA 167

Query: 126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------------------------ 161
            +N +G++G+GG+ KTT  K+VA +A  EKLFD+V+                        
Sbjct: 168 KINKIGVWGLGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMK 227

Query: 162 FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLD 221
           F EESE GRA  L  R+ +EK IL+ILD+IW  LD   +GIP  D HKGCK++LT+R+  
Sbjct: 228 FEEESEQGRAARLYQRMNEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEH 287

Query: 222 VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV 281
           +LS +MD+Q+DF V  L+EDE W LFK  AG  IE  E + +A DVAK+CAGLP++IVTV
Sbjct: 288 ILSNEMDTQKDFRVQPLQEDETWILFKNTAGS-IENPELQPIAVDVAKECAGLPLAIVTV 346

Query: 282 ARALRN-KRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGY 340
           A AL+  K +  W+DA  QL+  +STN   +    Y +++LSY  L G E+K+ FLL G 
Sbjct: 347 ATALKGEKSVSIWEDARLQLKSQTSTNVTGLTTNVYSSLKLSYEHLKGVEVKSFFLLCGL 406

Query: 341 TAIASID--DLLMYGMGLGLFQGIKRMEVARARV-------------------------- 372
            +   I   DLL YG+GL LFQG   +E A+ R+                          
Sbjct: 407 ISQNYIHIWDLLKYGVGLRLFQGTNTLEEAKNRIDTLVGNLKSSNLLLETGHNAVVRMHD 466

Query: 373 ------------------VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELK 414
                             VI L+ M L SLP SL  LTNL+TLCL  CK+ D  ++ +LK
Sbjct: 467 LVRMQIPNKFFEEMKQLKVIHLSRMQLPSLPLSLHCLTNLRTLCLDGCKVGDIVIIAKLK 526

Query: 415 ILEILRLRVNELTRAGS--SQLKHLSVRGLRASAP---NPTESEVALPKLETVCLSSINI 469
            LEIL L+ +++ +     +QL HL    L  S+     P++   +L +LE +C++  N 
Sbjct: 527 KLEILSLKDSDMEQLPREIAQLTHLRPLDLSGSSKLKVIPSDVISSLSQLENLCMA--NS 584

Query: 470 ERIWQNQVAAMSCGIQNLKRL 490
              W+ +  + +C +  LK L
Sbjct: 585 FTQWEGEGKSNAC-LAELKHL 604

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488288|ref|XP_003633735.1| PREDICTED: LOW QUALITY PROTEIN: probable disease resistance protein At1g61310-like [Vitis vinifera]

 Score =  320 bits (821), Expect = 8e-85,   Method: Compositional matrix adjust.
 Identities = 177/406 (43%), Positives = 247/406 (60%), Gaps = 28/406 (6%)

Query: 5   KESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRR 64
           ++  VDE  R+  +IE+ V K     +  I  A KF+  +  A K CF GLCPNLK+  +
Sbjct: 51  QQHSVDEAIRKGHKIEDDVCKWFTRADGFIQVACKFLEEEKEAQKTCFNGLCPNLKSRYQ 110

Query: 65  LSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKS 124
           LSKEA ++    V +   G+F+R+SY     +      K  +  ESRM T N+++ AL+ 
Sbjct: 111 LSKEARKKAGVAVEIHGDGQFERVSYRPPLLEIGSAPPKASKVLESRMLTLNEVMKALRD 170

Query: 125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI----------------------- 161
            D+N +GI+GMGG+ K T  K+VA +A  EKLFD+V+                       
Sbjct: 171 ADINTIGIWGMGGVGKNTLVKQVAEQAAQEKLFDKVVMTSVFQTPDFRRIQGEIADMLGM 230

Query: 162 -FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSL 220
            F EESE GRA  L  ++ +EK IL+ILD+IW  L+   +GIP  D+HKGCK++LT+R+ 
Sbjct: 231 KFEEESEQGRAARLHRKINEEKTILIILDDIWAELELEKIGIPSPDNHKGCKLVLTSRNK 290

Query: 221 DVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVT 280
            VLS +M +Q+DF V  L+ DEAW LFK M GD IE  +   +A DVAK+C GLP++IVT
Sbjct: 291 HVLSNEMSTQKDFGVEHLQGDEAWILFKNMVGDSIENPDLLLIATDVAKECTGLPIAIVT 350

Query: 281 VARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG- 339
           VA+AL+NK +  WKDAL+QL+  +STN   +    Y  ++LSY  L+GDE+K++FLL G 
Sbjct: 351 VAKALKNKNVSIWKDALKQLKTQTSTNITGMGTKVYSTLKLSYKHLEGDEVKSLFLLCGL 410

Query: 340 YTAIASIDDLLMYGMGLGLFQGIKRMEVARARV---VIDLTYMNLL 382
           ++    I DLL YGMGL LFQG   +E A+ R+   V +L   NLL
Sbjct: 411 FSNYIDIRDLLKYGMGLRLFQGTNTLEEAKNRIETLVDNLKASNLL 456

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147833354|emb|CAN66237.1| hypothetical protein VITISV_041837 [Vitis vinifera]

 Score =  320 bits (821), Expect = 9e-85,   Method: Compositional matrix adjust.
 Identities = 171/392 (43%), Positives = 245/392 (62%), Gaps = 28/392 (7%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRL 65
           +  V+E      +IE+YV K     +  I +A KF+  +  A K CF GLCPNLK+  +L
Sbjct: 52  QHSVNEAIGNGHKIEDYVCKWLTRADGFIQDACKFLEDEKEAQKSCFNGLCPNLKSRHQL 111

Query: 66  SKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSP 125
           S+EA ++    V + E G+F+++SY         +     EA ESRM T N+++ AL+  
Sbjct: 112 SREARKKAGVSVQILENGQFEKVSYRTPLQG---IRTAPSEALESRMLTLNEVMEALRDA 168

Query: 126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------------------------ 161
           ++N +G++GMGG+ K+T  K +A +A  EKLFD+V+                        
Sbjct: 169 NINRIGLWGMGGVGKSTLVKHLAEQANQEKLFDKVVKVSVLQTPDLERIQRELADGLGMK 228

Query: 162 FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLD 221
           F EESE GRA  L  R++ EK IL+ILD++W  L+   VGIP  DDHKGCK++LT+R+  
Sbjct: 229 FEEESEQGRAARLLQRMEAEKTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQ 288

Query: 222 VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV 281
           VLS +M +Q+DF V  L+EDE W LFK  AGD IE  E + +A DVAK+CAGLP++IVTV
Sbjct: 289 VLSNEMSTQKDFRVRHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPLAIVTV 348

Query: 282 ARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG-Y 340
           A+AL+NK +  WKDAL+QL+  +STN   I+   Y +++LSY  L+GDE+K++ LL G +
Sbjct: 349 AKALKNKNVSIWKDALQQLKSQTSTNITGIETKVYSSLKLSYEHLEGDEVKSLCLLCGLF 408

Query: 341 TAIASIDDLLMYGMGLGLFQGIKRMEVARARV 372
           ++   I DLL YG+GL LFQG   +E A+ R+
Sbjct: 409 SSYIHIRDLLKYGVGLRLFQGTNTLEEAKNRI 440

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488103|ref|XP_002263579.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  309 bits (791), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 166/379 (43%), Positives = 238/379 (62%), Gaps = 28/379 (7%)

Query: 19  IEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQKEAVVN 78
           IE+ V K     +  I  A KF+  +  A K CF GLCPNLK+  +LS+EA ++    V 
Sbjct: 65  IEDDVCKWMKRADGFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQLSREASKKAGVSVQ 124

Query: 79  VQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGI 138
           +   G+F++++Y   P   +    +  EA ESRM T N+++ AL+  ++N +G++GMGG+
Sbjct: 125 ILGDGQFEKVAYRA-PLQGI--RCRPSEALESRMLTLNEVMEALRDANINRIGVWGMGGV 181

Query: 139 RKTTPAKEVAIKAENEKLFDRVI------------------------FVEESESGRARSL 174
            K+T  K+VA +A  EKLF++V+                        F EESE GRA  L
Sbjct: 182 GKSTLVKQVAEQANQEKLFEKVVNVSVLQTPDLERIQRELADWLGMKFEEESEQGRAARL 241

Query: 175 CNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFW 234
             R+K EK IL+ILD++W  L+   VGIP  DDHKGCK++LT+R+  VLS +M +Q+DF 
Sbjct: 242 HQRMKAEKTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEMSTQKDFR 301

Query: 235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWK 294
           V  L+EDE W LFK  AGD IE  E + +A DVAK+CAGLP++IVTVA+AL+NK +  WK
Sbjct: 302 VRHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALKNKNVSIWK 361

Query: 295 DALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG-YTAIASIDDLLMYG 353
           DAL+QL+  +STN   ++   Y +++LSY  L+GDE+K++ LL G ++    I DLL YG
Sbjct: 362 DALQQLKSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLCLLCGLFSRYIHIRDLLKYG 421

Query: 354 MGLGLFQGIKRMEVARARV 372
           +GL LFQG   +E  + R+
Sbjct: 422 VGLRLFQGTNTLEEVKNRI 440

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147777048|emb|CAN65562.1| hypothetical protein VITISV_009359 [Vitis vinifera]

 Score =  304 bits (778), Expect = 9e-80,   Method: Compositional matrix adjust.
 Identities = 167/393 (42%), Positives = 240/393 (61%), Gaps = 30/393 (7%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRL 65
           +  VDE       IE+ V K     ++    A KF+  +  A K CF GLCPNLK+  +L
Sbjct: 52  QHSVDEAIGNGHIIEDDVCKWMKRADEFTQNACKFLEDEKEARKSCFNGLCPNLKSRYQL 111

Query: 66  SKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKSP 125
           S+EA ++    V +    +F+++SY     +   + +   EA +SRM T N+++ AL+  
Sbjct: 112 SREARKKAGVAVQILGDRQFEKVSYRAPLQE---IRSAPSEALQSRMLTLNEVMEALRDA 168

Query: 126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------------------------ 161
           D+N +G++G+GG+ K+T  K VA +AE E+LF +V+                        
Sbjct: 169 DINRIGVWGLGGVGKSTLVKRVAEQAEQEELFHKVVTASVFQTPDYKEIQQQIAEKLGMK 228

Query: 162 FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLD 221
           F E SE GRA  L  R+K+E  IL+ILD++W  L+   VGIP  DDHKGCK++LT+R+  
Sbjct: 229 FEEVSEQGRAGRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQ 288

Query: 222 VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV 281
           VLS +M +Q+DF V  L+EDE W LFK  AGD IE  E + +A DVAK+CAGLP++IVTV
Sbjct: 289 VLSNEMSTQKDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTV 348

Query: 282 ARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG-- 339
           A+AL+NK +  WKDAL+QL   +STN   ++   Y +++LSY  L+GDE+K++ LL G  
Sbjct: 349 AKALKNKNVAIWKDALQQLESQTSTNITGMETKVYSSLKLSYEHLEGDEMKSLCLLCGLC 408

Query: 340 YTAIASIDDLLMYGMGLGLFQGIKRMEVARARV 372
           Y+ I  I DLL YG+GL LFQG   +E A+ R+
Sbjct: 409 YSQIY-ISDLLKYGVGLRLFQGTNTLEEAKNRI 440

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488095|ref|XP_002270726.2| PREDICTED: probable disease resistance protein At4g27220-like [Vitis vinifera]

 Score =  304 bits (778), Expect = 9e-80,   Method: Compositional matrix adjust.
 Identities = 169/394 (42%), Positives = 247/394 (62%), Gaps = 32/394 (8%)

Query: 6   ESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRL 65
           +  VDE       IE+   K     ++ I  A KF+  +  A K CF GLCPNLK+  +L
Sbjct: 52  QHSVDEAIGNGHIIEDDACKWMKRADEFIQNACKFLEDEKEARKSCFNGLCPNLKSRYQL 111

Query: 66  SKEAERQKEAVVNVQEAG--RFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALK 123
           S+EA  +K+A V+VQ  G  +F+++SY     +   + +   EA +SRM T N+++ AL+
Sbjct: 112 SREA--RKKAGVSVQILGDRQFEKVSYRAPLQE---IRSAPSEALQSRMLTLNEVMEALR 166

Query: 124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV-------------------- 163
             ++N +G++G+GG+ K+T  K+VA +AE EKLF +V+ V                    
Sbjct: 167 DANINRIGVWGLGGVGKSTLVKQVAEQAEQEKLFRKVVMVPVFQTPDFKGIQQQIADKLG 226

Query: 164 ----EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARS 219
               E SE GRA  L  R+K+E  IL+ILD++W  L+   VGIP  DDHKGCK++LT+R+
Sbjct: 227 MKFEEVSEQGRADRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRN 286

Query: 220 LDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIV 279
             VLS +M +Q+DF V  L+EDE W LFK  AGD I+  E + +A DVAK+CAGLP++IV
Sbjct: 287 KQVLSNEMSTQKDFRVQHLQEDETWILFKNTAGDSIKNPELQPIAVDVAKECAGLPIAIV 346

Query: 280 TVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG 339
           TVA+AL+NK +  WKDAL+QL+  +STN   ++   Y +++LSY  L+GDE+K++ LL G
Sbjct: 347 TVAKALKNKNVSIWKDALQQLKSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLCLLCG 406

Query: 340 -YTAIASIDDLLMYGMGLGLFQGIKRMEVARARV 372
            +++   I DLL YG+GL LFQG   +E A+ R+
Sbjct: 407 LFSSDIHIGDLLKYGVGLRLFQGTNTLEEAKNRI 440

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	532
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.323	0.174	0.392	1.3e-27
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.321	0.186	0.350	1.6e-26
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.319	0.191	0.329	9.9e-24
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.317	0.190	0.312	8.6e-23
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.317	0.185	0.314	1.5e-22
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.317	0.199	0.32	1.7e-21
TAIR|locus:2170902	862	AT5G43740 [Arabidopsis thalian	0.317	0.196	0.308	1.8e-20
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.312	0.185	0.314	1.8e-20
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.359	0.197	0.313	2.9e-20
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.315	0.197	0.304	1e-19

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 301 (111.0 bits), Expect = 1.3e-27, Sum P(3) = 1.3e-27
 Identities = 69/176 (39%), Positives = 106/176 (60%)

Query:   163 VEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDV 222
             +EESE   AR +   L KE+  L+ILD++W+ +D   +GIP  +++KG KV+LT+R L+V
Sbjct:   228 MEESEEKLARRIYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEENKGSKVILTSRFLEV 287

Query:   223 LSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVA 282
               R M +  D  V  L E++AW LF K AGD +     + +AK V+++C GLP++I+TV 
Sbjct:   288 C-RSMKTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECGGLPLAIITVG 346

Query:   283 RALRNKRLFD-WKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLL 337
              A+R K+    W   L +L   S    K I+   ++ ++LSY  L+ D+ K  FLL
Sbjct:   347 TAMRGKKNVKLWNHVLSKLS-KSVPWIKSIEEKIFQPLKLSYDFLE-DKAKFCFLL 400

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2131689 AT4G27220 [Arabidopsis thaliana (taxid:3702)]

 Score = 255 (94.8 bits), Expect = 1.6e-26, Sum P(3) = 1.6e-26
 Identities = 62/177 (35%), Positives = 95/177 (53%)

Query:   162 FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHG-DDHKGCKVLLTARSL 220
             F  E  +    ++C RL   K  L+ILD++W  +D   +GIP   +  K  KV+LT+R L
Sbjct:   196 FTREQMNQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGIPLALERSKDSKVVLTSRRL 255

Query:   221 DVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVT 280
             +V  + M + ++  V  L+E EAW LF    G+       K +AKDV+ +C GLP++I+T
Sbjct:   256 EVCQQMM-TNENIKVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECCGLPLAIIT 314

Query:   281 VARALRNKRLFD-WKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
             + R LR K   + WK  L  L+   S    D +   +  ++LSY  L  D +K+ FL
Sbjct:   315 IGRTLRGKPQVEVWKHTLNLLK--RSAPSIDTEEKIFGTLKLSYDFLQ-DNMKSCFL 368

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 251 (93.4 bits), Expect = 9.9e-24, Sum P(3) = 9.9e-24
 Identities = 58/176 (32%), Positives = 99/176 (56%)

Query:   164 EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVL 223
             E++++  A  + N L++ K +L +LD+IWE ++  AVG+P+     GCKV  T RS DV 
Sbjct:   241 EKNDNQIAVDIHNVLRRRKFVL-LLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVC 299

Query:   224 SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGS--EFKWVAKDVAKKCAGLPVSIVTV 281
              R M       V  L+ +E+W LF+   G    GS  +   +A+ VA+KC GLP+++  +
Sbjct:   300 GR-MGVDDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVI 358

Query:   282 ARALRNKR-LFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
               A+  KR + +W  A++ L   S+ +F  ++      ++ SY  L+G+ +K+ FL
Sbjct:   359 GEAMACKRTVHEWCHAIDVLT-SSAIDFSGMEDEILHVLKYSYDNLNGELMKSCFL 413

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0006952 "defense response" evidence=IMP;TAS

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 250 (93.1 bits), Expect = 8.6e-23, Sum P(3) = 8.6e-23
 Identities = 55/176 (31%), Positives = 96/176 (54%)

Query:   164 EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVL 223
             E++++ RA  + N L+++K +L +LD+IWE ++   +G+P+     GCKV  T  S +V 
Sbjct:   241 EKNKNQRALDIHNVLRRKKFVL-LLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVC 299

Query:   224 SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGS--EFKWVAKDVAKKCAGLPVSIVTV 281
              R M       +  L    AW L KK  G+   GS  +   +A+ V++KC GLP+++  +
Sbjct:   300 GR-MGVDNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVI 358

Query:   282 ARALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
                +  KR   +W+ A E L   S+T+F  ++      ++ SY  L+G++ K+ FL
Sbjct:   359 GETMSFKRTIQEWRHATEVLT--SATDFSGMEDEILPILKYSYDSLNGEDAKSCFL 412

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2005517 RPS2 "RESISTANT TO P. SYRINGAE 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 237 (88.5 bits), Expect = 1.5e-22, Sum P(3) = 1.5e-22
 Identities = 56/178 (31%), Positives = 96/178 (53%)

Query:   164 EESESGRARSL-CNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDV 222
             +E E+G  R+L   R  ++K  L++LD++WE +D    G+P  D    CKV+ T RS+  
Sbjct:   236 DEKETGENRALKIYRALRQKRFLLLLDDVWEEIDLEKTGVPRPDRENKCKVMFTTRSI-A 294

Query:   223 LSRKMDSQQDFWVGVLKEDEAWSLF--KKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVT 280
             L   M ++    V  L++  AW LF  K    D +E S  + +A+ +  KC GLP++++T
Sbjct:   295 LCNNMGAEYKLRVEFLEKKHAWELFCSKVWRKDLLESSSIRRLAEIIVSKCGGLPLALIT 354

Query:   281 VARALRNKRLFD-WKDALEQL-RWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
             +  A+ ++   + W  A E L R+P+    K +    +  ++ SY  L+ D L++ FL
Sbjct:   355 LGGAMAHRETEEEWIHASEVLTRFPAE--MKGMN-YVFALLKFSYDNLESDLLRSCFL 409

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006952 "defense response" evidence=ISS;TAS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0016045 "detection of bacterium" evidence=RCA;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0042742 "defense response to bacterium" evidence=RCA;IMP

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0031347 "regulation of defense response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

GO:0050776 "regulation of immune response" evidence=RCA

GO:0050832 "defense response to fungus" evidence=RCA

GO:0051707 "response to other organism" evidence=RCA

TAIR|locus:2170892 AT5G43730 [Arabidopsis thaliana (taxid:3702)]

 Score = 233 (87.1 bits), Expect = 1.7e-21, Sum P(3) = 1.7e-21
 Identities = 56/175 (32%), Positives = 92/175 (52%)

Query:   165 ESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLS 224
             E+ES +A  + N LK++K +L +LD++W  +D   +G+P      G K++ T RS +V  
Sbjct:   237 ETESKKASLINNNLKRKKFVL-LLDDLWSEVDLIKIGVPPPSRENGSKIVFTTRSKEVC- 294

Query:   225 RKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGS--EFKWVAKDVAKKCAGLPVSIVTVA 282
             + M + +   V  L  DEAW LF+   GD I  S  +   +A+ VA KC GLP+++  + 
Sbjct:   295 KHMKADKQIKVDCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIG 354

Query:   283 RALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
             +A+  K    +W+ A+  L  P    F  ++      ++ SY  L   E+K  FL
Sbjct:   355 KAMVCKETVQEWRHAINVLNSPGH-KFPGMEERILPILKFSYDSLKNGEIKLCFL 408

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2170902 AT5G43740 [Arabidopsis thaliana (taxid:3702)]

 Score = 228 (85.3 bits), Expect = 1.8e-20, Sum P(3) = 1.8e-20
 Identities = 54/175 (30%), Positives = 91/175 (52%)

Query:   165 ESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLS 224
             E+ES +A  + N L+++K +L +LD++W  +D   +G+P      G K++ T RS +V  
Sbjct:   236 ETESKKASLIYNNLERKKFVL-LLDDLWSEVDMTKIGVPPPTRENGSKIVFTTRSTEVC- 293

Query:   225 RKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGS--EFKWVAKDVAKKCAGLPVSIVTVA 282
             + M + +   V  L  DEAW LF+   GD I  S  +   +A+ VA KC GLP+++  + 
Sbjct:   294 KHMKADKQIKVACLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIG 353

Query:   283 RALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
             +A+  K    +W  A+  L   +   F  ++      ++ SY  L   E+K  FL
Sbjct:   354 KAMSCKETIQEWSHAINVLN-SAGHEFPGMEERILPILKFSYDSLKNGEIKLCFL 407

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 233 (87.1 bits), Expect = 1.8e-20, Sum P(3) = 1.8e-20
 Identities = 55/175 (31%), Positives = 100/175 (57%)

Query:   166 SESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSR 225
             +E+ RA  + N L K+K +L +LD+IWE ++   +G+P+     GCKV+ T RS DV  R
Sbjct:   243 NENQRALDIYNVLGKQKFVL-LLDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGR 301

Query:   226 -KMDSQQDFWVGVLKEDEAWSLFKKMAGDY-IEGS-EFKWVAKDVAKKCAGLPVSIVTVA 282
              ++D   +  V  L+ +EAW LF+   G+  ++G  +   +A+ VA KC GLP+++  + 
Sbjct:   302 MRVDDPME--VSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIG 359

Query:   283 RALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
               +  KR+  +W++A++ L    +  F  ++      ++ SY  L+ +++K  FL
Sbjct:   360 ETMACKRMVQEWRNAIDVLS-SYAAEFPGMEQIL-PILKYSYDNLNKEQVKPCFL 412

GO:0006952 "defense response" evidence=IGI;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 255 (94.8 bits), Expect = 2.9e-20, Sum P(2) = 2.9e-20
 Identities = 63/201 (31%), Positives = 109/201 (54%)

Query:   151 AENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKG 210
             AE   L D  ++  ++ES +A  + +R+ K K  +++LD+IWE +D  A+GIP+  +   
Sbjct:   226 AEKLHLCDD-LWKNKNESDKATDI-HRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNK 283

Query:   211 CKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSE--FKWVAKDVA 268
             CKV  T R   V  + M   +   V  L+ ++AW LFK   GD    S+     +A++VA
Sbjct:   284 CKVAFTTRDQKVCGQ-MGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVA 342

Query:   269 KKCAGLPVSIVTVARALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLD 327
             +KC GLP+++  +   + +K +  +W+ A++ L   S+  F D+Q      ++ SY  L+
Sbjct:   343 QKCRGLPLALSCIGETMASKTMVQEWEHAIDVLT-RSAAEFSDMQNKILPILKYSYDSLE 401

Query:   328 GDELKNIFLLIGYTAIASIDD 348
              + +K+ FL   Y A+   DD
Sbjct:   402 DEHIKSCFL---YCALFPEDD 419

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 230 (86.0 bits), Expect = 1.0e-19, Sum P(3) = 1.0e-19
 Identities = 53/174 (30%), Positives = 92/174 (52%)

Query:   166 SESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSR 225
             +E  +A  +CN L  +K +L +LD++W  +D   +G+P      G K++ T RS DV  R
Sbjct:   240 TEKEKASYICNILNVKKFVL-LLDDLWSEVDLEKIGVPPLTRENGSKIVFTTRSKDVC-R 297

Query:   226 KMDSQQDFWVGVLKEDEAWSLFKKMAGDY-IEGSE-FKWVAKDVAKKCAGLPVSIVTVAR 283
              M+   +  V  L  DEAW LF+K  G   ++  E    +A+ VA+KC GLP+++  + +
Sbjct:   298 DMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSHEDIPTLARKVAEKCCGLPLALSVIGK 357

Query:   284 ALRNKRLF-DWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFL 336
             A+ ++    +W+  +  L   SS  F  ++      ++ SY  L  +++K  FL
Sbjct:   358 AMASRETVQEWQHVIHVLN-SSSHEFPSMEEKILPVLKFSYDDLKDEKVKLCFL 410

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	532
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-35

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score =  133 bits (338), Expect = 1e-35
 Identities = 69/243 (28%), Positives = 107/243 (44%), Gaps = 34/243 (13%)

Query: 124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV-------------------- 163
           S ++ ++GI GMGG+ KTT AK++         FD V +V                    
Sbjct: 16  SDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFRLQKDILQELG 75

Query: 164 -------EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLT 216
                  E++ES  A  +   L   K  L++LD++WE  D+  +G+P  D   G +V++T
Sbjct: 76  LDDSDWVEKNESELAVKIKEALL-RKRFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVT 134

Query: 217 ARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAG--DYIEGSEFKWVAKDVAKKCAGL 274
            RS  V  R   + +   V  L+ +E+W LF       +     E + VAK++ +KC GL
Sbjct: 135 TRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEKCKGL 194

Query: 275 PVSIVTVARALRNKRLFD-WKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKN 333
           P+++  +   L  K     W+  LEQL        +D        + LSY  L    LK 
Sbjct: 195 PLALKVLGGLLAFKSTVQEWEHVLEQLNN--ELAGRDGLNEVLSILSLSYDNL-PMHLKR 251

Query: 334 IFL 336
            FL
Sbjct: 252 CFL 254

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	532
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.44
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.33
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.32
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.31
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.3
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.25
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.24
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.15
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.04
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.01
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.01
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.01
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.0
PF05729	166	NACHT: NACHT domain	98.99
PRK04841	903	transcriptional regulator MalT; Provisional	98.97
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.96
PRK13342	413	recombination factor protein RarA; Reviewed	98.96
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.95
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.94
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.92
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.92
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	98.89
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.86
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.85
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.84
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.81
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.76
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.76
KOG4237	498	consensus Extracellular matrix protein slit, conta	98.75
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	98.71
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	98.71
PRK06893	229	DNA replication initiation factor; Validated	98.69
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	98.67
PRK04195	482	replication factor C large subunit; Provisional	98.64
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.59
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.58
PF13173	128	AAA_14: AAA domain	98.58
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.58
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.56
PLN03025	319	replication factor C subunit; Provisional	98.54
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.54
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.53
PRK12402	337	replication factor C small subunit 2; Reviewed	98.53
COG3899	849	Predicted ATPase [General function prediction only	98.52
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.52
PRK13341	725	recombination factor protein RarA/unknown domain f	98.5
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.5
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.49
COG3903	414	Predicted ATPase [General function prediction only	98.48
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.48
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.47
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.47
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.46
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.44
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.44
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.42
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.42
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.41
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.39
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.38
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.38
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.37
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	98.37
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.37
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.36
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.35
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.34
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.33
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.33
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.33
PRK08727	233	hypothetical protein; Validated	98.33
PRK09087	226	hypothetical protein; Validated	98.32
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.31
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.31
PRK08084	235	DNA replication initiation factor; Provisional	98.29
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.29
PLN03150	623	hypothetical protein; Provisional	98.27
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.27
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.25
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.24
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.23
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.22
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.2
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.19
KOG2028	554	consensus ATPase related to the helicase subunit o	98.18
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.16
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.16
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.16
PHA02544	316	44 clamp loader, small subunit; Provisional	98.14
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.14
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.13
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.13
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.12
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.12
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.1
PLN03150	623	hypothetical protein; Provisional	98.1
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.09
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.09
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.09
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.08
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.07
PRK05642	234	DNA replication initiation factor; Validated	98.06
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.05
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.05
CHL00181	287	cbbX CbbX; Provisional	98.04
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.03
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.03
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.01
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.99
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.99
CHL00095	821	clpC Clp protease ATP binding subunit	97.99
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.98
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.96
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.95
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.95
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.95
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.94
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.9
PTZ00202	550	tuzin; Provisional	97.89
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.87
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.87
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.86
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.86
PRK06620	214	hypothetical protein; Validated	97.86
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.85
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.85
PF00004	132	AAA: ATPase family associated with various cellula	97.85
PRK10865	857	protein disaggregation chaperone; Provisional	97.84
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.84
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.83
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.8
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.79
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.79
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.79
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.78
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.78
PF14516	331	AAA_35: AAA-like domain	97.75
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.74
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.71
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.7
CHL00176	638	ftsH cell division protein; Validated	97.7
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.69
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.67
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.67
PRK10536	262	hypothetical protein; Provisional	97.66
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.65
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.62
PRK09376	416	rho transcription termination factor Rho; Provisio	97.6
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.59
CHL00195	489	ycf46 Ycf46; Provisional	97.59
PHA00729	226	NTP-binding motif containing protein	97.56
cd01128	249	rho_factor Transcription termination factor rho is	97.54
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.5
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.5
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.49
PRK15386	426	type III secretion protein GogB; Provisional	97.47
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.47
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.46
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.44
PRK08118	167	topology modulation protein; Reviewed	97.44
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.42
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.41
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.41
PRK15386	426	type III secretion protein GogB; Provisional	97.4
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.38
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.38
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.36
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.34
smart00382	148	AAA ATPases associated with a variety of cellular	97.33
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.32
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.31
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.29
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.28
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.27
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.26
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.26
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.23
KOG4237	498	consensus Extracellular matrix protein slit, conta	97.22
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.21
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.21
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.21
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.19
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.15
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.14
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.13
PRK07261	171	topology modulation protein; Provisional	97.12
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.12
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	97.12
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.12
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	97.11
PRK08181	269	transposase; Validated	97.11
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.11
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.09
KOG2123	388	consensus Uncharacterized conserved protein [Funct	97.07
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.07
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.06
PRK12422	445	chromosomal replication initiation protein; Provis	97.06
TIGR00767	415	rho transcription termination factor Rho. Members	97.03
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.02
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.02
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.99
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.99
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.94
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.94
PRK08116	268	hypothetical protein; Validated	96.91
PRK06696	223	uridine kinase; Validated	96.89
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.89
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.89
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.87
PRK13531	498	regulatory ATPase RavA; Provisional	96.86
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.86
KOG0736	953	consensus Peroxisome assembly factor 2 containing	96.84
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	96.81
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.81
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.77
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.76
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.74
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.73
PRK09183	259	transposase/IS protein; Provisional	96.7
PRK06526	254	transposase; Provisional	96.7
PRK08939	306	primosomal protein DnaI; Reviewed	96.69
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.69
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.68
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.67
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	96.67
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.65
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.62
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	96.59
PRK12377	248	putative replication protein; Provisional	96.57
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.53
PRK06547	172	hypothetical protein; Provisional	96.53
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.51
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.5
PRK15455	644	PrkA family serine protein kinase; Provisional	96.49
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.47
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	96.46
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.42
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.41
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.38
cd02117	212	NifH_like This family contains the NifH (iron prot	96.38
PRK07667	193	uridine kinase; Provisional	96.38
PRK13230	279	nitrogenase reductase-like protein; Reviewed	96.38
PRK13236	296	nitrogenase reductase; Reviewed	96.37
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.36
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.36
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.31
TIGR01287	275	nifH nitrogenase iron protein. This model describe	96.29
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.28
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.28
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.26
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.24
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.19
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.17
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.16
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.15
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.15
PRK13232	273	nifH nitrogenase reductase; Reviewed	96.14
PRK13235	274	nifH nitrogenase reductase; Reviewed	96.14
PTZ00301	210	uridine kinase; Provisional	96.13
PRK04132	846	replication factor C small subunit; Provisional	96.12
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.12
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.12
PRK08233	182	hypothetical protein; Provisional	96.11
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.1
PRK06921	266	hypothetical protein; Provisional	96.09
PRK05480	209	uridine/cytidine kinase; Provisional	96.09
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.06
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.01
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.0
PRK07952	244	DNA replication protein DnaC; Validated	95.99
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	95.99
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.97
KOG1969	877	consensus DNA replication checkpoint protein CHL12	95.97
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.96
PRK10865	857	protein disaggregation chaperone; Provisional	95.95
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	95.95
CHL00095	821	clpC Clp protease ATP binding subunit	95.95
TIGR00235	207	udk uridine kinase. Model contains a number of lon	95.94
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	95.93
PRK14737	186	gmk guanylate kinase; Provisional	95.93
PRK06762	166	hypothetical protein; Provisional	95.91
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	95.91
COG2884	223	FtsE Predicted ATPase involved in cell division [C	95.86
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	95.86
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	95.83
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.83
PHA02244	383	ATPase-like protein	95.82
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	95.82
PRK03839	180	putative kinase; Provisional	95.82
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.8
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	95.78
PRK13233	275	nifH nitrogenase reductase; Reviewed	95.77
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	95.77
cd02040	270	NifH NifH gene encodes component II (iron protein)	95.75
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	95.74
PF13245	76	AAA_19: Part of AAA domain	95.73
PRK13234	295	nifH nitrogenase reductase; Reviewed	95.68
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	95.68
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.68
PRK11608	326	pspF phage shock protein operon transcriptional ac	95.67
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	95.66
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.66
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.61
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	95.57
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	95.57
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	95.57
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	95.55
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.55
PRK12608	380	transcription termination factor Rho; Provisional	95.54
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.51
KOG4341	483	consensus F-box protein containing LRR [General fu	95.5
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.5
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	95.5
COG1100	219	GTPase SAR1 and related small G proteins [General	95.5
PRK00625	173	shikimate kinase; Provisional	95.48
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	95.47
PRK00131	175	aroK shikimate kinase; Reviewed	95.47
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	95.47
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	95.47
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	95.46
PRK13768	253	GTPase; Provisional	95.45
PRK04040	188	adenylate kinase; Provisional	95.45
cd02032	267	Bchl_like This family of proteins contains bchL an	95.44
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	95.43
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	95.42
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.42
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	95.42
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.41
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	95.41
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	95.4
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	95.4
COG0488	530	Uup ATPase components of ABC transporters with dup	95.39
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	95.39
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	95.37
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	95.36
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	95.36
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.35
PRK05541	176	adenylylsulfate kinase; Provisional	95.34
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.34
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	95.32
CHL00206	2281	ycf2 Ycf2; Provisional	95.31
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	95.31
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.31
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.3
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	95.3
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.3
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.28
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	95.28
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.25
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.25
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	95.25
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	95.25
PRK06217	183	hypothetical protein; Validated	95.23
PRK06835	329	DNA replication protein DnaC; Validated	95.22
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.21
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	95.2
PRK00889	175	adenylylsulfate kinase; Provisional	95.2
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	95.18
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	95.17
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	95.16
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	95.16
PLN02165	334	adenylate isopentenyltransferase	95.16
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	95.15
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	95.15
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	95.14
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	95.14
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	95.13
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	95.13
PRK09354	349	recA recombinase A; Provisional	95.12
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	95.12
PRK13947	171	shikimate kinase; Provisional	95.12
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.09
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.08
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	95.07
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	95.07
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	95.06
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	95.05
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	95.05
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	95.05
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	95.04
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	95.04
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	95.03
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	95.03
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	95.02
smart00178	184	SAR Sar1p-like members of the Ras-family of small	95.02
PRK14527	191	adenylate kinase; Provisional	94.99
PF07726	131	AAA_3: ATPase family associated with various cellu	94.99
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	94.98
PRK14530	215	adenylate kinase; Provisional	94.96
PRK13949	169	shikimate kinase; Provisional	94.96
CHL00072	290	chlL photochlorophyllide reductase subunit L	94.95
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.93
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	94.93
PRK10416	318	signal recognition particle-docking protein FtsY;	94.93
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	94.92
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	94.91
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	94.88
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	94.88
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	94.88
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	94.85
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	94.84
PRK00300	205	gmk guanylate kinase; Provisional	94.84
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	94.83
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.83
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	94.78
PRK05022	509	anaerobic nitric oxide reductase transcription reg	94.77
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	94.76
PRK03846	198	adenylylsulfate kinase; Provisional	94.76
PLN02348	395	phosphoribulokinase	94.76
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	94.75
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	94.75
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	94.75
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	94.73
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	94.72
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	94.72
PRK13975	196	thymidylate kinase; Provisional	94.69
PRK05439	311	pantothenate kinase; Provisional	94.68
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.68
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	94.67
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	94.67
PRK05057	172	aroK shikimate kinase I; Reviewed	94.66
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	94.66
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	94.66
PRK12339	197	2-phosphoglycerate kinase; Provisional	94.66
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	94.62
PRK04296	190	thymidine kinase; Provisional	94.61
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	94.6
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	94.59
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	94.57
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	94.56
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	94.55
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.54
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	94.54
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	94.51
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	94.51
PRK00771	437	signal recognition particle protein Srp54; Provisi	94.49
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	94.49
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	94.49
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	94.48
KOG4341	483	consensus F-box protein containing LRR [General fu	94.47
cd02034	116	CooC The accessory protein CooC, which contains a	94.47
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	94.46
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	94.46
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	94.46
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	94.45
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	94.44
TIGR02237	209	recomb_radB DNA repair and recombination protein R	94.44
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	94.44
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	94.44
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	94.44
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	94.43
PRK13948	182	shikimate kinase; Provisional	94.42
PRK13946	184	shikimate kinase; Provisional	94.41
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	94.4
cd03114	148	ArgK-like The function of this protein family is u	94.4
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	94.39
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	94.39
PRK13231	264	nitrogenase reductase-like protein; Reviewed	94.37
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	94.36
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	94.35
PTZ00133	182	ADP-ribosylation factor; Provisional	94.35
PLN02772	398	guanylate kinase	94.34
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	94.34
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	94.32
PLN02200	234	adenylate kinase family protein	94.31
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	94.29
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	94.27
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	94.26
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	94.25
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	94.24
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.24
cd00881	189	GTP_translation_factor GTP translation factor fami	94.22
PTZ00369	189	Ras-like protein; Provisional	94.21
PRK04182	180	cytidylate kinase; Provisional	94.2
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	94.19
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	94.18
PRK09825	176	idnK D-gluconate kinase; Provisional	94.17
PRK14738	206	gmk guanylate kinase; Provisional	94.17
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	94.16
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.16
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	94.13
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	94.13
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	94.12
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	94.12
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	94.12
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	94.11
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	94.11
PRK00698	205	tmk thymidylate kinase; Validated	94.09
PLN02318	656	phosphoribulokinase/uridine kinase	94.08
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	94.08
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	94.05
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	94.05
PRK08149	428	ATP synthase SpaL; Validated	94.04
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	94.04
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	94.04
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.03
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	94.03

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=4.5e-64  Score=543.87  Aligned_cols=505  Identities=25%  Similarity=0.358  Sum_probs=397.5

Q ss_pred             ccccccchhhhccccchHHHHHHHHHHHHHHHHHHHHHHHhhhcc-----------------cccccccc-cchhhHhHH
Q 048213            4 SKESEVDEPKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARAN-----------------KHCFKGLC-PNLKTHRRL   65 (532)
Q Consensus         4 r~q~~l~~a~~~~~~~~~~~~~Wl~~l~~~ayd~ed~ld~~~~~~-----------------~~~~~~~~-~~~~~~~~~   65 (532)
                      .+|+++.||++++ .....+..|...+++++|++||.++.|....                 .-|+.++| .....-+.+
T Consensus        39 ~l~~~l~d~~a~~-~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~  117 (889)
T KOG4658|consen   39 ALQSALEDLDAKR-DDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKY  117 (889)
T ss_pred             HHHHHHHHHHhhc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhH
Confidence            5788999999987 4578999999999999999999999763211                 11233333 334445566


Q ss_pred             HHHHHHHHHHHHHHHhcCccceeecc-cCCCCccccccccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHH
Q 048213           66 SKEAERQKEAVVNVQEAGRFDRISYN-IIPDDSLLLSNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPA  144 (532)
Q Consensus        66 a~~i~~~~~~~~~i~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA  144 (532)
                      ++++-++...++.+..+..|..+... .+.....+.|..+... +|.+..++++.+.|.+++..+++|+||||+||||||
T Consensus       118 ~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~~~~-VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~  196 (889)
T KOG4658|consen  118 GKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQSESD-VGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLA  196 (889)
T ss_pred             HHHHHHHHHHHHHhccccceecccccccchhhcccCCCCcccc-ccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHH
Confidence            77777777777777666666665542 2222233444444444 999999999999999888899999999999999999


Q ss_pred             HHHHHHhh-ccCCCCEEEEeccCc---------------------------hhhHHHHHHHHhccCcEEEEEcCCCCccc
Q 048213          145 KEVAIKAE-NEKLFDRVIFVEESE---------------------------SGRARSLCNRLKKEKMILVILDNIWENLD  196 (532)
Q Consensus       145 ~~v~~~~~-~~~~F~~~~~~~~~~---------------------------~~~~~~l~~~l~~~k~~LlVlDdv~~~~~  196 (532)
                      +.++|+.. ++.+||.++|...+.                           ......+.+.|. +||||||+||||+..+
T Consensus       197 ~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~-~krfllvLDDIW~~~d  275 (889)
T KOG4658|consen  197 RQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLE-GKRFLLVLDDIWEEVD  275 (889)
T ss_pred             HHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhc-cCceEEEEeccccccc
Confidence            99999988 999999999444322                           234556777777 6999999999999999


Q ss_pred             ccccccccCCCCCCeEEEEeecChHHhhhcCCCCceEEccCCCHHHHHHHHHHHhCCC--CCCcchHHHHHHHHHHcCCc
Q 048213          197 FHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDY--IEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       197 ~~~l~~~~~~~~~gs~ilvTtr~~~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~--~~~~~~~~~~~~i~~~c~gl  274 (532)
                      |+.+..|+|...+||+|++|||++.|+...+++...++++.|++++||+||.+.+|..  ...+.++++|++|+++|+|+
T Consensus       276 w~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GL  355 (889)
T KOG4658|consen  276 WDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGL  355 (889)
T ss_pred             HHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCCh
Confidence            9999999999999999999999999987668888899999999999999999999943  33345899999999999999


Q ss_pred             hHHHHHHHHHHccC-ChHHHHHHHHHhcCCCCCCCCCchhHHHHHHHhhcCCCCCchHHHHHHHHhhh---hcCChhHHH
Q 048213          275 PVSIVTVARALRNK-RLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYT---AIASIDDLL  350 (532)
Q Consensus       275 PLai~~~~~~l~~~-~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f~~lalF---~~i~~~~Li  350 (532)
                      |||+.++|+.++.+ +..+|+++.+.+.+.......+....++.++.+||++||++ +|.||+|||+|   +.|+++.|+
T Consensus       356 PLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~-lK~CFLycalFPED~~I~~e~Li  434 (889)
T KOG4658|consen  356 PLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEE-LKSCFLYCALFPEDYEIKKEKLI  434 (889)
T ss_pred             HHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHH-HHHHHHhhccCCcccccchHHHH
Confidence            99999999999988 88899999999987655555566789999999999999977 99999999999   999999999


Q ss_pred             HHHHHhcccCC---cccHHHHHhhHHhhhhccccc---------------------------------------------
Q 048213          351 MYGMGLGLFQG---IKRMEVARARVVIDLTYMNLL---------------------------------------------  382 (532)
Q Consensus       351 ~~w~aeg~~~~---~~~~~~~~~~~~l~l~~~~l~---------------------------------------------  382 (532)
                      .+|+||||+.+   ....++.+..++-++...++-                                             
T Consensus       435 ~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~  514 (889)
T KOG4658|consen  435 EYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQIVSDGVGLS  514 (889)
T ss_pred             HHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccceEEECCcCcc
Confidence            99999999975   234444444422222221110                                             


Q ss_pred             CCchhhhccccccEEEeccccccCcccccccccccEEeecccc--cccc------ccCCcceEEeccccccCCCCCcccc
Q 048213          383 SLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNE--LTRA------GSSQLKHLSVRGLRASAPNPTESEV  454 (532)
Q Consensus       383 ~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~--l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~  454 (532)
                      ..|. ..+....|.+.+.++.+.....-.+.++|++|-+.+|.  +..+      .++.|++|+|++|.. ...+|.+++
T Consensus       515 ~~~~-~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~-l~~LP~~I~  592 (889)
T KOG4658|consen  515 EIPQ-VKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSS-LSKLPSSIG  592 (889)
T ss_pred             cccc-ccchhheeEEEEeccchhhccCCCCCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCc-cCcCChHHh
Confidence            0111 11223445666666665554444455689999888875  3333      689999999999866 788999999


Q ss_pred             cCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          455 ALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       455 ~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      +|-+||||+|+++.++.+|.++     .+|+.|.+|++..+..+..+ |... ..|++|++|.+-..
T Consensus       593 ~Li~LryL~L~~t~I~~LP~~l-----~~Lk~L~~Lnl~~~~~l~~~-~~i~-~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  593 ELVHLRYLDLSDTGISHLPSGL-----GNLKKLIYLNLEVTGRLESI-PGIL-LELQSLRVLRLPRS  652 (889)
T ss_pred             hhhhhhcccccCCCccccchHH-----HHHHhhheeccccccccccc-cchh-hhcccccEEEeecc
Confidence            9999999999999999999998     88999999999988887777 6655 67999999988754

>PLN03210 Resistant to P

Probab=100.00  E-value=5.8e-51  Score=464.36  Aligned_cols=471  Identities=21%  Similarity=0.258  Sum_probs=323.5

Q ss_pred             Ccccccc-ccchhhhccc--cchHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccccccchhhHhHHHHHHHHHHHHHH
Q 048213            1 SDVSKES-EVDEPKRREE--EIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQKEAVV   77 (532)
Q Consensus         1 ~~~r~q~-~l~~a~~~~~--~~~~~~~~Wl~~l~~~ayd~ed~ld~~~~~~~~~~~~~~~~~~~~~~~a~~i~~~~~~~~   77 (532)
                      ||||.|. .+++|..+..  ...+.++.|...+.++|.-+.-..+               ..  +. =++-|+++   ++
T Consensus       111 ~~v~~~~g~f~~~f~~~~~~~~~~~~~~w~~al~~~~~~~g~~~~---------------~~--~~-E~~~i~~I---v~  169 (1153)
T PLN03210        111 SHVRKQTGDFGEAFEKTCQNKTEDEKIQWKQALTDVANILGYHSQ---------------NW--PN-EAKMIEEI---AN  169 (1153)
T ss_pred             HHHhhccchHHHHHHHHhcccchhHHHHHHHHHHHHhCcCceecC---------------CC--CC-HHHHHHHH---HH
Confidence            6899999 8888866542  2457899999999999874321110               00  11 12333333   33


Q ss_pred             HHHhcCccceeecccCCCCccccccccccccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhccC
Q 048213           78 NVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK  155 (532)
Q Consensus        78 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~  155 (532)
                      +|.+.     ..         ..+..+...++||+..++++..++.  .+++++|+|+||||+||||||+++|+....  
T Consensus       170 ~v~~~-----l~---------~~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~--  233 (1153)
T PLN03210        170 DVLGK-----LN---------LTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSR--  233 (1153)
T ss_pred             HHHHh-----hc---------cccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhh--
Confidence            34322     01         0122335679999999999998876  567899999999999999999999997654  


Q ss_pred             CCCEEEEecc-----Cc-----------h---------------------hhHHHHHHHHhccCcEEEEEcCCCCccccc
Q 048213          156 LFDRVIFVEE-----SE-----------S---------------------GRARSLCNRLKKEKMILVILDNIWENLDFH  198 (532)
Q Consensus       156 ~F~~~~~~~~-----~~-----------~---------------------~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~  198 (532)
                      .|+..++...     ..           .                     .....+++++. ++|+||||||||+..+|+
T Consensus       234 ~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~-~krvLLVLDdv~~~~~l~  312 (1153)
T PLN03210        234 QFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLK-HRKVLIFIDDLDDQDVLD  312 (1153)
T ss_pred             cCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHh-CCeEEEEEeCCCCHHHHH
Confidence            4776553211     00           0                     01134566666 599999999999999999


Q ss_pred             ccccccCCCCCCeEEEEeecChHHhhhcCCCCceEEccCCCHHHHHHHHHHHhCCC-CCCcchHHHHHHHHHHcCCchHH
Q 048213          199 AVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDY-IEGSEFKWVAKDVAKKCAGLPVS  277 (532)
Q Consensus       199 ~l~~~~~~~~~gs~ilvTtr~~~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~-~~~~~~~~~~~~i~~~c~glPLa  277 (532)
                      .+.....+.++||+||||||++.++. ..+...+|.++.|++++||+||+++||.. .+...+.+++++|+++|+|+|||
T Consensus       313 ~L~~~~~~~~~GsrIIiTTrd~~vl~-~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLA  391 (1153)
T PLN03210        313 ALAGQTQWFGSGSRIIVITKDKHFLR-AHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLG  391 (1153)
T ss_pred             HHHhhCccCCCCcEEEEEeCcHHHHH-hcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHH
Confidence            99776666788999999999999975 35566899999999999999999999943 34456789999999999999999


Q ss_pred             HHHHHHHHccCChHHHHHHHHHhcCCCCCCCCCchhHHHHHHHhhcCCCCCchHHHHHHHHhhh-hcCChhHHHHHHHHh
Q 048213          278 IVTVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYT-AIASIDDLLMYGMGL  356 (532)
Q Consensus       278 i~~~~~~l~~~~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f~~lalF-~~i~~~~Li~~w~ae  356 (532)
                      |+++|++|++++.++|..+++++...       ....+..+|++||+.|+++..|.||+++|+| ...+.+. +..|.+.
T Consensus       392 l~vlgs~L~~k~~~~W~~~l~~L~~~-------~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~-v~~~l~~  463 (1153)
T PLN03210        392 LNVLGSYLRGRDKEDWMDMLPRLRNG-------LDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVND-IKLLLAN  463 (1153)
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhC-------ccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHH-HHHHHHh
Confidence            99999999999999999999998742       2457999999999999864379999999999 4444443 4556555


Q ss_pred             cccCCcccH----------------------HHHHhhHHh-------------------h-hhcc----cc---------
Q 048213          357 GLFQGIKRM----------------------EVARARVVI-------------------D-LTYM----NL---------  381 (532)
Q Consensus       357 g~~~~~~~~----------------------~~~~~~~~l-------------------~-l~~~----~l---------  381 (532)
                      +.......+                      .+++...+.                   + +..+    .+         
T Consensus       464 ~~~~~~~~l~~L~~ksLi~~~~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~  543 (1153)
T PLN03210        464 SDLDVNIGLKNLVDKSLIHVREDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDE  543 (1153)
T ss_pred             cCCCchhChHHHHhcCCEEEcCCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCc
Confidence            433211111                      111111000                   0 0000    00         


Q ss_pred             -cC--C-chhhhccccccEEEeccc-------------------------------cccCcccccccccccEEeeccccc
Q 048213          382 -LS--L-PSSLGLLTNLQTLCLYYC-------------------------------KLQDTSVLGELKILEILRLRVNEL  426 (532)
Q Consensus       382 -~~--l-p~~~~~l~~L~~L~l~~~-------------------------------~l~~~~~i~~l~~L~~L~l~~~~l  426 (532)
                       .+  + +..|..|.+|++|.+..+                               .+..++..-...+|+.|++.+|++
T Consensus       544 ~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f~~~~L~~L~L~~s~l  623 (1153)
T PLN03210        544 IDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQMQGSKL  623 (1153)
T ss_pred             cceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcCCccCCcEEECcCccc
Confidence             00  1 223556666666666433                               222211112345677777777766


Q ss_pred             ccc-----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCc-ccccccccccccccccCCCccEEEeccCCCCCc
Q 048213          427 TRA-----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSI-NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTC  500 (532)
Q Consensus       427 ~~~-----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~-~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~  500 (532)
                      ..+     .+++|+.|+|+++.. ....| .++.+++|++|+|++| .+..+|.++     .+|++|+.|++++|+.++.
T Consensus       624 ~~L~~~~~~l~~Lk~L~Ls~~~~-l~~ip-~ls~l~~Le~L~L~~c~~L~~lp~si-----~~L~~L~~L~L~~c~~L~~  696 (1153)
T PLN03210        624 EKLWDGVHSLTGLRNIDLRGSKN-LKEIP-DLSMATNLETLKLSDCSSLVELPSSI-----QYLNKLEDLDMSRCENLEI  696 (1153)
T ss_pred             cccccccccCCCCCEEECCCCCC-cCcCC-ccccCCcccEEEecCCCCccccchhh-----hccCCCCEEeCCCCCCcCc
Confidence            655     567788888877654 33343 4667788888888877 677777766     6778888888888888888


Q ss_pred             cchhhhhhcCCCccEEEeecCCcccccc
Q 048213          501 LFTSSIISSFVGLQCLEICECPVLKEII  528 (532)
Q Consensus       501 l~p~~~~~~L~~L~~L~l~~c~~L~~i~  528 (532)
                      + |..+  ++++|++|++++|..++.++
T Consensus       697 L-p~~i--~l~sL~~L~Lsgc~~L~~~p  721 (1153)
T PLN03210        697 L-PTGI--NLKSLYRLNLSGCSRLKSFP  721 (1153)
T ss_pred             c-CCcC--CCCCCCEEeCCCCCCccccc
Confidence            8 5543  67888888888887766543

syringae 6; Provisional

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=100.00  E-value=2.4e-41  Score=331.60  Aligned_cols=249  Identities=30%  Similarity=0.459  Sum_probs=195.8

Q ss_pred             chHHHHHHHHHhcC--CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe-------------------------
Q 048213          111 RMSTFNDILNALKS--PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV-------------------------  163 (532)
Q Consensus       111 R~~~~~~i~~~l~~--~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~-------------------------  163 (532)
                      |+.++++|.++|.+  ++.++|+|+||||+||||||.+++++...+.+|+.++|.                         
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            78999999999997  789999999999999999999999998888889887711                         


Q ss_pred             ---ccCchhhHHHHHHHHhccCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHHhhhcCCCCceEEccCCCH
Q 048213          164 ---EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKE  240 (532)
Q Consensus       164 ---~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~~~~~~~~~~l~~L~~  240 (532)
                         ..+.......+++.|. ++++||||||||+...|+.+...++....|++||||||+..++.........+.+++|+.
T Consensus        81 ~~~~~~~~~~~~~l~~~L~-~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLK-DKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHC-CTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             cccccccccccccchhhhc-cccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence               1123345567777777 579999999999999999998888877889999999999988753333367899999999


Q ss_pred             HHHHHHHHHHhCCCC--CCcchHHHHHHHHHHcCCchHHHHHHHHHHccC-ChHHHHHHHHHhcCCCCCCCCCchhHHHH
Q 048213          241 DEAWSLFKKMAGDYI--EGSEFKWVAKDVAKKCAGLPVSIVTVARALRNK-RLFDWKDALEQLRWPSSTNFKDIQPTAYK  317 (532)
Q Consensus       241 ~~~~~Lf~~~~~~~~--~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~-~~~~w~~~l~~~~~~~~~~~~~~~~~~~~  317 (532)
                      ++|++||.+.++...  ..+..++.+++|+++|+|+||||+++|++++.+ +..+|..+++.+...... ..+....+..
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~-~~~~~~~~~~  238 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRE-SRDYDRSVFS  238 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTC-SSGSCHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccc
Confidence            999999999998433  345567789999999999999999999999755 789999999887754322 2224688999


Q ss_pred             HHHhhcCCCCCchHHHHHHHHhhh---hcCChhHHHHHHHHhcccCCc
Q 048213          318 AIELSYVKLDGDELKNIFLLIGYT---AIASIDDLLMYGMGLGLFQGI  362 (532)
Q Consensus       318 ~l~~sy~~L~~~~~k~~f~~lalF---~~i~~~~Li~~w~aeg~~~~~  362 (532)
                      ++.+||+.||++ +|+||.|||+|   ..|+.+.++++|+++||++..
T Consensus       239 ~l~~s~~~L~~~-~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  239 ALELSYDSLPDE-LRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHHHSSHTC-CHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             cceechhcCCcc-HHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            999999999998 99999999999   679999999999999999753

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=99.44  E-value=4.4e-15  Score=125.90  Aligned_cols=140  Identities=21%  Similarity=0.245  Sum_probs=71.0

Q ss_pred             hhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc-----ccCCcceEEeccccccCC
Q 048213          374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRASAP  447 (532)
Q Consensus       374 l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~~~~  447 (532)
                      +.++.|.++.+|+.|..+.+|+.|++.+|++++ |..|+.+++|++|++.-|.+..+     .++.|+.|+|..|+....
T Consensus        38 LtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~levldltynnl~e~  117 (264)
T KOG0617|consen   38 LTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALEVLDLTYNNLNEN  117 (264)
T ss_pred             hhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccCCCchhhhhhccccccccc
Confidence            344444444455555555555555555555544 44455555555555544444333     344455555554444223


Q ss_pred             CCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          448 NPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       448 ~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      ..|..|-.+..|+.|.|+.|.++-+|+.+     ++|++||+|.+++ +.+-++ |..+ |.|+.|+.|.|.++
T Consensus       118 ~lpgnff~m~tlralyl~dndfe~lp~dv-----g~lt~lqil~lrd-ndll~l-pkei-g~lt~lrelhiqgn  183 (264)
T KOG0617|consen  118 SLPGNFFYMTTLRALYLGDNDFEILPPDV-----GKLTNLQILSLRD-NDLLSL-PKEI-GDLTRLRELHIQGN  183 (264)
T ss_pred             cCCcchhHHHHHHHHHhcCCCcccCChhh-----hhhcceeEEeecc-CchhhC-cHHH-HHHHHHHHHhcccc
Confidence            34444555555555555555555555555     5555555555555 334445 5554 55555555555543

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=99.33  E-value=1.2e-13  Score=117.33  Aligned_cols=153  Identities=17%  Similarity=0.184  Sum_probs=130.9

Q ss_pred             CChhHHHHHHHHhcccC-CcccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEee
Q 048213          344 ASIDDLLMYGMGLGLFQ-GIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRL  421 (532)
Q Consensus       344 i~~~~Li~~w~aeg~~~-~~~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l  421 (532)
                      |..+.+.++-...+-+. -...+.++.+..++++.+|++.++|.+++.++.|+.|++..|++.. |..++.++-|++||+
T Consensus        30 f~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~levldl  109 (264)
T KOG0617|consen   30 FNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALEVLDL  109 (264)
T ss_pred             cchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccCCCchhhhhhc
Confidence            44455555555555443 2356778888899999999999999999999999999999999887 789999999999999


Q ss_pred             cccccccc-------ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEecc
Q 048213          422 RVNELTRA-------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFN  494 (532)
Q Consensus       422 ~~~~l~~~-------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~  494 (532)
                      ..|++.+-       .+..||.|.|++|.+  .-.|..++++.+|+.|.++.|++-++|..+     +.|..|+.|.+.+
T Consensus       110 tynnl~e~~lpgnff~m~tlralyl~dndf--e~lp~dvg~lt~lqil~lrdndll~lpkei-----g~lt~lrelhiqg  182 (264)
T KOG0617|consen  110 TYNNLNENSLPGNFFYMTTLRALYLGDNDF--EILPPDVGKLTNLQILSLRDNDLLSLPKEI-----GDLTRLRELHIQG  182 (264)
T ss_pred             cccccccccCCcchhHHHHHHHHHhcCCCc--ccCChhhhhhcceeEEeeccCchhhCcHHH-----HHHHHHHHHhccc
Confidence            99988775       567899999999988  668889999999999999999999999998     8899999999998


Q ss_pred             CCCCCccchh
Q 048213          495 CWNLTCLFTS  504 (532)
Q Consensus       495 c~~l~~l~p~  504 (532)
                       +.+..+||+
T Consensus       183 -nrl~vlppe  191 (264)
T KOG0617|consen  183 -NRLTVLPPE  191 (264)
T ss_pred             -ceeeecChh
Confidence             668999443

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=99.32  E-value=1.9e-13  Score=137.17  Aligned_cols=149  Identities=26%  Similarity=0.316  Sum_probs=101.6

Q ss_pred             HHHHHhhHHhhhhcccccCCchh-hhccccccEEEeccccccC-cccccccccccEEeecccccccc------ccCCcce
Q 048213          365 MEVARARVVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA------GSSQLKH  436 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~  436 (532)
                      +|...+.-++++++|++..+|.+ +-+|+.|-+|++++|++.. |+-+..|.+|++|.|++|.+...      .+++|..
T Consensus       122 LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~v  201 (1255)
T KOG0444|consen  122 LEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSV  201 (1255)
T ss_pred             hhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhh
Confidence            44455556777888888777766 5677777788888887777 67777788888888887754433      4556677


Q ss_pred             EEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEE
Q 048213          437 LSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL  516 (532)
Q Consensus       437 L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L  516 (532)
                      |++++.+....+.|.++..+.+|+.+|||.|++..+|++.     +++++|+.|+|++ +.++++ .... +...+|++|
T Consensus       202 Lhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecl-----y~l~~LrrLNLS~-N~iteL-~~~~-~~W~~lEtL  273 (1255)
T KOG0444|consen  202 LHMSNTQRTLDNIPTSLDDLHNLRDVDLSENNLPIVPECL-----YKLRNLRRLNLSG-NKITEL-NMTE-GEWENLETL  273 (1255)
T ss_pred             hhcccccchhhcCCCchhhhhhhhhccccccCCCcchHHH-----hhhhhhheeccCc-Cceeee-eccH-HHHhhhhhh
Confidence            7777765545667777777777777777777777777776     6677777777776 445555 3333 455566666


Q ss_pred             EeecC
Q 048213          517 EICEC  521 (532)
Q Consensus       517 ~l~~c  521 (532)
                      ++|.+
T Consensus       274 NlSrN  278 (1255)
T KOG0444|consen  274 NLSRN  278 (1255)
T ss_pred             ccccc
Confidence            66543

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=99.31  E-value=2.4e-13  Score=136.46  Aligned_cols=155  Identities=25%  Similarity=0.244  Sum_probs=141.4

Q ss_pred             ccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCc-ccccccccccEEeecccccccc-----ccCCcce
Q 048213          363 KRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT-SVLGELKILEILRLRVNELTRA-----GSSQLKH  436 (532)
Q Consensus       363 ~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~-~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~  436 (532)
                      .+++++++.+-+|++.|+++.+|+.+.++.+|+.|++++|+++.+ ..++.-.+|++|+++.|+++.+     +++.|+.
T Consensus       216 tsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~k  295 (1255)
T KOG0444|consen  216 TSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITELNMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTK  295 (1255)
T ss_pred             CchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeeeeccHHHHhhhhhhccccchhccchHHHhhhHHHHH
Confidence            578899999999999999999999999999999999999999884 4567778999999999999988     7899999


Q ss_pred             EEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEE
Q 048213          437 LSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL  516 (532)
Q Consensus       437 L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L  516 (532)
                      |.+.+|......+|..++.|.+|+.+..++|.++-+|+++     |.+..|+.|.|+ |+.|-++ |..+ .-|+.|+.|
T Consensus       296 Ly~n~NkL~FeGiPSGIGKL~~Levf~aanN~LElVPEgl-----cRC~kL~kL~L~-~NrLiTL-PeaI-HlL~~l~vL  367 (1255)
T KOG0444|consen  296 LYANNNKLTFEGIPSGIGKLIQLEVFHAANNKLELVPEGL-----CRCVKLQKLKLD-HNRLITL-PEAI-HLLPDLKVL  367 (1255)
T ss_pred             HHhccCcccccCCccchhhhhhhHHHHhhccccccCchhh-----hhhHHHHHhccc-ccceeec-hhhh-hhcCCccee
Confidence            9999997755678999999999999999999999999998     889999999998 6889999 8887 789999999


Q ss_pred             EeecCCccc
Q 048213          517 EICECPVLK  525 (532)
Q Consensus       517 ~l~~c~~L~  525 (532)
                      ++.++|+|.
T Consensus       368 DlreNpnLV  376 (1255)
T KOG0444|consen  368 DLRENPNLV  376 (1255)
T ss_pred             eccCCcCcc
Confidence            999999874

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=99.30  E-value=4.8e-13  Score=127.95  Aligned_cols=171  Identities=22%  Similarity=0.229  Sum_probs=133.2

Q ss_pred             hHHHHHHHHhcccCCc--ccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecc
Q 048213          347 DDLLMYGMGLGLFQGI--KRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRV  423 (532)
Q Consensus       347 ~~Li~~w~aeg~~~~~--~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~  423 (532)
                      ..|..+.+++++++-.  ....++....++|+.+|.+.++|..++.+++|.+|++++|.++. |..++++ .|+.|-+.|
T Consensus       228 s~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSNN~is~Lp~sLgnl-hL~~L~leG  306 (565)
T KOG0472|consen  228 SLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSNNDISSLPYSLGNL-HLKFLALEG  306 (565)
T ss_pred             HHHHHHHhcccHHHhhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccCCccccCCcccccc-eeeehhhcC
Confidence            3456666777766522  22334445578888888888888888888888888888888888 6778888 888888888


Q ss_pred             cccccc--------------------------------------------------------------------------
Q 048213          424 NELTRA--------------------------------------------------------------------------  429 (532)
Q Consensus       424 ~~l~~~--------------------------------------------------------------------------  429 (532)
                      |.+..+                                                                          
T Consensus       307 NPlrTiRr~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~qlt~VPdEVfea~~  386 (565)
T KOG0472|consen  307 NPLRTIRREIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSDKQLTLVPDEVFEAAK  386 (565)
T ss_pred             CchHHHHHHHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccccccccCCHHHHHHhh
Confidence            844333                                                                          


Q ss_pred             ----------------------------------------------ccCCcceEEeccccccCCCCCcccccCCCCCEEe
Q 048213          430 ----------------------------------------------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVC  463 (532)
Q Consensus       430 ----------------------------------------------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~  463 (532)
                                                                    .+++|..|+|++|-.  ...|..++.+..|++|+
T Consensus       387 ~~~Vt~VnfskNqL~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN~L--n~LP~e~~~lv~Lq~Ln  464 (565)
T KOG0472|consen  387 SEIVTSVNFSKNQLCELPKRLVELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNNLL--NDLPEEMGSLVRLQTLN  464 (565)
T ss_pred             hcceEEEecccchHhhhhhhhHHHHHHHHHHHhhcCccccchHHHHhhhcceeeecccchh--hhcchhhhhhhhhheec
Confidence                                                          567899999998865  77888889999999999


Q ss_pred             cCCcccccccccc-------------------cccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCc
Q 048213          464 LSSINIERIWQNQ-------------------VAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPV  523 (532)
Q Consensus       464 L~~~~l~~lp~~~-------------------~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~  523 (532)
                      |+.|.+..+|..+                   .+....++.+|.+|||.+ +.+..+ |..+ |+|++|++|.|+|+|-
T Consensus       465 lS~NrFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~n-Ndlq~I-Pp~L-gnmtnL~hLeL~gNpf  540 (565)
T KOG0472|consen  465 LSFNRFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQN-NDLQQI-PPIL-GNMTNLRHLELDGNPF  540 (565)
T ss_pred             ccccccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccCC-CchhhC-Chhh-ccccceeEEEecCCcc
Confidence            9999988888753                   111245789999999986 779999 6666 9999999999999873

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=99.25  E-value=9.5e-12  Score=142.45  Aligned_cols=149  Identities=23%  Similarity=0.199  Sum_probs=101.2

Q ss_pred             HHHhhHHhhhhccccc-CCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceE
Q 048213          367 VARARVVIDLTYMNLL-SLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHL  437 (532)
Q Consensus       367 ~~~~~~~l~l~~~~l~-~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L  437 (532)
                      .+...+++++.+|.+. .+|..++++++|++|++++|.+..  |..++++++|++|++++|++...      .+++|++|
T Consensus       162 ~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L  241 (968)
T PLN00113        162 SFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHL  241 (968)
T ss_pred             cCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEE
Confidence            3444566677777664 356667777777777777776654  55667777777777777766543      56777777


Q ss_pred             EeccccccCCCCCcccccCCCCCEEecCCcccc-cccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEE
Q 048213          438 SVRGLRASAPNPTESEVALPKLETVCLSSINIE-RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL  516 (532)
Q Consensus       438 ~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~-~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L  516 (532)
                      ++++|+. ....|..++++++|++|+|++|.+. .+|.++     .++++|++|+|++|.....+ |..+ +++++|++|
T Consensus       242 ~L~~n~l-~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l-----~~l~~L~~L~Ls~n~l~~~~-p~~~-~~l~~L~~L  313 (968)
T PLN00113        242 DLVYNNL-TGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSI-----FSLQKLISLDLSDNSLSGEI-PELV-IQLQNLEIL  313 (968)
T ss_pred             ECcCcee-ccccChhHhCCCCCCEEECcCCeeeccCchhH-----hhccCcCEEECcCCeeccCC-ChhH-cCCCCCcEE
Confidence            7777766 4556667777777777777777665 345444     56778888888876644455 6665 678888888


Q ss_pred             EeecCCc
Q 048213          517 EICECPV  523 (532)
Q Consensus       517 ~l~~c~~  523 (532)
                      ++++|..
T Consensus       314 ~l~~n~~  320 (968)
T PLN00113        314 HLFSNNF  320 (968)
T ss_pred             ECCCCcc
Confidence            8877753

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=99.24  E-value=1.5e-11  Score=140.74  Aligned_cols=141  Identities=22%  Similarity=0.234  Sum_probs=75.4

Q ss_pred             HHhhhhcccccC-CchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLLS-LPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~~-lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      +++++.+|++.. +|.  +.+++|++|++++|.+..  +..++++++|++|++++|.+...      .+++|++|++++|
T Consensus       121 ~~L~Ls~n~l~~~~p~--~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n  198 (968)
T PLN00113        121 RYLNLSNNNFTGSIPR--GSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASN  198 (968)
T ss_pred             CEEECcCCccccccCc--cccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCC
Confidence            444444444432 222  334555555555555443  34455555566666555554322      4555666666655


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccc-cccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIE-RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~-~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      .. ....|..++++++|++|+|++|++. .+|..+     .++++|++|+|++|.....+ |..+ +++++|++|++++|
T Consensus       199 ~l-~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l-----~~l~~L~~L~L~~n~l~~~~-p~~l-~~l~~L~~L~L~~n  270 (968)
T PLN00113        199 QL-VGQIPRELGQMKSLKWIYLGYNNLSGEIPYEI-----GGLTSLNHLDLVYNNLTGPI-PSSL-GNLKNLQYLFLYQN  270 (968)
T ss_pred             CC-cCcCChHHcCcCCccEEECcCCccCCcCChhH-----hcCCCCCEEECcCceecccc-ChhH-hCCCCCCEEECcCC
Confidence            54 3444555556666666666666544 344443     55666666666665533344 5555 56666666666665


Q ss_pred             C
Q 048213          522 P  522 (532)
Q Consensus       522 ~  522 (532)
                      .
T Consensus       271 ~  271 (968)
T PLN00113        271 K  271 (968)
T ss_pred             e
Confidence            4

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=99.15  E-value=2.3e-10  Score=108.32  Aligned_cols=172  Identities=17%  Similarity=0.205  Sum_probs=97.3

Q ss_pred             cccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE--------------E-----------
Q 048213          108 FESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI--------------F-----------  162 (532)
Q Consensus       108 ~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~--------------~-----------  162 (532)
                      |+||++++++|.+++..+..+.+.|+|+.|+|||+|++.+.+...... +....              +           
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~-~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~   79 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINELKEKG-YKVVYIDFLEESNESSLRSFIEETSLADELS   79 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHCT--E-ECCCHHCCTTBSHHHHHHHHHHHHHHHCHCH
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHhhhcC-CcEEEEecccchhhhHHHHHHHHHHHHHHHH
Confidence            789999999999988877778999999999999999999998763221 10000              0           


Q ss_pred             -------ec-----------cCchhhHHHHHHHHhc-cCcEEEEEcCCCCcc-ccc---c----cccccCC--CCCCeEE
Q 048213          163 -------VE-----------ESESGRARSLCNRLKK-EKMILVILDNIWENL-DFH---A----VGIPHGD--DHKGCKV  213 (532)
Q Consensus       163 -------~~-----------~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~-~~~---~----l~~~~~~--~~~gs~i  213 (532)
                             ..           .........+.+.+.. +++++||+||+.... ..+   .    +...+..  ......+
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  159 (234)
T PF01637_consen   80 EALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVSI  159 (234)
T ss_dssp             HHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEEE
T ss_pred             HHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCceE
Confidence                   00           0011223444444442 456999999998766 211   1    1111111  2233445


Q ss_pred             EEeecChHHhhh-------cCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHH
Q 048213          214 LLTARSLDVLSR-------KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVT  280 (532)
Q Consensus       214 lvTtr~~~v~~~-------~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  280 (532)
                      +++.........       .......+.+++|+.+++++++..........+.-++..++|+..+||+|..|..
T Consensus       160 v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  160 VITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC------HHHHHHHHHHHTT-HHHHHH
T ss_pred             EEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            555555444322       1233345999999999999999987543311122366679999999999988754

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PLN03210 Resistant to P

Probab=99.04  E-value=5.9e-10  Score=128.61  Aligned_cols=22  Identities=9%  Similarity=0.095  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Q 048213           24 EKCRASVNDVIDEAEKFIGVDA   45 (532)
Q Consensus        24 ~~Wl~~l~~~ayd~ed~ld~~~   45 (532)
                      ..|-.+.+-+.+-|+|+++...
T Consensus       155 ~~~~~E~~~i~~Iv~~v~~~l~  176 (1153)
T PLN03210        155 QNWPNEAKMIEEIANDVLGKLN  176 (1153)
T ss_pred             CCCCCHHHHHHHHHHHHHHhhc
Confidence            3466677777777777777654

syringae 6; Provisional

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.01  E-value=4e-09  Score=104.99  Aligned_cols=175  Identities=14%  Similarity=0.026  Sum_probs=105.8

Q ss_pred             cccccccchHHHHHHHHHhc-----CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHH
Q 048213          104 DYEAFESRMSTFNDILNALK-----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRL  178 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~-----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l  178 (532)
                      ....|+|+++.++.+..++.     ......+.|+|++|+|||+||+.+++.....  +................+...+
T Consensus        23 ~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~--~~~~~~~~~~~~~~l~~~l~~l  100 (328)
T PRK00080         23 SLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVN--IRITSGPALEKPGDLAAILTNL  100 (328)
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCC--eEEEecccccChHHHHHHHHhc
Confidence            45779999999999877765     2345688999999999999999999986543  2111111111111222222333


Q ss_pred             hccCcEEEEEcCCCCcc--cccccccc---------cCC----------CCCCeEEEEeecChHHhhhc-CCCCceEEcc
Q 048213          179 KKEKMILVILDNIWENL--DFHAVGIP---------HGD----------DHKGCKVLLTARSLDVLSRK-MDSQQDFWVG  236 (532)
Q Consensus       179 ~~~k~~LlVlDdv~~~~--~~~~l~~~---------~~~----------~~~gs~ilvTtr~~~v~~~~-~~~~~~~~l~  236 (532)
                      .  +..+|++|++....  ..+.+...         +..          ..+.+-|..|++...+.... ......+.++
T Consensus       101 ~--~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~  178 (328)
T PRK00080        101 E--EGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLE  178 (328)
T ss_pred             c--cCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeecC
Confidence            2  45688899987532  11111000         000          01234455666644332111 1123578999


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHH
Q 048213          237 VLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVAR  283 (532)
Q Consensus       237 ~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  283 (532)
                      +++.++..+++.+.+.... ..-.++....|++.|+|.|-.+..+..
T Consensus       179 ~~~~~e~~~il~~~~~~~~-~~~~~~~~~~ia~~~~G~pR~a~~~l~  224 (328)
T PRK00080        179 FYTVEELEKIVKRSARILG-VEIDEEGALEIARRSRGTPRIANRLLR  224 (328)
T ss_pred             CCCHHHHHHHHHHHHHHcC-CCcCHHHHHHHHHHcCCCchHHHHHHH
Confidence            9999999999998876322 223356789999999999965544444

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=99.01  E-value=2.3e-11  Score=116.61  Aligned_cols=145  Identities=26%  Similarity=0.280  Sum_probs=117.0

Q ss_pred             HHHhhHHhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc----ccCCcceEEecc
Q 048213          367 VARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRG  441 (532)
Q Consensus       367 ~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~  441 (532)
                      .......+++.++.+..+|+..-.++.|+.|+...|.+.. |+.++.+.+|..|++..|.+..+    ++..|+.|+++.
T Consensus       158 ~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~  237 (565)
T KOG0472|consen  158 NLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSNLLETLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHVGE  237 (565)
T ss_pred             HHHHHHHhhccccchhhCCHHHHHHHHHHhcccchhhhhcCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHhcc
Confidence            3344456777788888887776668888888888887777 77888888888888888887776    677888888888


Q ss_pred             ccccCCCCCcccc-cCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeec
Q 048213          442 LRASAPNPTESEV-ALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICE  520 (532)
Q Consensus       442 ~~~~~~~~~~~~~-~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~  520 (532)
                      |++  .-.|...+ ++++|..|||+.|.++++|+++     +.|++|..||+++ +.+..+ |..+ |+| +|+.|-+.|
T Consensus       238 N~i--~~lpae~~~~L~~l~vLDLRdNklke~Pde~-----clLrsL~rLDlSN-N~is~L-p~sL-gnl-hL~~L~leG  306 (565)
T KOG0472|consen  238 NQI--EMLPAEHLKHLNSLLVLDLRDNKLKEVPDEI-----CLLRSLERLDLSN-NDISSL-PYSL-GNL-HLKFLALEG  306 (565)
T ss_pred             cHH--HhhHHHHhcccccceeeeccccccccCchHH-----HHhhhhhhhcccC-CccccC-Cccc-ccc-eeeehhhcC
Confidence            865  44555554 8999999999999999999998     8899999999996 668999 7776 888 899999988


Q ss_pred             CC
Q 048213          521 CP  522 (532)
Q Consensus       521 c~  522 (532)
                      +|
T Consensus       307 NP  308 (565)
T KOG0472|consen  307 NP  308 (565)
T ss_pred             Cc
Confidence            87

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.01  E-value=1.2e-08  Score=100.71  Aligned_cols=172  Identities=17%  Similarity=0.039  Sum_probs=104.1

Q ss_pred             cccccchHHHHHHHHHhc-----CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe-ccCchhhHHHHHHHHh
Q 048213          106 EAFESRMSTFNDILNALK-----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV-EESESGRARSLCNRLK  179 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~-----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~-~~~~~~~~~~l~~~l~  179 (532)
                      ..|+|+++.++++..++.     ......+.++|++|+|||+||+.+++.....  |...... ..........+ ..+ 
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~--~~~~~~~~~~~~~~l~~~l-~~~-   79 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVN--LKITSGPALEKPGDLAAIL-TNL-   79 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC--EEEeccchhcCchhHHHHH-Hhc-
Confidence            579999999999988886     3445678899999999999999999876543  2111000 01111122222 222 


Q ss_pred             ccCcEEEEEcCCCCcc--ccccccccc-------------------CCCCCCeEEEEeecChHHhhhc-CCCCceEEccC
Q 048213          180 KEKMILVILDNIWENL--DFHAVGIPH-------------------GDDHKGCKVLLTARSLDVLSRK-MDSQQDFWVGV  237 (532)
Q Consensus       180 ~~k~~LlVlDdv~~~~--~~~~l~~~~-------------------~~~~~gs~ilvTtr~~~v~~~~-~~~~~~~~l~~  237 (532)
                       +...+|++|++....  ..+.+...+                   ....+.+-|..||+...+.... ......+.+++
T Consensus        80 -~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~  158 (305)
T TIGR00635        80 -EEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEF  158 (305)
T ss_pred             -ccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEeCC
Confidence             245688888886431  111111000                   0011245555677764432211 11235678999


Q ss_pred             CCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHH
Q 048213          238 LKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVAR  283 (532)
Q Consensus       238 L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  283 (532)
                      ++.++..+++.+.+.... ..-.++....|++.|+|.|-.+..+..
T Consensus       159 l~~~e~~~il~~~~~~~~-~~~~~~al~~ia~~~~G~pR~~~~ll~  203 (305)
T TIGR00635       159 YTVEELAEIVSRSAGLLN-VEIEPEAALEIARRSRGTPRIANRLLR  203 (305)
T ss_pred             CCHHHHHHHHHHHHHHhC-CCcCHHHHHHHHHHhCCCcchHHHHHH
Confidence            999999999998876321 223356788999999999976654444

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=99.00  E-value=2.9e-08  Score=96.21  Aligned_cols=162  Identities=15%  Similarity=0.144  Sum_probs=96.3

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-----------------Eecc----CchhhHHHHHH----HH
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-----------------FVEE----SESGRARSLCN----RL  178 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-----------------~~~~----~~~~~~~~l~~----~l  178 (532)
                      ..+...+.|+|++|+||||+++.+++...........+                 +...    ........+.+    ..
T Consensus        40 ~~~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~  119 (269)
T TIGR03015        40 SQREGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQF  119 (269)
T ss_pred             hcCCCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHH
Confidence            34456899999999999999999998765322111111                 0000    00111223332    23


Q ss_pred             hccCcEEEEEcCCCCcc--cccccccc--c-CCCCCCeEEEEeecChHHhh--------hcCCCCceEEccCCCHHHHHH
Q 048213          179 KKEKMILVILDNIWENL--DFHAVGIP--H-GDDHKGCKVLLTARSLDVLS--------RKMDSQQDFWVGVLKEDEAWS  245 (532)
Q Consensus       179 ~~~k~~LlVlDdv~~~~--~~~~l~~~--~-~~~~~gs~ilvTtr~~~v~~--------~~~~~~~~~~l~~L~~~~~~~  245 (532)
                      ..++++++|+||++...  .++.+...  + ........|++|........        ........+.+.+++.++..+
T Consensus       120 ~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~  199 (269)
T TIGR03015       120 AAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREETRE  199 (269)
T ss_pred             hCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHHHHHH
Confidence            34688999999998763  34443211  1 11122334455554332110        001113467899999999999


Q ss_pred             HHHHHhC--C-CCCCcchHHHHHHHHHHcCCchHHHHHHHHHH
Q 048213          246 LFKKMAG--D-YIEGSEFKWVAKDVAKKCAGLPVSIVTVARAL  285 (532)
Q Consensus       246 Lf~~~~~--~-~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  285 (532)
                      ++...+.  + .....-..+..+.|++.++|.|..|..++..+
T Consensus       200 ~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       200 YIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            9887654  1 11122346789999999999999999988765

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PF05729 NACHT: NACHT domain

Probab=98.99  E-value=2.9e-09  Score=94.97  Aligned_cols=124  Identities=22%  Similarity=0.231  Sum_probs=80.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCC----EEEEe------ccCc-hhh---------------HHHHHHHHhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFD----RVIFV------EESE-SGR---------------ARSLCNRLKKE  181 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~----~~~~~------~~~~-~~~---------------~~~l~~~l~~~  181 (532)
                      |++.|+|.+|+||||+++.++..........    ..++.      .... ...               ...+...+...
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKN   80 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcC
Confidence            5899999999999999999998776654333    22200      0000 001               11122333446


Q ss_pred             CcEEEEEcCCCCccc---------ccccccccCC--CCCCeEEEEeecChHH--hhhcCCCCceEEccCCCHHHHHHHHH
Q 048213          182 KMILVILDNIWENLD---------FHAVGIPHGD--DHKGCKVLLTARSLDV--LSRKMDSQQDFWVGVLKEDEAWSLFK  248 (532)
Q Consensus       182 k~~LlVlDdv~~~~~---------~~~l~~~~~~--~~~gs~ilvTtr~~~v--~~~~~~~~~~~~l~~L~~~~~~~Lf~  248 (532)
                      ++++||+|++++...         +..+...+..  ..++++++||+|....  ..........+.+.+|++++..+++.
T Consensus        81 ~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  160 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLR  160 (166)
T ss_pred             CceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHH
Confidence            899999999986633         1222222222  2468999999999776  33334455689999999999999987


Q ss_pred             HHh
Q 048213          249 KMA  251 (532)
Q Consensus       249 ~~~  251 (532)
                      ++.
T Consensus       161 ~~f  163 (166)
T PF05729_consen  161 KYF  163 (166)
T ss_pred             HHh
Confidence            754

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.97  E-value=1.9e-08  Score=114.65  Aligned_cols=224  Identities=13%  Similarity=0.101  Sum_probs=132.8

Q ss_pred             ccccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEE--ecc-------------
Q 048213          101 SNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF--VEE-------------  165 (532)
Q Consensus       101 ~~~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~--~~~-------------  165 (532)
                      ||.....++-|+...+.+-.   ....+++.|+|++|.||||++....+...     +..+.  +..             
T Consensus         9 ~p~~~~~~~~R~rl~~~l~~---~~~~~~~~v~apaG~GKTtl~~~~~~~~~-----~~~w~~l~~~d~~~~~f~~~l~~   80 (903)
T PRK04841          9 RPVRLHNTVVRERLLAKLSG---ANNYRLVLVTSPAGYGKTTLISQWAAGKN-----NLGWYSLDESDNQPERFASYLIA   80 (903)
T ss_pred             CCCCccccCcchHHHHHHhc---ccCCCeEEEECCCCCCHHHHHHHHHHhCC-----CeEEEecCcccCCHHHHHHHHHH
Confidence            44445677788766665543   34578999999999999999999875321     22220  000             


Q ss_pred             -----------------------CchhhHHHHHHHHhc-cCcEEEEEcCCCCccc--cc-ccccccCCCCCCeEEEEeec
Q 048213          166 -----------------------SESGRARSLCNRLKK-EKMILVILDNIWENLD--FH-AVGIPHGDDHKGCKVLLTAR  218 (532)
Q Consensus       166 -----------------------~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~--~~-~l~~~~~~~~~gs~ilvTtr  218 (532)
                                             ........+...+.. +.+++||+||+...+.  .. .+..-+.....+.++|+|||
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR  160 (903)
T PRK04841         81 ALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSR  160 (903)
T ss_pred             HHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeC
Confidence                                   000112223333332 5789999999976531  12 22222222345678889999


Q ss_pred             ChHHhh--hcCCCCceEEcc----CCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHHccCChHH
Q 048213          219 SLDVLS--RKMDSQQDFWVG----VLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFD  292 (532)
Q Consensus       219 ~~~v~~--~~~~~~~~~~l~----~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~  292 (532)
                      ......  ..........+.    +|+.+|+.++|....+...    ..+.+..|.+.|+|.|+++..++..+...+.. 
T Consensus       161 ~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~----~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~-  235 (903)
T PRK04841        161 NLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI----EAAESSRLCDDVEGWATALQLIALSARQNNSS-  235 (903)
T ss_pred             CCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC----CHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc-
Confidence            843211  001112244555    9999999999987665322    25567899999999999999998776543210 


Q ss_pred             HHHHHHHhcCCCCCCCCCchhHHHHHHHh-hcCCCCCchHHHHHHHHhhhhcCC
Q 048213          293 WKDALEQLRWPSSTNFKDIQPTAYKAIEL-SYVKLDGDELKNIFLLIGYTAIAS  345 (532)
Q Consensus       293 w~~~l~~~~~~~~~~~~~~~~~~~~~l~~-sy~~L~~~~~k~~f~~lalF~~i~  345 (532)
                      .......+.       ......+...+.- -+..||++ .++.+...|++..++
T Consensus       236 ~~~~~~~~~-------~~~~~~~~~~l~~~v~~~l~~~-~~~~l~~~a~~~~~~  281 (903)
T PRK04841        236 LHDSARRLA-------GINASHLSDYLVEEVLDNVDLE-TRHFLLRCSVLRSMN  281 (903)
T ss_pred             hhhhhHhhc-------CCCchhHHHHHHHHHHhcCCHH-HHHHHHHhcccccCC
Confidence            001111111       0012234444333 37899998 999999999984333

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=98.96  E-value=4.9e-10  Score=112.37  Aligned_cols=137  Identities=24%  Similarity=0.187  Sum_probs=63.4

Q ss_pred             hhhhcccccCC-chhhhccccccEEEeccccccCcccc-cccccccEEeecccccccc------ccCC------------
Q 048213          374 IDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQDTSVL-GELKILEILRLRVNELTRA------GSSQ------------  433 (532)
Q Consensus       374 l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~~~~i-~~l~~L~~L~l~~~~l~~~------~l~~------------  433 (532)
                      +++++|.+..+ +..|.+++||+.+++..|.+..+|.+ ....+|+.|+|.+|.|.++      .++.            
T Consensus        83 LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is  162 (873)
T KOG4194|consen   83 LDLSNNKLSHIDFEFFYNLPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRNLIS  162 (873)
T ss_pred             eeccccccccCcHHHHhcCCcceeeeeccchhhhcccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhchhh
Confidence            45555555444 23355555555555555555553322 2223355555555554444      2344            


Q ss_pred             ------------cceEEeccccccCCCCCcccccCCCCCEEecCCccccccccccccccccc-CCCccEEEeccCCCCCc
Q 048213          434 ------------LKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCG-IQNLKRLILFNCWNLTC  500 (532)
Q Consensus       434 ------------Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~-L~~L~~L~L~~c~~l~~  500 (532)
                                  +++|+|++|++ ..-....|..+.+|.+|.|+.|.|+.+|.-+     |+ |++|+.|+|.. +.++.
T Consensus       163 ~i~~~sfp~~~ni~~L~La~N~I-t~l~~~~F~~lnsL~tlkLsrNrittLp~r~-----Fk~L~~L~~LdLnr-N~iri  235 (873)
T KOG4194|consen  163 EIPKPSFPAKVNIKKLNLASNRI-TTLETGHFDSLNSLLTLKLSRNRITTLPQRS-----FKRLPKLESLDLNR-NRIRI  235 (873)
T ss_pred             cccCCCCCCCCCceEEeeccccc-cccccccccccchheeeecccCcccccCHHH-----hhhcchhhhhhccc-cceee
Confidence                        55555555544 3333344444445555555555555555444     33 55555555543 33333


Q ss_pred             cchhhhhhcCCCccEEEe
Q 048213          501 LFTSSIISSFVGLQCLEI  518 (532)
Q Consensus       501 l~p~~~~~~L~~L~~L~l  518 (532)
                      .....| .+|++|+.|.+
T Consensus       236 ve~ltF-qgL~Sl~nlkl  252 (873)
T KOG4194|consen  236 VEGLTF-QGLPSLQNLKL  252 (873)
T ss_pred             ehhhhh-cCchhhhhhhh
Confidence            322233 44455544443

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.96  E-value=6.3e-08  Score=99.41  Aligned_cols=190  Identities=15%  Similarity=0.127  Sum_probs=114.8

Q ss_pred             ccccccchHHHHH---HHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCch---hhHHHHHHHH
Q 048213          105 YEAFESRMSTFND---ILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESES---GRARSLCNRL  178 (532)
Q Consensus       105 ~~~~~gR~~~~~~---i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~---~~~~~l~~~l  178 (532)
                      ...|+|++..+..   +.+++..+....+.++|++|+||||+|+.+++.....  |...-.......   ..........
T Consensus        11 l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~~~~--~~~l~a~~~~~~~ir~ii~~~~~~~   88 (413)
T PRK13342         11 LDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGATDAP--FEALSAVTSGVKDLREVIEEARQRR   88 (413)
T ss_pred             HHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHhCCC--EEEEecccccHHHHHHHHHHHHHhh
Confidence            4568898887665   7777777777889999999999999999999875432  322211111111   1222222222


Q ss_pred             hccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEE--eecChHHh--hhcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          179 KKEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLL--TARSLDVL--SRKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       179 ~~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilv--Ttr~~~v~--~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      ..+++.+|++|+++..  .+.+.+...+   ..|..+++  ||.+....  .........+.+.+++.++..+++.+.+.
T Consensus        89 ~~g~~~vL~IDEi~~l~~~~q~~LL~~l---e~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l~  165 (413)
T PRK13342         89 SAGRRTILFIDEIHRFNKAQQDALLPHV---EDGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRALE  165 (413)
T ss_pred             hcCCceEEEEechhhhCHHHHHHHHHHh---hcCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHHH
Confidence            3357889999999865  3344443332   22444444  34443211  11223336889999999999999988654


Q ss_pred             CC-CCC-cchHHHHHHHHHHcCCchHHHHHHHHHHc---cC-ChHHHHHHHHH
Q 048213          253 DY-IEG-SEFKWVAKDVAKKCAGLPVSIVTVARALR---NK-RLFDWKDALEQ  299 (532)
Q Consensus       253 ~~-~~~-~~~~~~~~~i~~~c~glPLai~~~~~~l~---~~-~~~~w~~~l~~  299 (532)
                      .. ... .-.++....|++.|+|.|..+..+.....   .. +.+.-..++..
T Consensus       166 ~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~~~~~~~It~~~v~~~~~~  218 (413)
T PRK13342        166 DKERGLVELDDEALDALARLANGDARRALNLLELAALGVDSITLELLEEALQK  218 (413)
T ss_pred             HhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHccCCCCHHHHHHHHhh
Confidence            21 111 23356788899999999876655444332   11 45554554443

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=98.95  E-value=4.8e-11  Score=125.52  Aligned_cols=147  Identities=25%  Similarity=0.208  Sum_probs=89.4

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccC-ccc-c-------------------------cccccccEEeeccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSV-L-------------------------GELKILEILRLRVN  424 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~-i-------------------------~~l~~L~~L~l~~~  424 (532)
                      +.+....|.+..+|+....++.|++|++..|.+.. |.. +                         ..++.|+.|.+.+|
T Consensus       290 ~~l~~~~nel~yip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN  369 (1081)
T KOG0618|consen  290 VSLSAAYNELEYIPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANN  369 (1081)
T ss_pred             HHHHhhhhhhhhCCCcccccceeeeeeehhccccccchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcC
Confidence            45555555555566655556666666666665544 110 0                         01122333333333


Q ss_pred             ccccc------ccCCcceEEeccccccCCCCCc-ccccCCCCCEEecCCcccccccccc------------------ccc
Q 048213          425 ELTRA------GSSQLKHLSVRGLRASAPNPTE-SEVALPKLETVCLSSINIERIWQNQ------------------VAA  479 (532)
Q Consensus       425 ~l~~~------~l~~Lr~L~l~~~~~~~~~~~~-~~~~l~~L~~L~L~~~~l~~lp~~~------------------~~~  479 (532)
                      +++.-      ++++||.|+|++|+.  ..+|. .+.+|+.|+.|+||||.++.+|+.+                  +| 
T Consensus       370 ~Ltd~c~p~l~~~~hLKVLhLsyNrL--~~fpas~~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~l~~fP-  446 (1081)
T KOG0618|consen  370 HLTDSCFPVLVNFKHLKVLHLSYNRL--NSFPASKLRKLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQLLSFP-  446 (1081)
T ss_pred             cccccchhhhccccceeeeeeccccc--ccCCHHHHhchHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCceeech-
Confidence            33322      678899999999976  44444 5578889999999999988888754                  22 


Q ss_pred             ccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCc
Q 048213          480 MSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPV  523 (532)
Q Consensus       480 ~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~  523 (532)
                      ....++.|+++|++ |++|..+ .....-.-++|++|+++|++.
T Consensus       447 e~~~l~qL~~lDlS-~N~L~~~-~l~~~~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  447 ELAQLPQLKVLDLS-CNNLSEV-TLPEALPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             hhhhcCcceEEecc-cchhhhh-hhhhhCCCcccceeeccCCcc
Confidence            22356778888887 6777665 222211226888888888764

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=98.94  E-value=7.2e-09  Score=100.38  Aligned_cols=219  Identities=14%  Similarity=0.058  Sum_probs=129.0

Q ss_pred             ccccccchHHH---HHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchh---hHHHHHHHH
Q 048213          105 YEAFESRMSTF---NDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESG---RARSLCNRL  178 (532)
Q Consensus       105 ~~~~~gR~~~~---~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~---~~~~l~~~l  178 (532)
                      ...++|-+..+   .-|.+++..+.+..+-+||++|+||||||+.++......  |...-....+..+   ..+.-++..
T Consensus        23 lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~--f~~~sAv~~gvkdlr~i~e~a~~~~  100 (436)
T COG2256          23 LDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTTNAA--FEALSAVTSGVKDLREIIEEARKNR  100 (436)
T ss_pred             HHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhhCCc--eEEeccccccHHHHHHHHHHHHHHH
Confidence            34455544433   223444457888999999999999999999999865544  4433211222222   233333334


Q ss_pred             hccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEE--eecChHHh--hhcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          179 KKEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLL--TARSLDVL--SRKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       179 ~~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilv--Ttr~~~v~--~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      ..+++.+|++|.|..-  .+-+.+   +|.-.+|.-|+|  ||.++...  ........++.+++|+.++-.+++.+.+-
T Consensus       101 ~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~  177 (436)
T COG2256         101 LLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALL  177 (436)
T ss_pred             hcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHh
Confidence            4478999999999854  344444   344567776665  66665432  22334457999999999999999998443


Q ss_pred             ------CCCCCcchHHHHHHHHHHcCCchHHH----HHHHHHHccC---ChHHHHHHHHHhcCCCCCCCCCchhHHHHHH
Q 048213          253 ------DYIEGSEFKWVAKDVAKKCAGLPVSI----VTVARALRNK---RLFDWKDALEQLRWPSSTNFKDIQPTAYKAI  319 (532)
Q Consensus       253 ------~~~~~~~~~~~~~~i~~~c~glPLai----~~~~~~l~~~---~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l  319 (532)
                            +.....-.++...-++..+.|---+.    .++...-+..   +.+..++.+.+-..... ...+.+.++..++
T Consensus       178 ~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~l~~~~~~~D-k~gD~hYdliSA~  256 (436)
T COG2256         178 DEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEEILQRRSARFD-KDGDAHYDLISAL  256 (436)
T ss_pred             hhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHHHHhhhhhccC-CCcchHHHHHHHH
Confidence                  11111123556778888888854332    2222222211   34445555544332212 2233456777778


Q ss_pred             HhhcCCCCCc
Q 048213          320 ELSYVKLDGD  329 (532)
Q Consensus       320 ~~sy~~L~~~  329 (532)
                      .-|...=+++
T Consensus       257 hKSvRGSD~d  266 (436)
T COG2256         257 HKSVRGSDPD  266 (436)
T ss_pred             HHhhccCCcC
Confidence            7787776665

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.92  E-value=8.9e-08  Score=98.21  Aligned_cols=216  Identities=19%  Similarity=0.133  Sum_probs=122.6

Q ss_pred             cccccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEecc-------------
Q 048213          104 DYEAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEE-------------  165 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~-------------  165 (532)
                      .+..|+||++++++|...+.    ......+.|+|++|+|||++++.++++..... .+........             
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~  107 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIA  107 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHH
Confidence            45679999999999998874    33456788999999999999999998765432 2322221100             


Q ss_pred             -------------CchhhHHHHHHHHhc-cCcEEEEEcCCCCcc------cccccccccCCCCCC--eEEEEeecChHHh
Q 048213          166 -------------SESGRARSLCNRLKK-EKMILVILDNIWENL------DFHAVGIPHGDDHKG--CKVLLTARSLDVL  223 (532)
Q Consensus       166 -------------~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~------~~~~l~~~~~~~~~g--s~ilvTtr~~~v~  223 (532)
                                   +.......+.+.+.. ++..+||||+++...      .+..+...+ ....+  ..+|.++....+.
T Consensus       108 ~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~-~~~~~~~v~vI~i~~~~~~~  186 (394)
T PRK00411        108 RQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAH-EEYPGARIGVIGISSDLTFL  186 (394)
T ss_pred             HHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhh-hccCCCeEEEEEEECCcchh
Confidence                         112233445555543 456899999998743      122221111 11123  3356666654432


Q ss_pred             hhc------CCCCceEEccCCCHHHHHHHHHHHhCCC-CCCcchHHHHHHHHHH----cCCchHHHHHHHHHHc-----c
Q 048213          224 SRK------MDSQQDFWVGVLKEDEAWSLFKKMAGDY-IEGSEFKWVAKDVAKK----CAGLPVSIVTVARALR-----N  287 (532)
Q Consensus       224 ~~~------~~~~~~~~l~~L~~~~~~~Lf~~~~~~~-~~~~~~~~~~~~i~~~----c~glPLai~~~~~~l~-----~  287 (532)
                      ...      .-....+.+.+++.++..+++...+... ....-..+..+.|++.    .|..+.|+.++-.+..     +
T Consensus       187 ~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~  266 (394)
T PRK00411        187 YILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREG  266 (394)
T ss_pred             hhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcC
Confidence            110      1112467899999999999998776311 0111123333444443    4667788777654321     1


Q ss_pred             C---ChHHHHHHHHHhcCCCCCCCCCchhHHHHHHHhhcCCCCCchHHHHH
Q 048213          288 K---RLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIF  335 (532)
Q Consensus       288 ~---~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f  335 (532)
                      .   +.+....+++...              .....-.+..||.+ .|..+
T Consensus       267 ~~~I~~~~v~~a~~~~~--------------~~~~~~~~~~L~~~-~k~~L  302 (394)
T PRK00411        267 SRKVTEEDVRKAYEKSE--------------IVHLSEVLRTLPLH-EKLLL  302 (394)
T ss_pred             CCCcCHHHHHHHHHHHH--------------HHHHHHHHhcCCHH-HHHHH
Confidence            1   5556655555442              11233457789987 44433

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.92  E-value=1.3e-09  Score=96.61  Aligned_cols=99  Identities=27%  Similarity=0.317  Sum_probs=22.3

Q ss_pred             cccEEEeccccccCccccc-ccccccEEeecccccccc----ccCCcceEEeccccccCCCCCccc-ccCCCCCEEecCC
Q 048213          393 NLQTLCLYYCKLQDTSVLG-ELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTESE-VALPKLETVCLSS  466 (532)
Q Consensus       393 ~L~~L~l~~~~l~~~~~i~-~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~~~-~~l~~L~~L~L~~  466 (532)
                      +++.|++.+|.++.+..++ .+.+|++|++++|.++.+    .++.|+.|++++|+.  ......+ ..+|+|++|+|++
T Consensus        20 ~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I~~l~~l~~L~~L~~L~L~~N~I--~~i~~~l~~~lp~L~~L~L~~   97 (175)
T PF14580_consen   20 KLRELNLRGNQISTIENLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRI--SSISEGLDKNLPNLQELYLSN   97 (175)
T ss_dssp             ----------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS-----S-CHHHHHH-TT--EEE-TT
T ss_pred             ccccccccccccccccchhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCC--CccccchHHhCCcCCEEECcC
Confidence            4455555555555444443 344555555555554444    344555555555543  2222222 2355555555555


Q ss_pred             cccccccccccccccccCCCccEEEeccCC
Q 048213          467 INIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       467 ~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      |.|..+-+ +.  ....+++|++|+|.+++
T Consensus        98 N~I~~l~~-l~--~L~~l~~L~~L~L~~NP  124 (175)
T PF14580_consen   98 NKISDLNE-LE--PLSSLPKLRVLSLEGNP  124 (175)
T ss_dssp             S---SCCC-CG--GGGG-TT--EEE-TT-G
T ss_pred             CcCCChHH-hH--HHHcCCCcceeeccCCc
Confidence            55544322 10  01234555555555543

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=98.89  E-value=1.5e-09  Score=109.06  Aligned_cols=112  Identities=20%  Similarity=0.227  Sum_probs=67.3

Q ss_pred             ccHHHHHhhHHhhhhcccccCCchh-hhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCC
Q 048213          363 KRMEVARARVVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQ  433 (532)
Q Consensus       363 ~~~~~~~~~~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~  433 (532)
                      +.+..+...+.+|++.|.++.+|.. |..-.++++|++.+|.+..  ...+.++.+|-+|.|+.|+++.+      .+++
T Consensus       143 e~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~  222 (873)
T KOG4194|consen  143 EELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPK  222 (873)
T ss_pred             HHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeeccccccccccccccccchheeeecccCcccccCHHHhhhcch
Confidence            4455566668889999988887643 5555678888888887776  34566777777777777776666      3556


Q ss_pred             cceEEeccccccCCCCCcccccCCCCCEEecCCccccccccc
Q 048213          434 LKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQN  475 (532)
Q Consensus       434 Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~  475 (532)
                      |+.|+|..|++. ......|.+|++|+.|.|..|+|..+.++
T Consensus       223 L~~LdLnrN~ir-ive~ltFqgL~Sl~nlklqrN~I~kL~DG  263 (873)
T KOG4194|consen  223 LESLDLNRNRIR-IVEGLTFQGLPSLQNLKLQRNDISKLDDG  263 (873)
T ss_pred             hhhhhcccccee-eehhhhhcCchhhhhhhhhhcCcccccCc
Confidence            666666655441 11122334444444444444444443333

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.86  E-value=3.5e-10  Score=113.14  Aligned_cols=144  Identities=25%  Similarity=0.246  Sum_probs=91.0

Q ss_pred             HHHhhHHhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc-----ccCCcceEEec
Q 048213          367 VARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVR  440 (532)
Q Consensus       367 ~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~  440 (532)
                      .+....+++++.|.++.+|..++.|+ |+.|-+++|++.. |..|+-+..|..|+.+.|++..+     ++.+|+.|.+.
T Consensus       119 ~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sNNkl~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vr  197 (722)
T KOG0532|consen  119 NLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVR  197 (722)
T ss_pred             hhhHHHHhhhccchhhcCChhhhcCc-ceeEEEecCccccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHh
Confidence            34444677777777777777777666 6777777777666 55666667777777777766665     56667777777


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhh--hcCCCccEEEe
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSII--SSFVGLQCLEI  518 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~--~~L~~L~~L~l  518 (532)
                      .|++  ..+|..+..|+ |..||+++|++..+|-++     .+|++|++|-|.+ |-|..= |..++  |+..=.+||++
T Consensus       198 Rn~l--~~lp~El~~Lp-Li~lDfScNkis~iPv~f-----r~m~~Lq~l~Len-NPLqSP-PAqIC~kGkVHIFKyL~~  267 (722)
T KOG0532|consen  198 RNHL--EDLPEELCSLP-LIRLDFSCNKISYLPVDF-----RKMRHLQVLQLEN-NPLQSP-PAQICEKGKVHIFKYLST  267 (722)
T ss_pred             hhhh--hhCCHHHhCCc-eeeeecccCceeecchhh-----hhhhhheeeeecc-CCCCCC-hHHHHhccceeeeeeecc
Confidence            6665  55566565444 667777777777777666     6677777777764 335543 44431  22233455555


Q ss_pred             ecC
Q 048213          519 CEC  521 (532)
Q Consensus       519 ~~c  521 (532)
                      .-|
T Consensus       268 qA~  270 (722)
T KOG0532|consen  268 QAC  270 (722)
T ss_pred             hhc
Confidence            555

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.85  E-value=2.5e-09  Score=94.81  Aligned_cols=115  Identities=24%  Similarity=0.243  Sum_probs=40.4

Q ss_pred             cccccCcccccccccccEEeecccccccc-----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCccccccccc
Q 048213          401 YCKLQDTSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQN  475 (532)
Q Consensus       401 ~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~  475 (532)
                      .+.+...+.+.+..+++.|+|.+|.|+.+     .+.+|+.|++++|..  . ....+..+++|++|++++|.|+.+++.
T Consensus         6 ~~~i~~~~~~~n~~~~~~L~L~~n~I~~Ie~L~~~l~~L~~L~Ls~N~I--~-~l~~l~~L~~L~~L~L~~N~I~~i~~~   82 (175)
T PF14580_consen    6 ANMIEQIAQYNNPVKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQI--T-KLEGLPGLPRLKTLDLSNNRISSISEG   82 (175)
T ss_dssp             ------------------------------S--TT-TT--EEE-TTS----S---TT----TT--EEE--SS---S-CHH
T ss_pred             ccccccccccccccccccccccccccccccchhhhhcCCCEEECCCCCC--c-cccCccChhhhhhcccCCCCCCccccc
Confidence            34445555666777899999999998877     467899999999976  2 234677899999999999999998665


Q ss_pred             ccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCc
Q 048213          476 QVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPV  523 (532)
Q Consensus       476 ~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~  523 (532)
                      +.    ..+++|+.|.|++ +.+..+......+.+++|++|+|.++|-
T Consensus        83 l~----~~lp~L~~L~L~~-N~I~~l~~l~~L~~l~~L~~L~L~~NPv  125 (175)
T PF14580_consen   83 LD----KNLPNLQELYLSN-NKISDLNELEPLSSLPKLRVLSLEGNPV  125 (175)
T ss_dssp             HH----HH-TT--EEE-TT-S---SCCCCGGGGG-TT--EEE-TT-GG
T ss_pred             hH----HhCCcCCEEECcC-CcCCChHHhHHHHcCCCcceeeccCCcc
Confidence            41    1479999999997 5566653333347899999999999984

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.84  E-value=4.2e-10  Score=104.12  Aligned_cols=151  Identities=19%  Similarity=0.086  Sum_probs=117.5

Q ss_pred             CChhHHHHHHHHhcccCCcc---cHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEe
Q 048213          344 ASIDDLLMYGMGLGLFQGIK---RMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILR  420 (532)
Q Consensus       344 i~~~~Li~~w~aeg~~~~~~---~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~  420 (532)
                      .+...+...|..|+-...+.   .+.--.....+|+++|.++.+.+++.-++.++.|++++|.+.....+..+++|+.||
T Consensus       256 ~pe~~~~D~~~~E~~t~~G~~~~~~dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LD  335 (490)
T KOG1259|consen  256 LPETILADPSGSEPSTSNGSALVSADTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLD  335 (490)
T ss_pred             cchhhhcCccCCCCCccCCceEEecchHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEee
Confidence            34445555666666554322   222233346689999999999999999999999999999999888899999999999


Q ss_pred             ecccccccc-----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccC
Q 048213          421 LRVNELTRA-----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC  495 (532)
Q Consensus       421 l~~~~l~~~-----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c  495 (532)
                      |++|.+.++     ++.+.+.|.|.+|.   .+....++.+.+|.+||+++|+|+.+..--   .+++|+.|++|.|.++
T Consensus       336 LS~N~Ls~~~Gwh~KLGNIKtL~La~N~---iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~---~IG~LPCLE~l~L~~N  409 (490)
T KOG1259|consen  336 LSGNLLAECVGWHLKLGNIKTLKLAQNK---IETLSGLRKLYSLVNLDLSSNQIEELDEVN---HIGNLPCLETLRLTGN  409 (490)
T ss_pred             cccchhHhhhhhHhhhcCEeeeehhhhh---HhhhhhhHhhhhheeccccccchhhHHHhc---ccccccHHHHHhhcCC
Confidence            999988877     77899999999994   355667888999999999999988775421   2378999999999986


Q ss_pred             CCCCcc
Q 048213          496 WNLTCL  501 (532)
Q Consensus       496 ~~l~~l  501 (532)
                      + +..+
T Consensus       410 P-l~~~  414 (490)
T KOG1259|consen  410 P-LAGS  414 (490)
T ss_pred             C-cccc
Confidence            5 4444

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.81  E-value=1.4e-08  Score=109.75  Aligned_cols=93  Identities=22%  Similarity=0.224  Sum_probs=48.7

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc--ccCC-----------------
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA--GSSQ-----------------  433 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~--~l~~-----------------  433 (532)
                      .++++.+.++++|..+.  .+|+.|.+.+|.+..++..  +++|++|++++|+++.+  ..++                 
T Consensus       205 ~LdLs~~~LtsLP~~l~--~~L~~L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~LtsLP~lp~sL~~L~Ls~N~L~~Lp~l  280 (788)
T PRK15387        205 VLNVGESGLTTLPDCLP--AHITTLVIPDNNLTSLPAL--PPELRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPAL  280 (788)
T ss_pred             EEEcCCCCCCcCCcchh--cCCCEEEccCCcCCCCCCC--CCCCcEEEecCCccCcccCcccccceeeccCCchhhhhhc
Confidence            45566666666666543  2555555555555553321  34555555555555544  1233                 


Q ss_pred             ---cceEEeccccccCCCCCcccccCCCCCEEecCCcccccccc
Q 048213          434 ---LKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQ  474 (532)
Q Consensus       434 ---Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~  474 (532)
                         |+.|++++|++  ...|.   .+++|++|+|++|.++.+|.
T Consensus       281 p~~L~~L~Ls~N~L--t~LP~---~p~~L~~LdLS~N~L~~Lp~  319 (788)
T PRK15387        281 PSGLCKLWIFGNQL--TSLPV---LPPGLQELSVSDNQLASLPA  319 (788)
T ss_pred             hhhcCEEECcCCcc--ccccc---cccccceeECCCCccccCCC
Confidence               44444444433  22221   23567777777777777654

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.76  E-value=8.9e-09  Score=111.76  Aligned_cols=73  Identities=19%  Similarity=0.159  Sum_probs=35.5

Q ss_pred             CcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCC
Q 048213          433 QLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVG  512 (532)
Q Consensus       433 ~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~  512 (532)
                      +|+.|++++|.+  ..+|..+.  ++|+.|+|++|+|+.+|..+     .  ++|++|+|++| .+..+ |..+ .  .+
T Consensus       326 sL~~L~Ls~N~L--t~LP~~l~--~sL~~L~Ls~N~L~~LP~~l-----p--~~L~~LdLs~N-~Lt~L-P~~l-~--~s  389 (754)
T PRK15370        326 GLKTLEAGENAL--TSLPASLP--PELQVLDVSKNQITVLPETL-----P--PTITTLDVSRN-ALTNL-PENL-P--AA  389 (754)
T ss_pred             cceeccccCCcc--ccCChhhc--CcccEEECCCCCCCcCChhh-----c--CCcCEEECCCC-cCCCC-CHhH-H--HH
Confidence            455555555543  22332221  45555666665555555443     2  45666666653 35555 3333 1  24


Q ss_pred             ccEEEeecC
Q 048213          513 LQCLEICEC  521 (532)
Q Consensus       513 L~~L~l~~c  521 (532)
                      |++|++++|
T Consensus       390 L~~LdLs~N  398 (754)
T PRK15370        390 LQIMQASRN  398 (754)
T ss_pred             HHHHhhccC
Confidence            555666554

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.76  E-value=8.4e-07  Score=90.03  Aligned_cols=173  Identities=17%  Similarity=0.141  Sum_probs=99.7

Q ss_pred             ccccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhhcc-CC----CCEEEEecc---C------
Q 048213          105 YEAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENE-KL----FDRVIFVEE---S------  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~----F~~~~~~~~---~------  166 (532)
                      +..|+||++++++|...+.    ......+.|+|++|+|||++++.+++..... ..    |........   +      
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~   93 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLV   93 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHH
Confidence            4579999999999999886    2445689999999999999999999865321 00    222221100   0      


Q ss_pred             -------------------chhhHHHHHHHHh-ccCcEEEEEcCCCCcc-ccccccccc-----CCCC--CCeEEEEeec
Q 048213          167 -------------------ESGRARSLCNRLK-KEKMILVILDNIWENL-DFHAVGIPH-----GDDH--KGCKVLLTAR  218 (532)
Q Consensus       167 -------------------~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~-~~~~l~~~~-----~~~~--~gs~ilvTtr  218 (532)
                                         ..+....+.+.+. .+++++||||+++... ..+.+...+     ....  ....+|.++.
T Consensus        94 ~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n  173 (365)
T TIGR02928        94 ELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISN  173 (365)
T ss_pred             HHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEEC
Confidence                               0112233444443 2467899999998762 111111111     1111  2334555554


Q ss_pred             ChHHhh----hcC-C-CCceEEccCCCHHHHHHHHHHHhC---C-CCCCcchHHHHHHHHHHcCCchHH
Q 048213          219 SLDVLS----RKM-D-SQQDFWVGVLKEDEAWSLFKKMAG---D-YIEGSEFKWVAKDVAKKCAGLPVS  277 (532)
Q Consensus       219 ~~~v~~----~~~-~-~~~~~~l~~L~~~~~~~Lf~~~~~---~-~~~~~~~~~~~~~i~~~c~glPLa  277 (532)
                      ......    ... . ....+.+.+.+.++..+++...+.   . ....++..+.+.+++....|.|-.
T Consensus       174 ~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~  242 (365)
T TIGR02928       174 DLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARK  242 (365)
T ss_pred             CcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHH
Confidence            443211    001 1 124688999999999999988763   1 112222334455666777787743

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=98.75  E-value=1.6e-09  Score=104.08  Aligned_cols=85  Identities=16%  Similarity=0.272  Sum_probs=42.8

Q ss_pred             cCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcC
Q 048213          431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSF  510 (532)
Q Consensus       431 l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L  510 (532)
                      +++||.|+|++|.+ .......|..+.+|++|.|..|.|..+-...+    .+|..|++|+|.+ +.++.+.|..| ..+
T Consensus       273 L~~L~~lnlsnN~i-~~i~~~aFe~~a~l~eL~L~~N~l~~v~~~~f----~~ls~L~tL~L~~-N~it~~~~~aF-~~~  345 (498)
T KOG4237|consen  273 LPNLRKLNLSNNKI-TRIEDGAFEGAAELQELYLTRNKLEFVSSGMF----QGLSGLKTLSLYD-NQITTVAPGAF-QTL  345 (498)
T ss_pred             cccceEeccCCCcc-chhhhhhhcchhhhhhhhcCcchHHHHHHHhh----hccccceeeeecC-CeeEEEecccc-ccc
Confidence            44444455544444 23333344444444445454444444433331    2456666666666 44666645444 566


Q ss_pred             CCccEEEeecCC
Q 048213          511 VGLQCLEICECP  522 (532)
Q Consensus       511 ~~L~~L~l~~c~  522 (532)
                      .+|..|++-.+|
T Consensus       346 ~~l~~l~l~~Np  357 (498)
T KOG4237|consen  346 FSLSTLNLLSNP  357 (498)
T ss_pred             ceeeeeehccCc
Confidence            666666655433

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=98.71  E-value=2e-09  Score=113.66  Aligned_cols=121  Identities=26%  Similarity=0.206  Sum_probs=98.3

Q ss_pred             HHhhHHhhhhcccccC-CchhhhccccccEEEeccccccC-c-ccccccccccEEeecccccccc-----ccCCcceEEe
Q 048213          368 ARARVVIDLTYMNLLS-LPSSLGLLTNLQTLCLYYCKLQD-T-SVLGELKILEILRLRVNELTRA-----GSSQLKHLSV  439 (532)
Q Consensus       368 ~~~~~~l~l~~~~l~~-lp~~~~~l~~L~~L~l~~~~l~~-~-~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l  439 (532)
                      ..-...+.+.+|.++. .-+.+.+.++|+.|++++|++.. | ..+.++..|+.|+|+||.++.+     .++.|+.|..
T Consensus       358 ~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~a  437 (1081)
T KOG0618|consen  358 HAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNKLTTLPDTVANLGRLHTLRA  437 (1081)
T ss_pred             hHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccchhhhhhHHHHhhhhhHHHhh
Confidence            3444678888998866 44458889999999999999987 3 4688999999999999999988     7889999999


Q ss_pred             ccccccCCCCCcccccCCCCCEEecCCcccccc--cccccccccccCCCccEEEeccCCC
Q 048213          440 RGLRASAPNPTESEVALPKLETVCLSSINIERI--WQNQVAAMSCGIQNLKRLILFNCWN  497 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~l--p~~~~~~~~~~L~~L~~L~L~~c~~  497 (532)
                      .+|+.  ...| .+..++.|+.+|++.|+++.+  |...      .-++|++|||+|+..
T Consensus       438 hsN~l--~~fP-e~~~l~qL~~lDlS~N~L~~~~l~~~~------p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  438 HSNQL--LSFP-ELAQLPQLKVLDLSCNNLSEVTLPEAL------PSPNLKYLDLSGNTR  488 (1081)
T ss_pred             cCCce--eech-hhhhcCcceEEecccchhhhhhhhhhC------CCcccceeeccCCcc
Confidence            99976  4455 788999999999999988743  3332      127999999998664

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=98.71  E-value=2.3e-08  Score=108.14  Aligned_cols=129  Identities=23%  Similarity=0.163  Sum_probs=78.9

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc--ccCCcceEEeccccccCCCCC
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA--GSSQLKHLSVRGLRASAPNPT  450 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~--~l~~Lr~L~l~~~~~~~~~~~  450 (532)
                      .+.+.+|.+..+|..   ..+|++|++++|++..++.+  ..+|..|++++|.+..+  ...+|+.|++++|.+  ...|
T Consensus       326 ~L~Ls~N~L~~LP~l---p~~Lq~LdLS~N~Ls~LP~l--p~~L~~L~Ls~N~L~~LP~l~~~L~~LdLs~N~L--t~LP  398 (788)
T PRK15387        326 KLWAYNNQLTSLPTL---PSGLQELSVSDNQLASLPTL--PSELYKLWAYNNRLTSLPALPSGLKELIVSGNRL--TSLP  398 (788)
T ss_pred             ccccccCcccccccc---ccccceEecCCCccCCCCCC--CcccceehhhccccccCcccccccceEEecCCcc--cCCC
Confidence            344455555555531   13566677776666663322  23556666666666655  234677777777765  2333


Q ss_pred             cccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          451 ESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       451 ~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      ..   .++|+.|++++|.++.+|...        .+|+.|++++ +.++.+ |..+ +++++|+.|+|++++
T Consensus       399 ~l---~s~L~~LdLS~N~LssIP~l~--------~~L~~L~Ls~-NqLt~L-P~sl-~~L~~L~~LdLs~N~  456 (788)
T PRK15387        399 VL---PSELKELMVSGNRLTSLPMLP--------SGLLSLSVYR-NQLTRL-PESL-IHLSSETTVNLEGNP  456 (788)
T ss_pred             Cc---ccCCCEEEccCCcCCCCCcch--------hhhhhhhhcc-Cccccc-ChHH-hhccCCCeEECCCCC
Confidence            22   246777777777777776532        4567778876 457777 6666 678888888888776

>PRK06893 DNA replication initiation factor; Validated

Probab=98.69  E-value=2.2e-07  Score=87.44  Aligned_cols=153  Identities=14%  Similarity=0.049  Sum_probs=91.2

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccCcEEEEEcCCCCc---ccccc-cc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWEN---LDFHA-VG  201 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~---~~~~~-l~  201 (532)
                      ..+.+.|+|++|+|||+||+++++....+. .................+.+.+.  +.-+|++||+|..   ..|+. +.
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~~-~~~~y~~~~~~~~~~~~~~~~~~--~~dlLilDDi~~~~~~~~~~~~l~  114 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLNQ-RTAIYIPLSKSQYFSPAVLENLE--QQDLVCLDDLQAVIGNEEWELAIF  114 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcC-CCeEEeeHHHhhhhhHHHHhhcc--cCCEEEEeChhhhcCChHHHHHHH
Confidence            346789999999999999999999864432 22222222111112223333333  2358999999974   34542 22


Q ss_pred             cccCCC-CCCeEEEEe-ecC---------hHHhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHH
Q 048213          202 IPHGDD-HKGCKVLLT-ARS---------LDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKK  270 (532)
Q Consensus       202 ~~~~~~-~~gs~ilvT-tr~---------~~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~  270 (532)
                      ..+... ..|..+|++ ++.         +.+.. .+....++.+++++.++.++++.+.+.... ..--+++..-|++.
T Consensus       115 ~l~n~~~~~~~~illits~~~p~~l~~~~~~L~s-Rl~~g~~~~l~~pd~e~~~~iL~~~a~~~~-l~l~~~v~~~L~~~  192 (229)
T PRK06893        115 DLFNRIKEQGKTLLLISADCSPHALSIKLPDLAS-RLTWGEIYQLNDLTDEQKIIVLQRNAYQRG-IELSDEVANFLLKR  192 (229)
T ss_pred             HHHHHHHHcCCcEEEEeCCCChHHccccchhHHH-HHhcCCeeeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHh
Confidence            212111 235556554 443         23322 234456889999999999999999886322 22236677888888


Q ss_pred             cCCchHHHHHHHH
Q 048213          271 CAGLPVSIVTVAR  283 (532)
Q Consensus       271 c~glPLai~~~~~  283 (532)
                      +.|-.-++..+-.
T Consensus       193 ~~~d~r~l~~~l~  205 (229)
T PRK06893        193 LDRDMHTLFDALD  205 (229)
T ss_pred             ccCCHHHHHHHHH
Confidence            8876655544433

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=98.67  E-value=5e-08  Score=106.02  Aligned_cols=57  Identities=21%  Similarity=0.240  Sum_probs=28.7

Q ss_pred             CCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCccccc
Q 048213          458 KLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEI  527 (532)
Q Consensus       458 ~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i  527 (532)
                      +|++|+|++|+++.+|..+     .  .+|+.|++++ +.+..+ |..+   .++|++|++++|. |+.+
T Consensus       284 sL~~L~Ls~N~Lt~LP~~l-----p--~sL~~L~Ls~-N~Lt~L-P~~l---~~sL~~L~Ls~N~-Lt~L  340 (754)
T PRK15370        284 ELRYLSVYDNSIRTLPAHL-----P--SGITHLNVQS-NSLTAL-PETL---PPGLKTLEAGENA-LTSL  340 (754)
T ss_pred             CCcEEECCCCccccCcccc-----h--hhHHHHHhcC-CccccC-Cccc---cccceeccccCCc-cccC
Confidence            4555555555555444432     1  3455555554 234445 3322   2577788877764 4433

>PRK04195 replication factor C large subunit; Provisional

Probab=98.64  E-value=2.2e-06  Score=89.89  Aligned_cols=242  Identities=13%  Similarity=0.055  Sum_probs=134.3

Q ss_pred             ccccccchHHHHHHHHHhcC----CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc--hhhHHHHHHHH
Q 048213          105 YEAFESRMSTFNDILNALKS----PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE--SGRARSLCNRL  178 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~----~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~--~~~~~~l~~~l  178 (532)
                      ...++|.++.++.+.+|+..    ...+.+.|+|++|+||||+|..+++...    |+...+...+.  ...+..+....
T Consensus        13 l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~----~~~ielnasd~r~~~~i~~~i~~~   88 (482)
T PRK04195         13 LSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG----WEVIELNASDQRTADVIERVAGEA   88 (482)
T ss_pred             HHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC----CCEEEEcccccccHHHHHHHHHHh
Confidence            56789999999999998862    2268899999999999999999999763    33332222111  11122221111


Q ss_pred             hc------cCcEEEEEcCCCCccc------ccccccccCCCCCCeEEEEeecChHHh-h-hcCCCCceEEccCCCHHHHH
Q 048213          179 KK------EKMILVILDNIWENLD------FHAVGIPHGDDHKGCKVLLTARSLDVL-S-RKMDSQQDFWVGVLKEDEAW  244 (532)
Q Consensus       179 ~~------~k~~LlVlDdv~~~~~------~~~l~~~~~~~~~gs~ilvTtr~~~v~-~-~~~~~~~~~~l~~L~~~~~~  244 (532)
                      ..      .++-+||+|+++....      +..+...+.  ..+..||+|+.+..-. . ........+.+.+++.++..
T Consensus        89 ~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~~i~  166 (482)
T PRK04195         89 ATSGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIV  166 (482)
T ss_pred             hccCcccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHhccceEEEecCCCHHHHH
Confidence            11      2577999999986532      333332222  2234466666443211 1 11223457899999999999


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHHc-cC---ChHHHHHHHHHhcCCCCCCCCCchhHHHHHHH
Q 048213          245 SLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALR-NK---RLFDWKDALEQLRWPSSTNFKDIQPTAYKAIE  320 (532)
Q Consensus       245 ~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~-~~---~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l~  320 (532)
                      ..+.+.+..... .-..+....|++.++|-.-.+......+. +.   +.+....+...          +....++.++.
T Consensus       167 ~~L~~i~~~egi-~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~~----------d~~~~if~~l~  235 (482)
T PRK04195        167 PVLKRICRKEGI-ECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGRR----------DREESIFDALD  235 (482)
T ss_pred             HHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhcC----------CCCCCHHHHHH
Confidence            888877642111 12256788999999997655544333333 22   33333322211          11234444444


Q ss_pred             hhcCCCCCchHHHHHHHHhhh-hcCChhHHHHHHHHhcccCCcccHHHHH
Q 048213          321 LSYVKLDGDELKNIFLLIGYT-AIASIDDLLMYGMGLGLFQGIKRMEVAR  369 (532)
Q Consensus       321 ~sy~~L~~~~~k~~f~~lalF-~~i~~~~Li~~w~aeg~~~~~~~~~~~~  369 (532)
                      .-+..  .+ .+..+.  +++ ..++.+ .+-.|+.+++......++++.
T Consensus       236 ~i~~~--k~-~~~a~~--~~~~~~~~~~-~i~~~l~en~~~~~~~~~~~~  279 (482)
T PRK04195        236 AVFKA--RN-ADQALE--ASYDVDEDPD-DLIEWIDENIPKEYDDPEDIA  279 (482)
T ss_pred             HHHCC--CC-HHHHHH--HHHcccCCHH-HHHHHHHhccccccCCHHHHH
Confidence            33321  11 121111  222 445554 456799999876544444443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.59  E-value=6.1e-07  Score=84.45  Aligned_cols=170  Identities=14%  Similarity=0.091  Sum_probs=101.1

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccCcEEEEEcC
Q 048213          111 RMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDN  190 (532)
Q Consensus       111 R~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDd  190 (532)
                      ....++.+.+++.......+.|+|+.|+|||+||+.+++...... .................+.+.+.  +.-+||+||
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~-~~~~~i~~~~~~~~~~~~~~~~~--~~~lLvIDd   98 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAEERG-KSAIYLPLAELAQADPEVLEGLE--QADLVCLDD   98 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHHhcC-CcEEEEeHHHHHHhHHHHHhhcc--cCCEEEEeC
Confidence            455677777776556668899999999999999999998754321 12222221111111122333333  234899999


Q ss_pred             CCCcc---ccc-ccccccCC-CCCCeEEEEeecChHHh--------hhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCC
Q 048213          191 IWENL---DFH-AVGIPHGD-DHKGCKVLLTARSLDVL--------SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEG  257 (532)
Q Consensus       191 v~~~~---~~~-~l~~~~~~-~~~gs~ilvTtr~~~v~--------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~  257 (532)
                      ++...   .|. .+...+.. ...+.++|+||+.....        .........+.+.+++.++...++...+.... .
T Consensus        99 i~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~-~  177 (226)
T TIGR03420        99 VEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRG-L  177 (226)
T ss_pred             hhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcC-C
Confidence            98653   222 23222211 12334788888753211        11122245789999999999999887543111 1


Q ss_pred             cchHHHHHHHHHHcCCchHHHHHHHHH
Q 048213          258 SEFKWVAKDVAKKCAGLPVSIVTVARA  284 (532)
Q Consensus       258 ~~~~~~~~~i~~~c~glPLai~~~~~~  284 (532)
                      .--++..+.+++.+.|.|..+..+-..
T Consensus       178 ~~~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       178 QLPDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             CCCHHHHHHHHHhccCCHHHHHHHHHH
Confidence            223566788888899988777666443

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.58  E-value=3.8e-06  Score=89.18  Aligned_cols=176  Identities=13%  Similarity=0.129  Sum_probs=112.3

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc-------------------CCCCEEE-Ee
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE-------------------KLFDRVI-FV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~-~~  163 (532)
                      -..++|.+..++.|.+++..+.+ ..+.++|..|+||||+|+.+.+...-.                   +.|...+ ++
T Consensus        15 FdEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~DviEID   94 (830)
T PRK07003         15 FASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMD   94 (830)
T ss_pred             HHHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceEEEec
Confidence            46789999999999999886654 456799999999999999888764321                   1122222 22


Q ss_pred             ccCc--hhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEE
Q 048213          164 EESE--SGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~~--~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~  234 (532)
                      ..+.  .+.+..+.+...    .++.-++|||+++...  .++.+...+-.-....++|++|++..-. .........+.
T Consensus        95 Aas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~  174 (830)
T PRK07003         95 AASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFN  174 (830)
T ss_pred             ccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEe
Confidence            1111  112222333322    2455689999998764  3666655554434567777777765432 22223345899


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch-HHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP-VSIVTV  281 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~  281 (532)
                      +..++.++..+.+.+.+.... ..-..+....|++.++|.. -|+..+
T Consensus       175 Fk~Ls~eeIv~~L~~Il~~Eg-I~id~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        175 LKQMPAGHIVSHLERILGEER-IAFEPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             cCCcCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999999999988765221 1223566788999998854 455443

>PF13173 AAA_14: AAA domain

Probab=98.58  E-value=1.5e-07  Score=79.94  Aligned_cols=115  Identities=18%  Similarity=0.114  Sum_probs=74.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchh-----hHHHHHHHHhccCcEEEEEcCCCCcccccccc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESG-----RARSLCNRLKKEKMILVILDNIWENLDFHAVG  201 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~-----~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~  201 (532)
                      -+++.|.|+.|+||||++++++.+......+-..-++......     ..+.+.+... .+..+++||++....+|....
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~iDEiq~~~~~~~~l   80 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPDLLEYFLELIK-PGKKYIFIDEIQYLPDWEDAL   80 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhhhHHHHHHhhc-cCCcEEEEehhhhhccHHHHH
Confidence            3789999999999999999999876511111111011111111     1223333322 367899999999998888876


Q ss_pred             cccCCCCCCeEEEEeecChHHhhh-----cCCCCceEEccCCCHHH
Q 048213          202 IPHGDDHKGCKVLLTARSLDVLSR-----KMDSQQDFWVGVLKEDE  242 (532)
Q Consensus       202 ~~~~~~~~gs~ilvTtr~~~v~~~-----~~~~~~~~~l~~L~~~~  242 (532)
                      ..+.+..+..+|++|+.+......     ..+....+.+.||+-.|
T Consensus        81 k~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E  126 (128)
T PF13173_consen   81 KFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFRE  126 (128)
T ss_pred             HHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHH
Confidence            666666667899999998776522     12223467899998765

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.58  E-value=1.5e-06  Score=86.07  Aligned_cols=169  Identities=18%  Similarity=0.177  Sum_probs=110.6

Q ss_pred             cccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhh----ccCCCCEEEEec-cCch---hhHHHHHH
Q 048213          106 EAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAE----NEKLFDRVIFVE-ESES---GRARSLCN  176 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~----~~~~F~~~~~~~-~~~~---~~~~~l~~  176 (532)
                      ..++|-+..++.+.+++..+.. ....++|+.|+||||+|..+++..-    ...|.|...+.. ....   +.+..+.+
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir~~~~   83 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIRNIIE   83 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHHHHHH
Confidence            3567888889999999886654 5668999999999999999998532    234556544333 2221   22333333


Q ss_pred             HHh----ccCcEEEEEcCCC--CcccccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEEccCCCHHHHHHHHHH
Q 048213          177 RLK----KEKMILVILDNIW--ENLDFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFWVGVLKEDEAWSLFKK  249 (532)
Q Consensus       177 ~l~----~~k~~LlVlDdv~--~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~l~~L~~~~~~~Lf~~  249 (532)
                      .+.    .+++-++|+|+++  +.+.++.+...+..-..++.+|++|.+.... .........+.+.++++++....+.+
T Consensus        84 ~~~~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l~~  163 (313)
T PRK05564         84 EVNKKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFISY  163 (313)
T ss_pred             HHhcCcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHHHH
Confidence            332    2344566667654  4456777766666556788888888765432 22223346889999999999888866


Q ss_pred             HhCCCCCCcchHHHHHHHHHHcCCchHHHH
Q 048213          250 MAGDYIEGSEFKWVAKDVAKKCAGLPVSIV  279 (532)
Q Consensus       250 ~~~~~~~~~~~~~~~~~i~~~c~glPLai~  279 (532)
                      .....     ..+.++.++..++|.|.-+.
T Consensus       164 ~~~~~-----~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        164 KYNDI-----KEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             HhcCC-----CHHHHHHHHHHcCCCHHHHH
Confidence            54211     13447788999999886554

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=98.56  E-value=3.3e-08  Score=98.22  Aligned_cols=148  Identities=21%  Similarity=0.142  Sum_probs=81.6

Q ss_pred             hHHhhhhcccccC-----Cchhhhcc-ccccEEEeccccccC------cccccccccccEEeecccccccc---------
Q 048213          371 RVVIDLTYMNLLS-----LPSSLGLL-TNLQTLCLYYCKLQD------TSVLGELKILEILRLRVNELTRA---------  429 (532)
Q Consensus       371 ~~~l~l~~~~l~~-----lp~~~~~l-~~L~~L~l~~~~l~~------~~~i~~l~~L~~L~l~~~~l~~~---------  429 (532)
                      .+.+++.++.+..     +...+..+ ++|+.|++.+|.+..      ...+..+++|++|++++|.+...         
T Consensus       110 L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l  189 (319)
T cd00116         110 LQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGL  189 (319)
T ss_pred             ccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHH
Confidence            4455666665542     23344555 677777777777663      22345556777777777766632         


Q ss_pred             -ccCCcceEEeccccccCCC----CCcccccCCCCCEEecCCcccccccc-cccccccccCCCccEEEeccCCCCC----
Q 048213          430 -GSSQLKHLSVRGLRASAPN----PTESEVALPKLETVCLSSINIERIWQ-NQVAAMSCGIQNLKRLILFNCWNLT----  499 (532)
Q Consensus       430 -~l~~Lr~L~l~~~~~~~~~----~~~~~~~l~~L~~L~L~~~~l~~lp~-~~~~~~~~~L~~L~~L~L~~c~~l~----  499 (532)
                       .+++|++|++++|.+ ...    ....+..+++|++|++++|.++.... .+........+.|+.|++++|. ++    
T Consensus       190 ~~~~~L~~L~L~~n~i-~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~-i~~~~~  267 (319)
T cd00116         190 KANCNLEVLDLNNNGL-TDEGASALAETLASLKSLEVLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCND-ITDDGA  267 (319)
T ss_pred             HhCCCCCEEeccCCcc-ChHHHHHHHHHhcccCCCCEEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCC-CCcHHH
Confidence             334777777777754 111    12234556777777777776553111 1100000013677777777764 32    


Q ss_pred             -ccchhhhhhcCCCccEEEeecCC
Q 048213          500 -CLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       500 -~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                       .+ ...+ ..+++|++|++++|.
T Consensus       268 ~~l-~~~~-~~~~~L~~l~l~~N~  289 (319)
T cd00116         268 KDL-AEVL-AEKESLLELDLRGNK  289 (319)
T ss_pred             HHH-HHHH-hcCCCccEEECCCCC
Confidence             22 2222 455677777777764

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>PLN03025 replication factor C subunit; Provisional

Probab=98.54  E-value=8.2e-07  Score=88.07  Aligned_cols=171  Identities=11%  Similarity=0.048  Sum_probs=103.0

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe-ccCchhhHHHHHHHH----h
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV-EESESGRARSLCNRL----K  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~-~~~~~~~~~~l~~~l----~  179 (532)
                      ...++|.++.++.|.+++..++.+-+.++|++|+||||+|..+++...-. .|...+.. ..+.....+.+++.+    .
T Consensus        12 l~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~eln~sd~~~~~~vr~~i~~~~~   90 (319)
T PLN03025         12 LDDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP-NYKEAVLELNASDDRGIDVVRNKIKMFAQ   90 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc-cCccceeeecccccccHHHHHHHHHHHHh
Confidence            45688998888888888777777778899999999999999999875321 12212111 111111112222221    1


Q ss_pred             ------ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHHHHHHHHHHH
Q 048213          180 ------KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKM  250 (532)
Q Consensus       180 ------~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~  250 (532)
                            .++.-++++|+++...  ..+.+...+..-...+++++++.... +..........+++.+++.++....+...
T Consensus        91 ~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l~~~L~~i  170 (319)
T PLN03025         91 KKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKV  170 (319)
T ss_pred             ccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHHHHHHHHH
Confidence                  1345699999998652  22333322222234566776665432 21111122357899999999999888887


Q ss_pred             hCCCCCCcchHHHHHHHHHHcCCchHH
Q 048213          251 AGDYIEGSEFKWVAKDVAKKCAGLPVS  277 (532)
Q Consensus       251 ~~~~~~~~~~~~~~~~i~~~c~glPLa  277 (532)
                      +..... .-.++....|+..++|-.-.
T Consensus       171 ~~~egi-~i~~~~l~~i~~~~~gDlR~  196 (319)
T PLN03025        171 VEAEKV-PYVPEGLEAIIFTADGDMRQ  196 (319)
T ss_pred             HHHcCC-CCCHHHHHHHHHHcCCCHHH
Confidence            642111 11256678899999886533

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=98.54  E-value=1e-07  Score=69.25  Aligned_cols=60  Identities=28%  Similarity=0.377  Sum_probs=46.2

Q ss_pred             CCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          457 PKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       457 ~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      |+|++|++++|+++.+|+..+    ..+++|++|++++ +.+..++|..| .++++|++|++++|+
T Consensus         1 p~L~~L~l~~n~l~~i~~~~f----~~l~~L~~L~l~~-N~l~~i~~~~f-~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNKLTEIPPDSF----SNLPNLETLDLSN-NNLTSIPPDAF-SNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTESEECTTTT----TTGTTESEEEETS-SSESEEETTTT-TTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCCCccCHHHH----cCCCCCCEeEccC-CccCccCHHHH-cCCCCCCEEeCcCCc
Confidence            568888888888888887662    3578888888885 55788856565 788888888888875

...

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.53  E-value=2.1e-06  Score=86.81  Aligned_cols=169  Identities=18%  Similarity=0.179  Sum_probs=100.6

Q ss_pred             ccccccccchHHHHHHHHHhc----C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec---c-
Q 048213          103 KDYEAFESRMSTFNDILNALK----S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE---E-  165 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~----~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~---~-  165 (532)
                      .....+.|+++.+++|.+.+.    .         ...+-+.++|++|+|||++|+++++.....  |-......   . 
T Consensus       119 ~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~--~~~v~~~~l~~~~  196 (364)
T TIGR01242       119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT--FIRVVGSELVRKY  196 (364)
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCC--EEecchHHHHHHh
Confidence            345568899999999988764    1         234669999999999999999999876533  32221000   0 


Q ss_pred             --CchhhHHHHHHHHhccCcEEEEEcCCCCcc----------------cccccccccC--CCCCCeEEEEeecChHHhh-
Q 048213          166 --SESGRARSLCNRLKKEKMILVILDNIWENL----------------DFHAVGIPHG--DDHKGCKVLLTARSLDVLS-  224 (532)
Q Consensus       166 --~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~~~--~~~~gs~ilvTtr~~~v~~-  224 (532)
                        ........+.+........+|++|+++...                .+..+...+.  ....+.+||.||....... 
T Consensus       197 ~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~  276 (364)
T TIGR01242       197 IGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDP  276 (364)
T ss_pred             hhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCCh
Confidence              011112233333333456899999997531                0111111111  1134677888887654321 


Q ss_pred             hcC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          225 RKM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       225 ~~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      ...   .....+.+...+.++..++|..++.......+.  ....+++.+.|..
T Consensus       277 al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~--~~~~la~~t~g~s  328 (364)
T TIGR01242       277 ALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDV--DLEAIAKMTEGAS  328 (364)
T ss_pred             hhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccC--CHHHHHHHcCCCC
Confidence            111   223578899999999999999887643322211  1456777777754

Many proteins may score above the trusted cutoff because an internal

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.53  E-value=2.7e-06  Score=85.35  Aligned_cols=174  Identities=14%  Similarity=0.110  Sum_probs=104.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCE--EEEeccC------------c---
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDR--VIFVEES------------E---  167 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~--~~~~~~~------------~---  167 (532)
                      ...++|++..++.+.+++..+..+.+.++|+.|+||||+|+.+++..... .+..  ......+            .   
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~   92 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGD-PWENNFTEFNVADFFDQGKKYLVEDPRFA   92 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCc-ccccceEEechhhhhhcchhhhhcCcchh
Confidence            45688999999999998887776778999999999999999998865322 1111  1100000            0   


Q ss_pred             ----------hhhHHHHHH---HHh-----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChHHh-hhc
Q 048213          168 ----------SGRARSLCN---RLK-----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLDVL-SRK  226 (532)
Q Consensus       168 ----------~~~~~~l~~---~l~-----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~  226 (532)
                                ......+.+   ...     .+.+-+||+||+....  ..+.+...+......+++|+|+...... ...
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L  172 (337)
T PRK12402         93 HFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPI  172 (337)
T ss_pred             hhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhh
Confidence                      001112222   111     1234589999997552  2233333222223456777777543321 212


Q ss_pred             CCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHH
Q 048213          227 MDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVT  280 (532)
Q Consensus       227 ~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  280 (532)
                      ......+.+.+++.++....+.+.+.... ..-..+....+++.++|.+-.+..
T Consensus       173 ~sr~~~v~~~~~~~~~~~~~l~~~~~~~~-~~~~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        173 RSRCLPLFFRAPTDDELVDVLESIAEAEG-VDYDDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             cCCceEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            22335788899999999988888654211 112366788899999887655443

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.52  E-value=1.8e-06  Score=95.68  Aligned_cols=239  Identities=13%  Similarity=0.113  Sum_probs=148.2

Q ss_pred             ccccchHHHHHHHHHhc---CCCceEEEEEccCCCchHHHHHHHHHHhhcc------CCCCEEE----------------
Q 048213          107 AFESRMSTFNDILNALK---SPDVNMLGIYGMGGIRKTTPAKEVAIKAENE------KLFDRVI----------------  161 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------~~F~~~~----------------  161 (532)
                      .++||+.+++.|...+.   .+...++.+.|..|||||+|+++|......+      ..|+..-                
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~   80 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLM   80 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHH
Confidence            36899999999998887   5566799999999999999999998865433      2233111                


Q ss_pred             ---------------------------------------Ee---------ccCchh-----hHHHHHHHHhccCcEEEEE
Q 048213          162 ---------------------------------------FV---------EESESG-----RARSLCNRLKKEKMILVIL  188 (532)
Q Consensus       162 ---------------------------------------~~---------~~~~~~-----~~~~l~~~l~~~k~~LlVl  188 (532)
                                                             ..         ......     ....+.......++.++|+
T Consensus        81 ~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~l  160 (849)
T COG3899          81 GQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVL  160 (849)
T ss_pred             HHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEE
Confidence                                                   00         000000     1122333334467999999


Q ss_pred             cCCCCcc-----cccccccccC---CCCCCeEEEEeecCh-HHhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcc
Q 048213          189 DNIWENL-----DFHAVGIPHG---DDHKGCKVLLTARSL-DVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSE  259 (532)
Q Consensus       189 Ddv~~~~-----~~~~l~~~~~---~~~~gs~ilvTtr~~-~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~  259 (532)
                      ||+.-.+     -++.+.....   ...+..-.+.|.+.. ........+...+.|.||+..+...+.....+...  ..
T Consensus       161 eDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~--~~  238 (849)
T COG3899         161 EDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK--LL  238 (849)
T ss_pred             ecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc--cc
Confidence            9985221     1111111110   000111123333332 12223344557899999999999999988776422  22


Q ss_pred             hHHHHHHHHHHcCCchHHHHHHHHHHccC-------ChHHHHHHHHHhcCCCCCCCCCchhHHHHHHHhhcCCCCCchHH
Q 048213          260 FKWVAKDVAKKCAGLPVSIVTVARALRNK-------RLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELK  332 (532)
Q Consensus       260 ~~~~~~~i~~~c~glPLai~~~~~~l~~~-------~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k  332 (532)
                      ..+....|+++..|+|+-+..+-..+...       +...|..-.....      ..+..+++...+..-.+.||.. .+
T Consensus       239 ~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~------~~~~~~~vv~~l~~rl~kL~~~-t~  311 (849)
T COG3899         239 PAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLG------ILATTDAVVEFLAARLQKLPGT-TR  311 (849)
T ss_pred             cchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcC------CchhhHHHHHHHHHHHhcCCHH-HH
Confidence            35678899999999999998888877632       3334433322222      1112333555688889999998 89


Q ss_pred             HHHHHHhhh-hcCChhHHHHHHH
Q 048213          333 NIFLLIGYT-AIASIDDLLMYGM  354 (532)
Q Consensus       333 ~~f~~lalF-~~i~~~~Li~~w~  354 (532)
                      +.....|++ ..|+.+.|-..+.
T Consensus       312 ~Vl~~AA~iG~~F~l~~La~l~~  334 (849)
T COG3899         312 EVLKAAACIGNRFDLDTLAALAE  334 (849)
T ss_pred             HHHHHHHHhCccCCHHHHHHHHh
Confidence            999999999 6677666655543

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.52  E-value=6.2e-06  Score=83.18  Aligned_cols=173  Identities=14%  Similarity=0.182  Sum_probs=108.4

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccC--------------------CCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEK--------------------LFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~~~~~  163 (532)
                      -..++|.+..++.+.+.+..+.. ..+.++|+.|+||||+|+.+++...-..                    +.+....+
T Consensus        15 ~~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~d~~~~~   94 (363)
T PRK14961         15 FRDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCLDLIEID   94 (363)
T ss_pred             hhhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceEEec
Confidence            45688999999999998886654 5678999999999999999988653211                    11111111


Q ss_pred             cc--CchhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEE
Q 048213          164 EE--SESGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~  234 (532)
                      ..  ...+....+.+.+.    .+++-++|+|++....  .++.+...+.......++|++|.+.. +..........++
T Consensus        95 ~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~~  174 (363)
T PRK14961         95 AASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFK  174 (363)
T ss_pred             ccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEEe
Confidence            11  11122333433332    2355699999998664  35555444443345666676665433 3222223346899


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      +.+++.++..+.+...+.... ..-.++.+..|+..++|.|-.+
T Consensus       175 ~~~l~~~el~~~L~~~~~~~g-~~i~~~al~~ia~~s~G~~R~a  217 (363)
T PRK14961        175 LKIISEEKIFNFLKYILIKES-IDTDEYALKLIAYHAHGSMRDA  217 (363)
T ss_pred             CCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            999999999988877554211 1122566788999999987543

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.50  E-value=1.4e-05  Score=86.72  Aligned_cols=167  Identities=19%  Similarity=0.178  Sum_probs=100.3

Q ss_pred             ccccccchHHHH---HHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchh---hHHHHHHHH
Q 048213          105 YEAFESRMSTFN---DILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESG---RARSLCNRL  178 (532)
Q Consensus       105 ~~~~~gR~~~~~---~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~---~~~~l~~~l  178 (532)
                      ...|+|.+..+.   .+.+.+..+....+.++|++|+||||||+.+++.....  |...-.......+   ......+.+
T Consensus        27 ldd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~~~~--f~~lna~~~~i~dir~~i~~a~~~l  104 (725)
T PRK13341         27 LEEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHTRAH--FSSLNAVLAGVKDLRAEVDRAKERL  104 (725)
T ss_pred             HHHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHhcCc--ceeehhhhhhhHHHHHHHHHHHHHh
Confidence            456889888774   45666667777788999999999999999999865432  4221100011111   112222222


Q ss_pred             h-ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEE--eecChH--HhhhcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          179 K-KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLL--TARSLD--VLSRKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       179 ~-~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilv--Ttr~~~--v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      . .+++.+|++||++..  .+++.+...+   ..|+.+++  ||.+..  +.........++.+++++.++...++.+.+
T Consensus       105 ~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi~~IL~~~l  181 (725)
T PRK13341        105 ERHGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQLLKRAL  181 (725)
T ss_pred             hhcCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHHHHHHHHHH
Confidence            2 135679999999754  3444553322   33555555  344432  111122234579999999999999998865


Q ss_pred             CC------CCCCcchHHHHHHHHHHcCCchH
Q 048213          252 GD------YIEGSEFKWVAKDVAKKCAGLPV  276 (532)
Q Consensus       252 ~~------~~~~~~~~~~~~~i~~~c~glPL  276 (532)
                      ..      .....-.++....|++.+.|.--
T Consensus       182 ~~~~~~~g~~~v~I~deaL~~La~~s~GD~R  212 (725)
T PRK13341        182 QDKERGYGDRKVDLEPEAEKHLVDVANGDAR  212 (725)
T ss_pred             HHHHhhcCCcccCCCHHHHHHHHHhCCCCHH
Confidence            31      11122235667888888888643

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.50  E-value=1.5e-05  Score=83.15  Aligned_cols=173  Identities=15%  Similarity=0.110  Sum_probs=109.4

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccCCCC-------------------EEEEec
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEKLFD-------------------RVIFVE  164 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~-------------------~~~~~~  164 (532)
                      -..++|-+..++.|.+++..+.. ..+.++|++|+||||+|+.+++...-.+.+.                   ...+..
T Consensus        13 ~~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~dv~el~~   92 (504)
T PRK14963         13 FDEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPDVLEIDA   92 (504)
T ss_pred             HHHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCceEEecc
Confidence            45688999988989888886665 4569999999999999999988764322111                   111111


Q ss_pred             c--CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEEc
Q 048213          165 E--SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFWV  235 (532)
Q Consensus       165 ~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~l  235 (532)
                      .  ...+.+..+.+.+.    .+++-++|+|+++..  ..++.+...+......+.+|++|.. ..+..........+.+
T Consensus        93 ~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~~f  172 (504)
T PRK14963         93 ASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRF  172 (504)
T ss_pred             cccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEEEe
Confidence            1  11122334444432    245679999999855  3455565554433345555555543 3332222333458999


Q ss_pred             cCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          236 GVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       236 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      .+++.++..+.+.+.+.... ..-.++....|++.++|.+--+
T Consensus       173 ~~ls~~el~~~L~~i~~~eg-i~i~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        173 RRLTEEEIAGKLRRLLEAEG-REAEPEALQLVARLADGAMRDA  214 (504)
T ss_pred             cCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            99999999999988764211 1123567889999999988544

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.49  E-value=1.6e-08  Score=93.88  Aligned_cols=123  Identities=20%  Similarity=0.136  Sum_probs=96.4

Q ss_pred             cccccEEEeccccccCc-ccccccccccEEeecccccccc----ccCCcceEEeccccccCCCCCcccccCCCCCEEecC
Q 048213          391 LTNLQTLCLYYCKLQDT-SVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLS  465 (532)
Q Consensus       391 l~~L~~L~l~~~~l~~~-~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~  465 (532)
                      -..|..+++++|.+..+ .++.-+|+++.|+++.|.+..+    .+++|.+|+|++|..  ...-..-..+-++++|.|+
T Consensus       283 Wq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~L--s~~~Gwh~KLGNIKtL~La  360 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLL--AECVGWHLKLGNIKTLKLA  360 (490)
T ss_pred             HhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchh--HhhhhhHhhhcCEeeeehh
Confidence            35678899999988874 4566678999999999988877    788999999999965  3333334567788999999


Q ss_pred             CcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          466 SINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       466 ~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      +|.|+.+. +.     .+|.+|..||+++ ++++.+..-.-+|+||.|++|.|.++|
T Consensus       361 ~N~iE~LS-GL-----~KLYSLvnLDl~~-N~Ie~ldeV~~IG~LPCLE~l~L~~NP  410 (490)
T KOG1259|consen  361 QNKIETLS-GL-----RKLYSLVNLDLSS-NQIEELDEVNHIGNLPCLETLRLTGNP  410 (490)
T ss_pred             hhhHhhhh-hh-----Hhhhhheeccccc-cchhhHHHhcccccccHHHHHhhcCCC
Confidence            99888762 33     5789999999998 557777333334899999999999987

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.48  E-value=1e-07  Score=93.09  Aligned_cols=212  Identities=19%  Similarity=0.181  Sum_probs=140.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-----------------------EeccCchhhHHHHHHHHhccC
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-----------------------FVEESESGRARSLCNRLKKEK  182 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-----------------------~~~~~~~~~~~~l~~~l~~~k  182 (532)
                      ..+.+.++|.|||||||++-.+.. ....  |....                       +...........+..+.. ++
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~~--~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g~~~~~~~~~~~~-~r   88 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AASE--YADGVAFVDLAPITDPALVFPTLAGALGLHVQPGDSAVDTLVRRIG-DR   88 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-Hhhh--cccceeeeeccccCchhHhHHHHHhhcccccccchHHHHHHHHHHh-hh
Confidence            348899999999999999999988 3322  54433                       111122223445566666 58


Q ss_pred             cEEEEEcCCCCc-ccccccccccCCCCCCeEEEEeecChHHhhhcCCCCceEEccCCCHH-HHHHHHHHHhC----CCCC
Q 048213          183 MILVILDNIWEN-LDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKED-EAWSLFKKMAG----DYIE  256 (532)
Q Consensus       183 ~~LlVlDdv~~~-~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~~~~~~~~~~l~~L~~~-~~~~Lf~~~~~----~~~~  256 (532)
                      |.++|+||.-+. ++-..+...+..+...-.|+.|+|....    ......+.+.+|+.. ++.++|...+.    .-.-
T Consensus        89 r~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l----~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l  164 (414)
T COG3903          89 RALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL----VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWL  164 (414)
T ss_pred             hHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc----ccccccccCCccccCCchhHHHHHHHHHhccceee
Confidence            999999998655 2222222333334445568888887543    334556777877754 78899887764    2222


Q ss_pred             CcchHHHHHHHHHHcCCchHHHHHHHHHHccCChHHHHHHHHH----hcCCCCCCCCCchhHHHHHHHhhcCCCCCchHH
Q 048213          257 GSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQ----LRWPSSTNFKDIQPTAYKAIELSYVKLDGDELK  332 (532)
Q Consensus       257 ~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~l~~----~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k  332 (532)
                      .......+.+|+++..|.|++|..+++..+.....+-...++.    +... ............+.+.+||.-|... .+
T Consensus       165 ~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~~lLtgw-e~  242 (414)
T COG3903         165 TDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSYALLTGW-ER  242 (414)
T ss_pred             cCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhhHhhhhH-HH
Confidence            3444677899999999999999999999887755554444332    2211 1111223566788999999999998 78


Q ss_pred             HHHHHHhhh-hcCChh
Q 048213          333 NIFLLIGYT-AIASID  347 (532)
Q Consensus       333 ~~f~~lalF-~~i~~~  347 (532)
                      --|..++.| ..|..+
T Consensus       243 ~~~~rLa~~~g~f~~~  258 (414)
T COG3903         243 ALFGRLAVFVGGFDLG  258 (414)
T ss_pred             HHhcchhhhhhhhccc
Confidence            889999999 555544

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.48  E-value=9.8e-09  Score=103.03  Aligned_cols=140  Identities=22%  Similarity=0.233  Sum_probs=122.4

Q ss_pred             hHHhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc-----ccCCcceEEeccccc
Q 048213          371 RVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRA  444 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~  444 (532)
                      ..-+.+..|.+..+|..++++..|.+|+++.|.+.. |..++.|+ |++|.+++|+++.+     .+..|.+|+.+.|..
T Consensus       100 Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sNNkl~~lp~~ig~~~tl~~ld~s~nei  178 (722)
T KOG0532|consen  100 LESLILYHNCIRTIPEAICNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSNNKLTSLPEEIGLLPTLAHLDVSKNEI  178 (722)
T ss_pred             HHHHHHHhccceecchhhhhhhHHHHhhhccchhhcCChhhhcCc-ceeEEEecCccccCCcccccchhHHHhhhhhhhh
Confidence            345567777888899999999999999999999988 67787776 89999999998877     567899999999976


Q ss_pred             cCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          445 SAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       445 ~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                        ...|..++++.+|+.|+++.|.+..+|+..     +. -.|..||++ ||++..+ |-.| .+|.+|++|.|.++|
T Consensus       179 --~slpsql~~l~slr~l~vrRn~l~~lp~El-----~~-LpLi~lDfS-cNkis~i-Pv~f-r~m~~Lq~l~LenNP  245 (722)
T KOG0532|consen  179 --QSLPSQLGYLTSLRDLNVRRNHLEDLPEEL-----CS-LPLIRLDFS-CNKISYL-PVDF-RKMRHLQVLQLENNP  245 (722)
T ss_pred             --hhchHHhhhHHHHHHHHHhhhhhhhCCHHH-----hC-Cceeeeecc-cCceeec-chhh-hhhhhheeeeeccCC
Confidence              778889999999999999999999999987     42 468899999 8999999 9998 899999999999887

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.47  E-value=9.7e-06  Score=80.61  Aligned_cols=173  Identities=11%  Similarity=0.014  Sum_probs=104.9

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEecc---CchhhHHHHHHHHhc
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEE---SESGRARSLCNRLKK  180 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~---~~~~~~~~l~~~l~~  180 (532)
                      -..++|+++.++.+..++..+..+.+.++|+.|+||||+|+.+++...... .+....+...   ........+.+....
T Consensus        16 ~~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~   95 (319)
T PRK00440         16 LDEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIRNKIKEFART   95 (319)
T ss_pred             HHHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHHHHHHHHHhc
Confidence            456889999999999998877777789999999999999999988753321 1111111111   111111222222211


Q ss_pred             -----cCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          181 -----EKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       181 -----~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                           ..+-++++|+++...  ..+.+...+......+.+|+++.... +..........+.+.+++.++....+...+.
T Consensus        96 ~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~~l~~~~~  175 (319)
T PRK00440         96 APVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAE  175 (319)
T ss_pred             CCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHHHHHHHHH
Confidence                 235689999987542  23334333322234466776664322 2111112234789999999999888887765


Q ss_pred             CCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          253 DYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       253 ~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      ... ..-.++....+++.++|.+--+
T Consensus       176 ~~~-~~i~~~al~~l~~~~~gd~r~~  200 (319)
T PRK00440        176 NEG-IEITDDALEAIYYVSEGDMRKA  200 (319)
T ss_pred             HcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            221 1123567889999999987654

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.47  E-value=1.4e-05  Score=83.94  Aligned_cols=176  Identities=13%  Similarity=0.114  Sum_probs=110.0

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc------------------------CCCCE
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE------------------------KLFDR  159 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~------------------------~~F~~  159 (532)
                      -..++|-+..++.|.+++..+.. ..+.++|+.|+||||+|+.+.+...-.                        +.|..
T Consensus        15 FddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~aG~hpD   94 (700)
T PRK12323         15 FTTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEIDAGRFVD   94 (700)
T ss_pred             HHHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHHcCCCCc
Confidence            45789999999999999987765 456889999999999999998765321                        01111


Q ss_pred             EE-EeccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEE-EeecChHHhhhcCCC
Q 048213          160 VI-FVEES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVL-LTARSLDVLSRKMDS  229 (532)
Q Consensus       160 ~~-~~~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~il-vTtr~~~v~~~~~~~  229 (532)
                      .+ ++..+  ..+.+..+.+.+.    .++.-++|+|+++..  ..++.+...+-.-..++++| +||....+.......
T Consensus        95 viEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSR  174 (700)
T PRK12323         95 YIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSR  174 (700)
T ss_pred             ceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHH
Confidence            11 11111  1122233333332    356679999999866  34555555443333445554 555545554332333


Q ss_pred             CceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          230 QQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       230 ~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      ...+.+..++.++..+.+.+.+.... .....+..+.|++.++|.|.....+
T Consensus       175 Cq~f~f~~ls~eei~~~L~~Il~~Eg-i~~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        175 CLQFNLKQMPPGHIVSHLDAILGEEG-IAHEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             HHhcccCCCChHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            46889999999999998887664211 1122455688999999988644433

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=98.46  E-value=9.9e-08  Score=94.85  Aligned_cols=151  Identities=25%  Similarity=0.144  Sum_probs=104.4

Q ss_pred             hhHHhhhhcccccC-Cchhhhcccc---ccEEEeccccccC------ccccccc-ccccEEeecccccccc---------
Q 048213          370 ARVVIDLTYMNLLS-LPSSLGLLTN---LQTLCLYYCKLQD------TSVLGEL-KILEILRLRVNELTRA---------  429 (532)
Q Consensus       370 ~~~~l~l~~~~l~~-lp~~~~~l~~---L~~L~l~~~~l~~------~~~i~~l-~~L~~L~l~~~~l~~~---------  429 (532)
                      ..+.+++.++.+.. .+..+..+.+   |++|++++|.+.+      ...+..+ ++|+.|++++|.++..         
T Consensus        82 ~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~  161 (319)
T cd00116          82 GLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKAL  161 (319)
T ss_pred             ceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHH
Confidence            45677888888763 4455655555   9999999998874      2345666 8999999999988732         


Q ss_pred             -ccCCcceEEeccccccCCC----CCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchh
Q 048213          430 -GSSQLKHLSVRGLRASAPN----PTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTS  504 (532)
Q Consensus       430 -~l~~Lr~L~l~~~~~~~~~----~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~  504 (532)
                       .+++|++|++++|.+ ...    .+..+..+++|++|++++|.++......+......+++|++|++++|. +......
T Consensus       162 ~~~~~L~~L~l~~n~l-~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~-l~~~~~~  239 (319)
T cd00116         162 RANRDLKELNLANNGI-GDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNN-LTDAGAA  239 (319)
T ss_pred             HhCCCcCEEECcCCCC-chHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCc-CchHHHH
Confidence             557899999999976 211    222345567999999999987643322222222457899999999975 5543233


Q ss_pred             hhhhc----CCCccEEEeecCC
Q 048213          505 SIISS----FVGLQCLEICECP  522 (532)
Q Consensus       505 ~~~~~----L~~L~~L~l~~c~  522 (532)
                      .+...    .++|++|++++|.
T Consensus       240 ~l~~~~~~~~~~L~~L~l~~n~  261 (319)
T cd00116         240 ALASALLSPNISLLTLSLSCND  261 (319)
T ss_pred             HHHHHHhccCCCceEEEccCCC
Confidence            33233    3799999999985

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.44  E-value=4.3e-05  Score=79.19  Aligned_cols=192  Identities=17%  Similarity=0.137  Sum_probs=115.3

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccC--------------------CCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEK--------------------LFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~~~~~  163 (532)
                      -..++|.+.....|...+..+.. ..+.++|++|+||||+|+.+++......                    +.+...++
T Consensus        13 ~~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv~el~   92 (472)
T PRK14962         13 FSEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDVIELD   92 (472)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCccEEEe
Confidence            45789999888888888877766 4578999999999999999988643211                    11222222


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+....+.+...    .+++-++|+|+++..  ...+.+...+........+|++|.+ ..+..........+.
T Consensus        93 aa~~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR~~vv~  172 (472)
T PRK14962         93 AASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIE  172 (472)
T ss_pred             CcccCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcCcEEEE
Confidence            211  1222333443332    245679999999754  3344454444332334444444443 334333334446899


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCC-chHHHHHHHHHHc---cC-ChHHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAG-LPVSIVTVARALR---NK-RLFDWKDAL  297 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~g-lPLai~~~~~~l~---~~-~~~~w~~~l  297 (532)
                      +.+++.++....+.+.+.... ..-.++....|++.++| ++.|+..+-....   +. +.+....++
T Consensus       173 f~~l~~~el~~~L~~i~~~eg-i~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~~~It~e~V~~~l  239 (472)
T PRK14962        173 FRNISDELIIKRLQEVAEAEG-IEIDREALSFIAKRASGGLRDALTMLEQVWKFSEGKITLETVHEAL  239 (472)
T ss_pred             ECCccHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHH
Confidence            999999999888888764211 12225667888887754 5677766655432   22 555555544

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=98.44  E-value=6e-06  Score=75.14  Aligned_cols=170  Identities=16%  Similarity=0.129  Sum_probs=91.9

Q ss_pred             ccccccccchHHHHHHHHHhc-----CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHH
Q 048213          103 KDYEAFESRMSTFNDILNALK-----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNR  177 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~-----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~  177 (532)
                      ..-.+|+|-++.++.+.-.+.     .+...-+.+||++|+||||||..+++.....  |...-............+...
T Consensus        21 ~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~--~~~~sg~~i~k~~dl~~il~~   98 (233)
T PF05496_consen   21 KSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVN--FKITSGPAIEKAGDLAAILTN   98 (233)
T ss_dssp             SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT----EEEEECCC--SCHHHHHHHHT
T ss_pred             CCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCC--eEeccchhhhhHHHHHHHHHh
Confidence            346789999888877544333     3456789999999999999999999987765  432211111222222333333


Q ss_pred             HhccCcEEEEEcCCCCccc---------ccccccc-cCCCCCC-----------eEEEEeecChHHhhhcCCCC--ceEE
Q 048213          178 LKKEKMILVILDNIWENLD---------FHAVGIP-HGDDHKG-----------CKVLLTARSLDVLSRKMDSQ--QDFW  234 (532)
Q Consensus       178 l~~~k~~LlVlDdv~~~~~---------~~~l~~~-~~~~~~g-----------s~ilvTtr~~~v~~~~~~~~--~~~~  234 (532)
                      +.  ++-+|.+|.+.....         .+..... .-..+.+           +-|=.|||...+.. .....  .+..
T Consensus        99 l~--~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~-pLrdRFgi~~~  175 (233)
T PF05496_consen   99 LK--EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSS-PLRDRFGIVLR  175 (233)
T ss_dssp             ----TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSH-CCCTTSSEEEE
T ss_pred             cC--CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccch-hHHhhcceecc
Confidence            43  567889999985421         1111100 0011111           23446888755432 22222  2457


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      ++.-+.+|-.++..+.+.... .+-.++.+.+|+++|.|-|--.
T Consensus       176 l~~Y~~~el~~Iv~r~a~~l~-i~i~~~~~~~Ia~rsrGtPRiA  218 (233)
T PF05496_consen  176 LEFYSEEELAKIVKRSARILN-IEIDEDAAEEIARRSRGTPRIA  218 (233)
T ss_dssp             ----THHHHHHHHHHCCHCTT--EE-HHHHHHHHHCTTTSHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHhC-CCcCHHHHHHHHHhcCCChHHH
Confidence            999999999999988765221 2334678999999999999543

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.42  E-value=5.5e-06  Score=75.51  Aligned_cols=153  Identities=18%  Similarity=0.099  Sum_probs=94.7

Q ss_pred             HHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEeccCc---hhhHH
Q 048213          117 DILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFVEESE---SGRAR  172 (532)
Q Consensus       117 ~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~~~~~---~~~~~  172 (532)
                      .+.+.+..+.. ..+.++|+.|+||||+|..+.+...-.                    .+.|.........   .+.+.
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~   82 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVR   82 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHH
Confidence            34555555555 678999999999999999998875432                    2223332222111   12233


Q ss_pred             HHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecCh-HHhhhcCCCCceEEccCCCHHHHHH
Q 048213          173 SLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSL-DVLSRKMDSQQDFWVGVLKEDEAWS  245 (532)
Q Consensus       173 ~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~-~v~~~~~~~~~~~~l~~L~~~~~~~  245 (532)
                      .+.+.+.    .+.+-++|+||+...  +.++.+...+......+.+|++|++. .+..........+.+.+++.++..+
T Consensus        83 ~i~~~~~~~~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~  162 (188)
T TIGR00678        83 ELVEFLSRTPQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQ  162 (188)
T ss_pred             HHHHHHccCcccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHH
Confidence            3334432    245678999998765  33555544443334456666666654 2222222334589999999999998


Q ss_pred             HHHHHhCCCCCCcchHHHHHHHHHHcCCchH
Q 048213          246 LFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV  276 (532)
Q Consensus       246 Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL  276 (532)
                      .+.+. +  .    .++.+..|+..++|.|.
T Consensus       163 ~l~~~-g--i----~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       163 WLIRQ-G--I----SEEAAELLLALAGGSPG  186 (188)
T ss_pred             HHHHc-C--C----CHHHHHHHHHHcCCCcc
Confidence            88876 2  1    15668899999999885

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.42  E-value=1.6e-05  Score=86.16  Aligned_cols=174  Identities=16%  Similarity=0.169  Sum_probs=110.2

Q ss_pred             ccccccchHHHHHHHHHhcCCCceE-EEEEccCCCchHHHHHHHHHHhhccCC-------------------CCEEE-Ee
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNM-LGIYGMGGIRKTTPAKEVAIKAENEKL-------------------FDRVI-FV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~v-v~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------F~~~~-~~  163 (532)
                      -..++|-+..++.|.+++..+.+.- +.++|+.|+||||+|+.+++...-...                   |...+ ++
T Consensus        15 FddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~DviEid   94 (944)
T PRK14949         15 FEQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDLIEVD   94 (944)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceEEEec
Confidence            4578899999999999888776654 589999999999999999986532211                   11111 21


Q ss_pred             cc--CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEee-cChHHhhhcCCCCceEE
Q 048213          164 EE--SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTA-RSLDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTt-r~~~v~~~~~~~~~~~~  234 (532)
                      ..  ...+.+..+.+.+.    .+++-++|||++...  ..++.+...+-.-....++|++| ....+..........+.
T Consensus        95 Aas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRCq~f~  174 (944)
T PRK14949         95 AASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQFN  174 (944)
T ss_pred             cccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhheEEe
Confidence            11  11122333433332    356779999999865  44555544443323455555544 44444322233346899


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIV  279 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  279 (532)
                      +.+|+.++..+.+.+.+... ......+....|++.++|.|--+.
T Consensus       175 fkpLs~eEI~~~L~~il~~E-gI~~edeAL~lIA~~S~Gd~R~AL  218 (944)
T PRK14949        175 LKSLTQDEIGTQLNHILTQE-QLPFEAEALTLLAKAANGSMRDAL  218 (944)
T ss_pred             CCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHH
Confidence            99999999999888766421 122235678889999999875443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=5.3e-06  Score=87.16  Aligned_cols=173  Identities=15%  Similarity=0.114  Sum_probs=108.6

Q ss_pred             ccccccchHHHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhcc-------------------CCCCEEE-Ee
Q 048213          105 YEAFESRMSTFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENE-------------------KLFDRVI-FV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~-~~  163 (532)
                      -..++|.+..++.|.+++..+. ...+.++|+.|+||||+|+.+++...-.                   +.|...+ .+
T Consensus        14 FddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hpDviEID   93 (702)
T PRK14960         14 FNELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFIDLIEID   93 (702)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCCceEEec
Confidence            4678999999999999998665 4577899999999999999998764321                   1121111 22


Q ss_pred             ccC--chhhHHHHHHHH----hccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRL----KKEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l----~~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~  234 (532)
                      ..+  ..+.+..+....    ..+++-++|+|++...  ...+.+...+..-..+.++|++|.+.. +..........+.
T Consensus        94 AAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~fe  173 (702)
T PRK14960         94 AASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFT  173 (702)
T ss_pred             ccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheee
Confidence            111  111222233222    1246678999999865  344555444433334566776665533 3222233446899


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      +.+++.++..+.+.+.+.... ..-..+....|++.++|-+-.+
T Consensus       174 FkpLs~eEI~k~L~~Il~kEg-I~id~eAL~~IA~~S~GdLRdA  216 (702)
T PRK14960        174 LRPLAVDEITKHLGAILEKEQ-IAADQDAIWQIAESAQGSLRDA  216 (702)
T ss_pred             ccCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            999999999988887664221 1223556788999999876444

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=98.39  E-value=4.1e-08  Score=95.73  Aligned_cols=131  Identities=24%  Similarity=0.191  Sum_probs=64.8

Q ss_pred             hhccccccEEEeccccccC----cccccccccccEEeecccccccc-------ccCCcceEEecccccc-----------
Q 048213          388 LGLLTNLQTLCLYYCKLQD----TSVLGELKILEILRLRVNELTRA-------GSSQLKHLSVRGLRAS-----------  445 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~----~~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~l~~~~~~-----------  445 (532)
                      ...+++++.|+|++|-++.    ...+..|++|+.|+|+.|.+...       .+++|+.|.|++|.+.           
T Consensus       142 ~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~f  221 (505)
T KOG3207|consen  142 SKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTF  221 (505)
T ss_pred             hhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhC
Confidence            4556666666666665554    23445666666666666644332       3445555555555431           


Q ss_pred             -------------CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCcc--chh---hhh
Q 048213          446 -------------APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCL--FTS---SII  507 (532)
Q Consensus       446 -------------~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l--~p~---~~~  507 (532)
                                   +.....+...+..|++|||++|++..++....   ...|+.|..|+++.|. +.++  |+-   ...
T Consensus       222 Psl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~---~~~l~~L~~Lnls~tg-i~si~~~d~~s~~kt  297 (505)
T KOG3207|consen  222 PSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYK---VGTLPGLNQLNLSSTG-IASIAEPDVESLDKT  297 (505)
T ss_pred             CcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccc---cccccchhhhhccccC-cchhcCCCccchhhh
Confidence                         11122223344556666666665555553220   0345666666666543 3332  111   001


Q ss_pred             hcCCCccEEEeecCC
Q 048213          508 SSFVGLQCLEICECP  522 (532)
Q Consensus       508 ~~L~~L~~L~l~~c~  522 (532)
                      ..+++|++|++..++
T Consensus       298 ~~f~kL~~L~i~~N~  312 (505)
T KOG3207|consen  298 HTFPKLEYLNISENN  312 (505)
T ss_pred             cccccceeeecccCc
Confidence            245666777666554

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.38  E-value=9.6e-06  Score=81.93  Aligned_cols=169  Identities=13%  Similarity=0.063  Sum_probs=104.3

Q ss_pred             cccccchHHHHHHHHHhcCCC----------ceEEEEEccCCCchHHHHHHHHHHhhcc-------------------CC
Q 048213          106 EAFESRMSTFNDILNALKSPD----------VNMLGIYGMGGIRKTTPAKEVAIKAENE-------------------KL  156 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~----------~~vv~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~  156 (532)
                      ..++|-+..++.+.+++..+.          ...+.++|+.|+|||++|..+++..--.                   .|
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~h   84 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTH   84 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            357898888998888887543          4668899999999999999987743211                   12


Q ss_pred             CCEEEEeccCc---hhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecCh-HHhhhc
Q 048213          157 FDRVIFVEESE---SGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSL-DVLSRK  226 (532)
Q Consensus       157 F~~~~~~~~~~---~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~-~v~~~~  226 (532)
                      -|..+......   .+.+..+.+...    .+++-++++|+++..  ...+.+...+..-..+..+|++|.+. .+....
T Consensus        85 pD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTI  164 (394)
T PRK07940         85 PDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTI  164 (394)
T ss_pred             CCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHH
Confidence            23222221111   122334444432    245568889999865  23344433333323455555555553 443332


Q ss_pred             CCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHH
Q 048213          227 MDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVT  280 (532)
Q Consensus       227 ~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  280 (532)
                      ......+.+.+++.++..+.+.+..+.      ..+.+..++..++|.|.....
T Consensus       165 rSRc~~i~f~~~~~~~i~~~L~~~~~~------~~~~a~~la~~s~G~~~~A~~  212 (394)
T PRK07940        165 RSRCRHVALRTPSVEAVAEVLVRRDGV------DPETARRAARASQGHIGRARR  212 (394)
T ss_pred             HhhCeEEECCCCCHHHHHHHHHHhcCC------CHHHHHHHHHHcCCCHHHHHH
Confidence            333468999999999999888754321      145578899999999864433

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.38  E-value=1.5e-05  Score=80.47  Aligned_cols=177  Identities=15%  Similarity=0.113  Sum_probs=111.7

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~  163 (532)
                      -..++|.+..++.+.+++..+.. ..+.++|+.|+||||+|+.+.....-.                    .+++...++
T Consensus        13 ~~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~~~~   92 (355)
T TIGR02397        13 FEDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVIEID   92 (355)
T ss_pred             HhhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEee
Confidence            45678999999999998886654 467899999999999999998764311                    134443332


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~  234 (532)
                      ...  ..+....+.+.+.    .+++-++|+|++...  ...+.+...+......+.+|++|.+.. +..........+.
T Consensus        93 ~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~  172 (355)
T TIGR02397        93 AASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFD  172 (355)
T ss_pred             ccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEEE
Confidence            221  1122334444433    135568999998654  334555444433334566666765544 2222223345788


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVA  282 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  282 (532)
                      +.++++++..+.+...+.... ..-.++.+..+++.++|.|..+....
T Consensus       173 ~~~~~~~~l~~~l~~~~~~~g-~~i~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       173 FKRIPLEDIVERLKKILDKEG-IKIEDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             cCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCChHHHHHHH
Confidence            899999999888887664211 11125678889999999886554443

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=98.37  E-value=2.1e-06  Score=74.34  Aligned_cols=112  Identities=19%  Similarity=0.099  Sum_probs=66.8

Q ss_pred             ccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc--hhhHH--------HH-HHH
Q 048213          109 ESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE--SGRAR--------SL-CNR  177 (532)
Q Consensus       109 ~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~--~~~~~--------~l-~~~  177 (532)
                      .|++..++.+...+.....+.+.|+|++|+|||++|+.+++..... ............  .....        .. ...
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~-~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRP-GAPFLYLNASDLLEGLVVAELFGHFLVRLLFEL   79 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhhcC-CCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHh
Confidence            3788889999998877667889999999999999999999876422 122222211111  00000        01 111


Q ss_pred             HhccCcEEEEEcCCCCc-----ccccccccccCC---CCCCeEEEEeecChH
Q 048213          178 LKKEKMILVILDNIWEN-----LDFHAVGIPHGD---DHKGCKVLLTARSLD  221 (532)
Q Consensus       178 l~~~k~~LlVlDdv~~~-----~~~~~l~~~~~~---~~~gs~ilvTtr~~~  221 (532)
                      ....+..++++||++..     ..+..+...+..   ...+..+|+||....
T Consensus        80 ~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          80 AEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             hccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence            11246789999999853     112221111111   135778888887643

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=98.37  E-value=1.1e-07  Score=105.10  Aligned_cols=74  Identities=32%  Similarity=0.308  Sum_probs=54.5

Q ss_pred             HhhHHhhhhcc-cccCCchhhhccccccEEEeccccccC-cccccccccccEEeeccccccc----c--ccCCcceEEec
Q 048213          369 RARVVIDLTYM-NLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTR----A--GSSQLKHLSVR  440 (532)
Q Consensus       369 ~~~~~l~l~~~-~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~----~--~l~~Lr~L~l~  440 (532)
                      ...+++|+++| ++.++|.+|+.|.+||||+++++.+.. |..+.+|++|.+|++..+.-..    +  .+.+||+|.+.
T Consensus       571 ~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~  650 (889)
T KOG4658|consen  571 PLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQSLRVLRLP  650 (889)
T ss_pred             cceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccchhhhcccccEEEee
Confidence            33477888865 567789999999999999999888887 7788888888888887663211    1  36667777665


Q ss_pred             cc
Q 048213          441 GL  442 (532)
Q Consensus       441 ~~  442 (532)
                      ..
T Consensus       651 ~s  652 (889)
T KOG4658|consen  651 RS  652 (889)
T ss_pred             cc
Confidence            44

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.37  E-value=1.3e-05  Score=79.83  Aligned_cols=178  Identities=13%  Similarity=0.075  Sum_probs=110.3

Q ss_pred             cccccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc-----C--CC--CE------------
Q 048213          102 NKDYEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE-----K--LF--DR------------  159 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~-----~--~F--~~------------  159 (532)
                      +.....++|.++..+.+...+..+.. ..+.|+|+.|+||||+|..+++..--.     .  .+  .+            
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~i~~~   98 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQIAQG   98 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHHHHcC
Confidence            44567789999999999999887654 468999999999999999988764321     0  00  00            


Q ss_pred             -----EEEe----ccC----c---hhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeE-EEEe
Q 048213          160 -----VIFV----EES----E---SGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCK-VLLT  216 (532)
Q Consensus       160 -----~~~~----~~~----~---~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~-ilvT  216 (532)
                           ....    ...    .   .+.+..+.+.+.    .+++-++|+|+++...  ..+.+...+..-..+.. |++|
T Consensus        99 ~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit  178 (351)
T PRK09112         99 AHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILIS  178 (351)
T ss_pred             CCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEE
Confidence                 0010    100    0   122334444443    3567799999998653  34444333322223344 4455


Q ss_pred             ecChHHhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHH
Q 048213          217 ARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVA  282 (532)
Q Consensus       217 tr~~~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  282 (532)
                      ++...+..........+.+.+++.++..+.+........   -.++....+++.++|.|.....+.
T Consensus       179 ~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~---~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        179 HSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG---SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             CChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            444333332233345899999999999999987432211   224557889999999998655443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.36  E-value=1.9e-05  Score=83.95  Aligned_cols=220  Identities=17%  Similarity=0.124  Sum_probs=126.8

Q ss_pred             ccccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE--Eec--------------
Q 048213          101 SNKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI--FVE--------------  164 (532)
Q Consensus       101 ~~~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~--~~~--------------  164 (532)
                      ++..+...+-|....+.+.+   ..+.+.+.|.-|+|.|||||+.........  .-...+  .+.              
T Consensus        14 ~P~~~~~~v~R~rL~~~L~~---~~~~RL~li~APAGfGKttl~aq~~~~~~~--~~~v~Wlslde~dndp~rF~~yLi~   88 (894)
T COG2909          14 RPVRPDNYVVRPRLLDRLRR---ANDYRLILISAPAGFGKTTLLAQWRELAAD--GAAVAWLSLDESDNDPARFLSYLIA   88 (894)
T ss_pred             CCCCcccccccHHHHHHHhc---CCCceEEEEeCCCCCcHHHHHHHHHHhcCc--ccceeEeecCCccCCHHHHHHHHHH
Confidence            33445566667655544333   347899999999999999999998762221  122222  000              


Q ss_pred             ----------------------cCchhhHHHHHHHHhc-cCcEEEEEcCCCCcc--cc-cccccccCCCCCCeEEEEeec
Q 048213          165 ----------------------ESESGRARSLCNRLKK-EKMILVILDNIWENL--DF-HAVGIPHGDDHKGCKVLLTAR  218 (532)
Q Consensus       165 ----------------------~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~--~~-~~l~~~~~~~~~gs~ilvTtr  218 (532)
                                            .+.......+...+.. .++..+||||..-..  .. ..+..-+.....+-.+|||||
T Consensus        89 al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR  168 (894)
T COG2909          89 ALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSR  168 (894)
T ss_pred             HHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEec
Confidence                                  0111122333333332 467899999976432  11 222222233456788999999


Q ss_pred             ChHHhhh-cCC-CCceEEcc----CCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHHccC-ChH
Q 048213          219 SLDVLSR-KMD-SQQDFWVG----VLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNK-RLF  291 (532)
Q Consensus       219 ~~~v~~~-~~~-~~~~~~l~----~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~-~~~  291 (532)
                      +..-... .+. .....+++    .++.+|+.++|....+..    -.+...+.+.....|=+-|+..++=.+++. +.+
T Consensus       169 ~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~----Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~  244 (894)
T COG2909         169 SRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLP----LDAADLKALYDRTEGWAAALQLIALALRNNTSAE  244 (894)
T ss_pred             cCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCCC----CChHHHHHHHhhcccHHHHHHHHHHHccCCCcHH
Confidence            8754210 011 11123333    588999999998765422    224557889999999999998888777733 333


Q ss_pred             HHHHHHHHhcCCCCCCCCCchhHHHH-HHHhhcCCCCCchHHHHHHHHhhh
Q 048213          292 DWKDALEQLRWPSSTNFKDIQPTAYK-AIELSYVKLDGDELKNIFLLIGYT  341 (532)
Q Consensus       292 ~w~~~l~~~~~~~~~~~~~~~~~~~~-~l~~sy~~L~~~~~k~~f~~lalF  341 (532)
                      .-...+.-           ..+-+.. ..+-=++.||++ +|..++-+|++
T Consensus       245 q~~~~LsG-----------~~~~l~dYL~eeVld~Lp~~-l~~FLl~~svl  283 (894)
T COG2909         245 QSLRGLSG-----------AASHLSDYLVEEVLDRLPPE-LRDFLLQTSVL  283 (894)
T ss_pred             HHhhhccc-----------hHHHHHHHHHHHHHhcCCHH-HHHHHHHHHhH
Confidence            22221110           0111111 122235789999 99999999998

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=98.35  E-value=5.9e-07  Score=65.25  Aligned_cols=60  Identities=30%  Similarity=0.335  Sum_probs=49.1

Q ss_pred             CCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          432 SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       432 ~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      ++|++|++++|++ ..-.+..|.++++|++|+|++|.++.+|+..+    ..+++|++|++++|+
T Consensus         1 p~L~~L~l~~n~l-~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f----~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNKL-TEIPPDSFSNLPNLETLDLSNNNLTSIPPDAF----SNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTE-SEECTTTTTTGTTESEEEETSSSESEEETTTT----TTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCC-CccCHHHHcCCCCCCEeEccCCccCccCHHHH----cCCCCCCEEeCcCCc
Confidence            4688888888876 33344688999999999999999999988763    479999999999865

...

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.34  E-value=7e-06  Score=83.81  Aligned_cols=173  Identities=15%  Similarity=0.115  Sum_probs=109.2

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhccC----------------------------
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAENEK----------------------------  155 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~~----------------------------  155 (532)
                      -..++|.+..++.|.+++..+.++ .+.++|+.|+||||+|..+++...-..                            
T Consensus        15 ~~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~   94 (397)
T PRK14955         15 FADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFDAGT   94 (397)
T ss_pred             HhhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHhcCC
Confidence            457889999999998888876654 488999999999999999987653211                            


Q ss_pred             CCCEEEEeccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEee-cChHHhhhc
Q 048213          156 LFDRVIFVEES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTA-RSLDVLSRK  226 (532)
Q Consensus       156 ~F~~~~~~~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTt-r~~~v~~~~  226 (532)
                      +++...++..+  ..+.+..+.+.+.    .+.+-++|+|++...  ..++.+...+..-...+.+|++| +...+....
T Consensus        95 ~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~tl  174 (397)
T PRK14955         95 SLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATI  174 (397)
T ss_pred             CCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHHH
Confidence            22222222211  1233444455552    245668999999865  34666655554334456665555 433433222


Q ss_pred             CCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          227 MDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       227 ~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      ......+++.++++++..+.+...+... ...-..+.+..|+..++|.+--+
T Consensus       175 ~sR~~~v~f~~l~~~ei~~~l~~~~~~~-g~~i~~~al~~l~~~s~g~lr~a  225 (397)
T PRK14955        175 ASRCQRFNFKRIPLEEIQQQLQGICEAE-GISVDADALQLIGRKAQGSMRDA  225 (397)
T ss_pred             HHHHHHhhcCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHH
Confidence            2223578899999999888887765311 11223667889999999977533

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.33  E-value=1.5e-05  Score=85.66  Aligned_cols=178  Identities=14%  Similarity=0.054  Sum_probs=100.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCC------EEEEeccC----c-------
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFD------RVIFVEES----E-------  167 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~------~~~~~~~~----~-------  167 (532)
                      ...++|++..+..+.+.+.......+.|+|++|+||||+|+.+++.......+.      ...++...    .       
T Consensus       153 ~~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~l  232 (615)
T TIGR02903       153 FSEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVTNPL  232 (615)
T ss_pred             HHhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHhHHh
Confidence            456889999999988888766667899999999999999999987654322221      01111000    0       


Q ss_pred             ----------------------------------------------hhhHHHHHHHHhccCcEEEEEcCCCCc--ccccc
Q 048213          168 ----------------------------------------------SGRARSLCNRLKKEKMILVILDNIWEN--LDFHA  199 (532)
Q Consensus       168 ----------------------------------------------~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~  199 (532)
                                                                    ......+.+.+. ++++.++-|+.|..  ..|+.
T Consensus       233 lg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le-~~~v~~~~~~~~~~~~~~~~~  311 (615)
T TIGR02903       233 LGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLE-DKRVEFSSSYYDPDDPNVPKY  311 (615)
T ss_pred             cCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHh-hCeEEeecceeccCCcccchh
Confidence                                                          001122233333 24444444443332  23555


Q ss_pred             cccccCCCCCCeEEEE--eecChHHh-hhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH
Q 048213          200 VGIPHGDDHKGCKVLL--TARSLDVL-SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV  276 (532)
Q Consensus       200 l~~~~~~~~~gs~ilv--Ttr~~~v~-~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL  276 (532)
                      ++..+....+...+++  ||++.... .........+.+.+++.++.+.++.+.+..... .-.++..+.|.+.+..-+-
T Consensus       312 ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v-~ls~eal~~L~~ys~~gRr  390 (615)
T TIGR02903       312 IKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINV-HLAAGVEELIARYTIEGRK  390 (615)
T ss_pred             hhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHCCCcHHH
Confidence            5444444444444554  56644321 111122346788999999999999987653211 1124455556665555566


Q ss_pred             HHHHHHHH
Q 048213          277 SIVTVARA  284 (532)
Q Consensus       277 ai~~~~~~  284 (532)
                      |+..++..
T Consensus       391 aln~L~~~  398 (615)
T TIGR02903       391 AVNILADV  398 (615)
T ss_pred             HHHHHHHH
Confidence            66666544

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.33  E-value=6.5e-06  Score=82.45  Aligned_cols=175  Identities=15%  Similarity=0.069  Sum_probs=109.6

Q ss_pred             cccccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhccCC-----C------------------
Q 048213          102 NKDYEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAENEKL-----F------------------  157 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~~~-----F------------------  157 (532)
                      +.....++|.+...+.+.+.+..+... .+.++|+.|+||+|+|..+++..--+..     +                  
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c~~c~~   94 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDHPVARR   94 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCChHHHH
Confidence            334567899999999999988877654 5889999999999999988875421110     0                  


Q ss_pred             -------CEEEEe----ccC----c---hhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEE
Q 048213          158 -------DRVIFV----EES----E---SGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKV  213 (532)
Q Consensus       158 -------~~~~~~----~~~----~---~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~i  213 (532)
                             |.....    ...    .   .+.+..+.+.+.    .+.+-++|+|+++..  ...+.+...+..-..++.+
T Consensus        95 i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~  174 (365)
T PRK07471         95 IAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLF  174 (365)
T ss_pred             HHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEE
Confidence                   001011    110    0   122333333332    256678999999755  3344454444333345666


Q ss_pred             EEeecChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          214 LLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       214 lvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      |++|.+.. +..........+.+.+++.++..+++.......     .......++..++|.|+....+
T Consensus       175 IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~-----~~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        175 LLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL-----PDDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             EEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC-----CHHHHHHHHHHcCCCHHHHHHH
Confidence            66666653 333333444689999999999999998764321     1222367899999999865444

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.33  E-value=5.7e-06  Score=84.10  Aligned_cols=167  Identities=17%  Similarity=0.228  Sum_probs=98.3

Q ss_pred             cccccccchHHHHHHHHHhc----C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eec---
Q 048213          104 DYEAFESRMSTFNDILNALK----S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVE---  164 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~----~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~---  164 (532)
                      ....+.|+++.++++.+.+.    .         ...+-|.++|++|+|||++|+++++.....  |-...   +..   
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~--~i~v~~~~l~~~~~  206 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT--FIRVVGSELVQKFI  206 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCC--EEEeehHHHhHhhc
Confidence            34568899999999888663    1         345679999999999999999999875532  32221   000   


Q ss_pred             cCchhhHHHHHHHHhccCcEEEEEcCCCCcc------------cc-ccc---ccccC--CCCCCeEEEEeecChHHhh-h
Q 048213          165 ESESGRARSLCNRLKKEKMILVILDNIWENL------------DF-HAV---GIPHG--DDHKGCKVLLTARSLDVLS-R  225 (532)
Q Consensus       165 ~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~~-~~l---~~~~~--~~~~gs~ilvTtr~~~v~~-~  225 (532)
                      .........+.+........+|++||++...            .+ ..+   ...+.  ....+..||.||....... .
T Consensus       207 g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~a  286 (389)
T PRK03992        207 GEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPA  286 (389)
T ss_pred             cchHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHH
Confidence            0111223334444333466899999997531            01 111   11111  1123567787887654331 1


Q ss_pred             cC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          226 KM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       226 ~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      ..   .-...+.+.+.+.++-.++|..+..........  ....+++.+.|.
T Consensus       287 llRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~--~~~~la~~t~g~  336 (389)
T PRK03992        287 ILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDV--DLEELAELTEGA  336 (389)
T ss_pred             HcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcC--CHHHHHHHcCCC
Confidence            12   123578999999999999999887633222111  145566666664

>PRK08727 hypothetical protein; Validated

Probab=98.33  E-value=1.3e-05  Score=75.54  Aligned_cols=168  Identities=15%  Similarity=0.071  Sum_probs=96.0

Q ss_pred             ccccchH-HHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccCcEE
Q 048213          107 AFESRMS-TFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMIL  185 (532)
Q Consensus       107 ~~~gR~~-~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~L  185 (532)
                      .|++... .+..+...........+.|+|..|+|||.|++++++....++ +..................+.+.  +.-+
T Consensus        20 ~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~-~~~~y~~~~~~~~~~~~~~~~l~--~~dl   96 (233)
T PRK08727         20 SYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAEQAG-RSSAYLPLQAAAGRLRDALEALE--GRSL   96 (233)
T ss_pred             hccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcC-CcEEEEeHHHhhhhHHHHHHHHh--cCCE
Confidence            3544433 333333333233345799999999999999999988765443 33333222222222223333443  3459


Q ss_pred             EEEcCCCCcc---cccc-cccccCC-CCCCeEEEEeecChHHh-----h---hcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          186 VILDNIWENL---DFHA-VGIPHGD-DHKGCKVLLTARSLDVL-----S---RKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       186 lVlDdv~~~~---~~~~-l~~~~~~-~~~gs~ilvTtr~~~v~-----~---~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      ||+||+....   .|.. +...+.. ..+|..||+|++...-.     .   ..+....++.+++++.++-.+++.+.+.
T Consensus        97 LiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~  176 (233)
T PRK08727         97 VALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERAQ  176 (233)
T ss_pred             EEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHHH
Confidence            9999997542   2322 2111111 12456799999853221     0   1122245889999999999999998765


Q ss_pred             CCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          253 DYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       253 ~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      ... ..-.++...-|++.+.|-.-.+
T Consensus       177 ~~~-l~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        177 RRG-LALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HcC-CCCCHHHHHHHHHhCCCCHHHH
Confidence            211 2223566778888887655443

>PRK09087 hypothetical protein; Validated

Probab=98.32  E-value=1.5e-05  Score=74.54  Aligned_cols=143  Identities=13%  Similarity=0.011  Sum_probs=86.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccCcEEEEEcCCCCccc-cccccccc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWENLD-FHAVGIPH  204 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-~~~l~~~~  204 (532)
                      ..+.+.|+|+.|+|||+|++.+++.....      ....   ......+...+.+   -+|++||+..... -+.+...+
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~~~~------~i~~---~~~~~~~~~~~~~---~~l~iDDi~~~~~~~~~lf~l~  110 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKSDAL------LIHP---NEIGSDAANAAAE---GPVLIEDIDAGGFDETGLFHLI  110 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhcCCE------EecH---HHcchHHHHhhhc---CeEEEECCCCCCCCHHHHHHHH
Confidence            34679999999999999999988764332      1111   1111222223332   3788899965321 11121111


Q ss_pred             CC-CCCCeEEEEeecChHHh--------hhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          205 GD-DHKGCKVLLTARSLDVL--------SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       205 ~~-~~~gs~ilvTtr~~~v~--------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      .. ...|..+|+|++...-.        ........++++++++.++-.+++.+.+... ...--+++..-|++.+.|..
T Consensus       111 n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~-~~~l~~ev~~~La~~~~r~~  189 (226)
T PRK09087        111 NSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFADR-QLYVDPHVVYYLVSRMERSL  189 (226)
T ss_pred             HHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHhhhhH
Confidence            11 13467788888743221        1123445789999999999999999887532 12223677888888888877


Q ss_pred             HHHHHH
Q 048213          276 VSIVTV  281 (532)
Q Consensus       276 Lai~~~  281 (532)
                      -++..+
T Consensus       190 ~~l~~~  195 (226)
T PRK09087        190 FAAQTI  195 (226)
T ss_pred             HHHHHH
Confidence            666543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.31  E-value=9.3e-06  Score=84.99  Aligned_cols=177  Identities=12%  Similarity=0.132  Sum_probs=108.0

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc-------------------CCCCEEE-Ee
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE-------------------KLFDRVI-FV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~-~~  163 (532)
                      -..++|-+..++.+...+..+.. ..+.++|+.|+||||+|+.+++...-.                   ..|...+ ++
T Consensus        15 f~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieid   94 (546)
T PRK14957         15 FAEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEID   94 (546)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEee
Confidence            45688999999999998886654 457899999999999999998754311                   0121221 11


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEE-EeecChHHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVL-LTARSLDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~il-vTtr~~~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+....+.+.+.    .+++-++|+|++...  ..++.+...+-.-...+.+| +||....+..........++
T Consensus        95 aas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc~~~~  174 (546)
T PRK14957         95 AASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLH  174 (546)
T ss_pred             cccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHheeeEE
Confidence            111  1112223333322    256679999999755  34555544443333455555 55544444322233346899


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch-HHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP-VSIVTVA  282 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~  282 (532)
                      +.+++.++....+.+.+.... ..-.++....|++.++|-+ -|+..+-
T Consensus       175 f~~Ls~~eI~~~L~~il~~eg-i~~e~~Al~~Ia~~s~GdlR~alnlLe  222 (546)
T PRK14957        175 LKHISQADIKDQLKIILAKEN-INSDEQSLEYIAYHAKGSLRDALSLLD  222 (546)
T ss_pred             eCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            999999998888777543211 1223566788999999955 4554443

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.31  E-value=8e-06  Score=84.91  Aligned_cols=173  Identities=14%  Similarity=0.114  Sum_probs=109.0

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccCCC------------------------CE
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEKLF------------------------DR  159 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F------------------------~~  159 (532)
                      -..++|-+..+..+...+..+.. ..+.++|+.|+||||+|+.+++..--....                        +.
T Consensus        20 f~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~~~~h~Dv   99 (507)
T PRK06645         20 FAELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFNNHNHPDI   99 (507)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHhcCCCCcE
Confidence            45678999999988887776553 578899999999999999998865322110                        11


Q ss_pred             EEEeccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEE-EeecChHHhhhcCCCC
Q 048213          160 VIFVEES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVL-LTARSLDVLSRKMDSQ  230 (532)
Q Consensus       160 ~~~~~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~il-vTtr~~~v~~~~~~~~  230 (532)
                      ..++..+  ..+.+..+.+...    .+++-++|+|+++..  ..++.+...+..-...+.+| +||+...+........
T Consensus       100 ~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc  179 (507)
T PRK06645        100 IEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRC  179 (507)
T ss_pred             EEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcc
Confidence            1111111  1122222333222    246678999999875  44666655554444555655 4555555543333344


Q ss_pred             ceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          231 QDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       231 ~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      ..+.+.+++.++....+.+.+.... ..-..+....|++.++|.+--+
T Consensus       180 ~~~ef~~ls~~el~~~L~~i~~~eg-i~ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        180 QRYDLRRLSFEEIFKLLEYITKQEN-LKTDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             eEEEccCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            5789999999999999988775221 1122456778999999976433

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.29  E-value=1.2e-05  Score=76.01  Aligned_cols=164  Identities=12%  Similarity=0.035  Sum_probs=94.3

Q ss_pred             HHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccCcEEEEEcCCCC
Q 048213          114 TFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWE  193 (532)
Q Consensus       114 ~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  193 (532)
                      .+..+.++....+.+.+.|+|+.|+|||+|++.+++....++ .................+.+.+.+  --+|++||+..
T Consensus        32 a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~-~~v~y~~~~~~~~~~~~~~~~~~~--~dlliiDdi~~  108 (235)
T PRK08084         32 LLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELSQRG-RAVGYVPLDKRAWFVPEVLEGMEQ--LSLVCIDNIEC  108 (235)
T ss_pred             HHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHhCC-CeEEEEEHHHHhhhhHHHHHHhhh--CCEEEEeChhh
Confidence            444444444445557899999999999999999998655321 222221111111112233333332  24899999975


Q ss_pred             c---ccccccc-cccCC-CCCC-eEEEEeecChHHh--------hhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcc
Q 048213          194 N---LDFHAVG-IPHGD-DHKG-CKVLLTARSLDVL--------SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSE  259 (532)
Q Consensus       194 ~---~~~~~l~-~~~~~-~~~g-s~ilvTtr~~~v~--------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~  259 (532)
                      .   ..|+... ..+.. ...| .++|+||+...-.        ...+....++.+.+++.++-.+++.+.+... ...-
T Consensus       109 ~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~-~~~l  187 (235)
T PRK08084        109 IAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLR-GFEL  187 (235)
T ss_pred             hcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHc-CCCC
Confidence            4   2343211 11111 1123 4688888855321        1123344689999999999999988766422 1223


Q ss_pred             hHHHHHHHHHHcCCchHHHHHH
Q 048213          260 FKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       260 ~~~~~~~i~~~c~glPLai~~~  281 (532)
                      -+++..-|++.+.|-.-++..+
T Consensus       188 ~~~v~~~L~~~~~~d~r~l~~~  209 (235)
T PRK08084        188 PEDVGRFLLKRLDREMRTLFMT  209 (235)
T ss_pred             CHHHHHHHHHhhcCCHHHHHHH
Confidence            3677788888888765544433

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=7.7e-06  Score=83.47  Aligned_cols=173  Identities=18%  Similarity=0.096  Sum_probs=108.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhccCC--------------------CCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAENEKL--------------------FDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~~~--------------------F~~~~~~  163 (532)
                      -..++|-+..+..|..++..+... .+.++|+.|+||||+|+.+++...-...                    .+..-++
T Consensus        17 f~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~dviEId   96 (484)
T PRK14956         17 FRDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGISSDVLEID   96 (484)
T ss_pred             HHHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCCccceeec
Confidence            456889999999999988877654 5799999999999999999886432110                    0111011


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEE-EeecChHHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVL-LTARSLDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~il-vTtr~~~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+.+..+.+.+.    .++.-++|+|+++..  +.++.+...+-.-.....+| .||....+..........|.
T Consensus        97 aas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRCq~~~  176 (484)
T PRK14956         97 AASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFI  176 (484)
T ss_pred             hhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhhheee
Confidence            111  1122333333332    356679999999865  44666655443323344444 45544444332333345799


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      +.+++.++..+.+.+.+.... ..-.++....|++.++|.+--.
T Consensus       177 f~~ls~~~i~~~L~~i~~~Eg-i~~e~eAL~~Ia~~S~Gd~RdA  219 (484)
T PRK14956        177 FKKVPLSVLQDYSEKLCKIEN-VQYDQEGLFWIAKKGDGSVRDM  219 (484)
T ss_pred             ecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCChHHHH
Confidence            999999998888887654211 1223567889999999987433

>PLN03150 hypothetical protein; Provisional

Probab=98.27  E-value=1.9e-06  Score=93.01  Aligned_cols=87  Identities=14%  Similarity=0.072  Sum_probs=41.0

Q ss_pred             ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccc-cccccccccccccCCCccEEEeccCCCCCccchhhhhh
Q 048213          430 GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIE-RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIIS  508 (532)
Q Consensus       430 ~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~-~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~  508 (532)
                      .+++|+.|+|++|.+ ....|..++.+++|++|+|++|++. .+|+.+     .+|++|++|+|++|+....+ |..+.+
T Consensus       440 ~L~~L~~L~Ls~N~l-~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l-----~~L~~L~~L~Ls~N~l~g~i-P~~l~~  512 (623)
T PLN03150        440 KLRHLQSINLSGNSI-RGNIPPSLGSITSLEVLDLSYNSFNGSIPESL-----GQLTSLRILNLNGNSLSGRV-PAALGG  512 (623)
T ss_pred             CCCCCCEEECCCCcc-cCcCChHHhCCCCCCEEECCCCCCCCCCchHH-----hcCCCCCEEECcCCcccccC-ChHHhh
Confidence            344455555555544 3344445555555555555555554 333333     44555555555554433344 444322


Q ss_pred             cCCCccEEEeecCCc
Q 048213          509 SFVGLQCLEICECPV  523 (532)
Q Consensus       509 ~L~~L~~L~l~~c~~  523 (532)
                      .+.++..+++.+++.
T Consensus       513 ~~~~~~~l~~~~N~~  527 (623)
T PLN03150        513 RLLHRASFNFTDNAG  527 (623)
T ss_pred             ccccCceEEecCCcc
Confidence            223444555554443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=9.3e-05  Score=78.66  Aligned_cols=175  Identities=12%  Similarity=0.125  Sum_probs=107.6

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc-------------------------CCCC
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE-------------------------KLFD  158 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~-------------------------~~F~  158 (532)
                      -..++|-+..++.|.+++..+.. ..+.++|+.|+||||+|+.+++..--.                         .|.|
T Consensus        15 f~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~~g~h~D   94 (618)
T PRK14951         15 FSEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDIDSGRFVD   94 (618)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHHcCCCCc
Confidence            45788999999999998887665 566899999999999999997653211                         1112


Q ss_pred             EEEEeccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEee-cChHHhhhcCCC
Q 048213          159 RVIFVEES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTA-RSLDVLSRKMDS  229 (532)
Q Consensus       159 ~~~~~~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTt-r~~~v~~~~~~~  229 (532)
                      ...++..+  ..+.+..+.+...    .++.-++|||+++..  ..++.+...+..-...+++|++| ....+.......
T Consensus        95 ~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSR  174 (618)
T PRK14951         95 YTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSR  174 (618)
T ss_pred             eeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHh
Confidence            11121111  1112223333322    245568999999865  34555544443333455555544 444444333334


Q ss_pred             CceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHH
Q 048213          230 QQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVT  280 (532)
Q Consensus       230 ~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  280 (532)
                      ...+.+.+++.++..+.+.+.+.... ..-..+....|++.++|.+--+..
T Consensus       175 c~~~~f~~Ls~eei~~~L~~i~~~eg-i~ie~~AL~~La~~s~GslR~al~  224 (618)
T PRK14951        175 CLQFNLRPMAPETVLEHLTQVLAAEN-VPAEPQALRLLARAARGSMRDALS  224 (618)
T ss_pred             ceeeecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            56899999999999988887664211 112256678889999987644433

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.25  E-value=5.1e-07  Score=92.66  Aligned_cols=142  Identities=26%  Similarity=0.282  Sum_probs=114.1

Q ss_pred             hhHHhhhhcccccCCchhhhccccccEEEeccccccCccc-ccccccccEEeecccccccc----ccC-CcceEEecccc
Q 048213          370 ARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSV-LGELKILEILRLRVNELTRA----GSS-QLKHLSVRGLR  443 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~-i~~l~~L~~L~l~~~~l~~~----~l~-~Lr~L~l~~~~  443 (532)
                      +.+.+++.++.+..+|..++.+++|+.|++..|.+.+.+. .+.+++|+.|++++|++..+    ..+ .|..|.+++|.
T Consensus       141 nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~  220 (394)
T COG4886         141 NLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNS  220 (394)
T ss_pred             hcccccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhheeccCCccccCchhhhhhhhhhhhhhcCCc
Confidence            5677888888888888788899999999999999888544 44888999999999988877    133 48888888885


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      .  ...+..+.++..+..|.+.+|.+..++..+     ..+++|++|++++ +.+..+ +. + +.+.+|++|++++..
T Consensus       221 ~--~~~~~~~~~~~~l~~l~l~~n~~~~~~~~~-----~~l~~l~~L~~s~-n~i~~i-~~-~-~~~~~l~~L~~s~n~  288 (394)
T COG4886         221 I--IELLSSLSNLKNLSGLELSNNKLEDLPESI-----GNLSNLETLDLSN-NQISSI-SS-L-GSLTNLRELDLSGNS  288 (394)
T ss_pred             c--eecchhhhhcccccccccCCceeeeccchh-----ccccccceecccc-cccccc-cc-c-cccCccCEEeccCcc
Confidence            4  456677888888888888888887776666     7788899999996 568888 44 4 789999999998754

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.24  E-value=0.0001  Score=78.55  Aligned_cols=173  Identities=14%  Similarity=0.143  Sum_probs=107.6

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~  163 (532)
                      -..++|-+..++.|.+.+..+.+. .+.++|+.|+||||+|+.+++..--.                    .|.|...++
T Consensus        15 f~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~~D~ieid   94 (647)
T PRK07994         15 FAEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRFVDLIEID   94 (647)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCCCCceeec
Confidence            457889999999999988876654 46799999999999999998764321                    111222122


Q ss_pred             cc--CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEE-EeecChHHhhhcCCCCceEE
Q 048213          164 EE--SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVL-LTARSLDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~il-vTtr~~~v~~~~~~~~~~~~  234 (532)
                      ..  ...+.+..+.+.+.    .+++-++|+|+++..  ...+.+...+-.-....++| +||....+..........+.
T Consensus        95 aas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC~~~~  174 (647)
T PRK07994         95 AASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFH  174 (647)
T ss_pred             ccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhheEee
Confidence            21  11122333333332    356679999999865  34555544443323345454 45544444332233346899


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      +.+++.++....+.+.+.... .....+....|++.++|.+--+
T Consensus       175 f~~Ls~~ei~~~L~~il~~e~-i~~e~~aL~~Ia~~s~Gs~R~A  217 (647)
T PRK07994        175 LKALDVEQIRQQLEHILQAEQ-IPFEPRALQLLARAADGSMRDA  217 (647)
T ss_pred             CCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            999999999988887653111 1223556788999999977533

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.23  E-value=3.3e-05  Score=82.29  Aligned_cols=171  Identities=17%  Similarity=0.115  Sum_probs=107.2

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc----------------------------C
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE----------------------------K  155 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~----------------------------~  155 (532)
                      -..++|-+..++.|.+++..+.+ ..+.++|+.|+||||+|..+++..--.                            .
T Consensus        15 f~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~   94 (620)
T PRK14954         15 FADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDFDAGT   94 (620)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHHhccC
Confidence            45788999999999998887665 458899999999999999988765321                            1


Q ss_pred             CCCEEEEeccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEE-EeecChHHhhhc
Q 048213          156 LFDRVIFVEES--ESGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVL-LTARSLDVLSRK  226 (532)
Q Consensus       156 ~F~~~~~~~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~il-vTtr~~~v~~~~  226 (532)
                      +|+...++..+  ..+.+..+.+.+.    .+.+-++|+|+++...  ..+.+...+..-...+.+| +|++...+....
T Consensus        95 ~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~TI  174 (620)
T PRK14954         95 SLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATI  174 (620)
T ss_pred             CCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHH
Confidence            23333333211  1233444444442    2455689999987653  3455544443323345544 444444443333


Q ss_pred             CCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH
Q 048213          227 MDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV  276 (532)
Q Consensus       227 ~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL  276 (532)
                      ......+++.+++.++....+.+.+.... ..-..+.+..|+..++|..-
T Consensus       175 ~SRc~~vef~~l~~~ei~~~L~~i~~~eg-i~I~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        175 ASRCQRFNFKRIPLDEIQSQLQMICRAEG-IQIDADALQLIARKAQGSMR  223 (620)
T ss_pred             HhhceEEecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHhCCCHH
Confidence            34456899999999998888876553111 11235678889999999544

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.22  E-value=1.3e-05  Score=84.99  Aligned_cols=175  Identities=14%  Similarity=0.116  Sum_probs=106.0

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~  163 (532)
                      -..++|.+..++.|.+++..+.. ..+.++|+.|+||||+|+.+++..--.                    .++|...++
T Consensus        15 FddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~DvlEid   94 (709)
T PRK08691         15 FADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEID   94 (709)
T ss_pred             HHHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccceEEEe
Confidence            46789999999999999887664 467999999999999999998753211                    112221122


Q ss_pred             ccC--chhhHHHHHHHH----hccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecCh-HHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRL----KKEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSL-DVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l----~~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~-~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+.+..+.+..    ..+++-++|+|++....  ..+.+...+..-...+++|++|.+. .+..........+.
T Consensus        95 aAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~  174 (709)
T PRK08691         95 AASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFV  174 (709)
T ss_pred             ccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhh
Confidence            111  111222232222    12466799999997653  2334433332223445666665443 33222222234678


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVT  280 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  280 (532)
                      +.+++.++....+.+.+.... ..-..+....|++.++|.+.-+..
T Consensus       175 f~~Ls~eeI~~~L~~Il~kEg-i~id~eAL~~Ia~~A~GslRdAln  219 (709)
T PRK08691        175 LRNMTAQQVADHLAHVLDSEK-IAYEPPALQLLGRAAAGSMRDALS  219 (709)
T ss_pred             cCCCCHHHHHHHHHHHHHHcC-CCcCHHHHHHHHHHhCCCHHHHHH
Confidence            889999999988887665221 122356788999999988754433

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=2.8e-05  Score=80.28  Aligned_cols=173  Identities=14%  Similarity=0.094  Sum_probs=108.6

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhc--------------------cCCCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAEN--------------------EKLFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~--------------------~~~F~~~~~~  163 (532)
                      -..++|-+..++.+.+.+..+... .+.++|+.|+||||+|+.+++..--                    ..+.|..-++
T Consensus        12 f~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eid   91 (491)
T PRK14964         12 FKDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEID   91 (491)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEe
Confidence            457889999998888888776654 7899999999999999999874210                    1122322233


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEee-cChHHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTA-RSLDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTt-r~~~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+.+..+.+...    .+++-++|+|++...  ...+.+...+..-...+++|++| ....+..........+.
T Consensus        92 aas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SRc~~~~  171 (491)
T PRK14964         92 AASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFD  171 (491)
T ss_pred             cccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHhheeee
Confidence            221  1122333333332    245668999999765  33555544443334456666555 44444433334456889


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      +.+++.++....+.+.+.... ..-.++....|++.++|.+-.+
T Consensus       172 f~~l~~~el~~~L~~ia~~Eg-i~i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        172 LQKIPTDKLVEHLVDIAKKEN-IEHDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             cccccHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            999999999998888765221 1122556788999998877533

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.19  E-value=4.7e-05  Score=77.23  Aligned_cols=171  Identities=18%  Similarity=0.153  Sum_probs=103.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc------CCCCEEEEecc--Cc--hhhHHH
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE------KLFDRVIFVEE--SE--SGRARS  173 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~------~~F~~~~~~~~--~~--~~~~~~  173 (532)
                      -..++|.+...+.+.+++..+.. +.+.++|+.|+||||+|..+.+.....      ..|...++...  +.  .+....
T Consensus        16 ~~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~   95 (367)
T PRK14970         16 FDDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDDIRN   95 (367)
T ss_pred             HHhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHHHHH
Confidence            45778999999999999886654 478899999999999999998764321      12222221111  11  123333


Q ss_pred             HHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeec-ChHHhhhcCCCCceEEccCCCHHHHHHH
Q 048213          174 LCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTAR-SLDVLSRKMDSQQDFWVGVLKEDEAWSL  246 (532)
Q Consensus       174 l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr-~~~v~~~~~~~~~~~~l~~L~~~~~~~L  246 (532)
                      +.+.+.    .+++-++++|++....  .++.+...+......+.+|++|. ...+..........++..++++++....
T Consensus        96 l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~l~~~  175 (367)
T PRK14970         96 LIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEH  175 (367)
T ss_pred             HHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHHHHHH
Confidence            333322    1355689999987542  34454333322233455555553 3233222223345789999999999888


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHHcCCchH
Q 048213          247 FKKMAGDYIEGSEFKWVAKDVAKKCAGLPV  276 (532)
Q Consensus       247 f~~~~~~~~~~~~~~~~~~~i~~~c~glPL  276 (532)
                      +...+.... ..-..+....++..++|-+-
T Consensus       176 l~~~~~~~g-~~i~~~al~~l~~~~~gdlr  204 (367)
T PRK14970        176 LAGIAVKEG-IKFEDDALHIIAQKADGALR  204 (367)
T ss_pred             HHHHHHHcC-CCCCHHHHHHHHHhCCCCHH
Confidence            887664211 11225678888889998654

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.18  E-value=1.2e-05  Score=76.94  Aligned_cols=130  Identities=12%  Similarity=0.111  Sum_probs=81.7

Q ss_pred             HHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchh----hHHHHHHHH-hccCcEEEEEcCCCC
Q 048213          119 LNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESG----RARSLCNRL-KKEKMILVILDNIWE  193 (532)
Q Consensus       119 ~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~----~~~~l~~~l-~~~k~~LlVlDdv~~  193 (532)
                      .+.+.++..+.+.+||++|+||||||+.+.+..+....|-.-.........    ..+.-++.. ..++|..|.+|.|..
T Consensus       154 rs~ieq~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTilFiDEiHR  233 (554)
T KOG2028|consen  154 RSLIEQNRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHR  233 (554)
T ss_pred             HHHHHcCCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHHHHHHHHHHhhhcceeEEEeHHhhh
Confidence            344446788999999999999999999999876654322111111111112    222222222 236889999999975


Q ss_pred             c--ccccccccccCCCCCCeEEEE--eecChHHh--hhcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          194 N--LDFHAVGIPHGDDHKGCKVLL--TARSLDVL--SRKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       194 ~--~~~~~l~~~~~~~~~gs~ilv--Ttr~~~v~--~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      -  .+-+.+   +|.-.+|.-++|  ||.+...-  ........++.|+.|+.++...++.+..
T Consensus       234 FNksQQD~f---LP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~rai  294 (554)
T KOG2028|consen  234 FNKSQQDTF---LPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAI  294 (554)
T ss_pred             hhhhhhhcc---cceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHH
Confidence            4  333333   444566775554  77776532  1123445689999999999999988743

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.16  E-value=6.7e-07  Score=91.78  Aligned_cols=146  Identities=29%  Similarity=0.362  Sum_probs=118.7

Q ss_pred             hHHhhhhcccccCCchhhhccc-cccEEEeccccccCc-ccccccccccEEeecccccccc-----ccCCcceEEecccc
Q 048213          371 RVVIDLTYMNLLSLPSSLGLLT-NLQTLCLYYCKLQDT-SVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLR  443 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~~~~l~-~L~~L~l~~~~l~~~-~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~  443 (532)
                      ...+++.++.+..+|+....+. +|+.|++++|.+... ..+..+++|+.|++++|++..+     ..+.|+.|++++|+
T Consensus       118 l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~ls~N~  197 (394)
T COG4886         118 LTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNK  197 (394)
T ss_pred             eeEEecCCcccccCccccccchhhcccccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhheeccCCc
Confidence            4567888889999999888885 999999999999985 6899999999999999998887     46789999999998


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCc
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPV  523 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~  523 (532)
                      +  ...|.......+|++|.+++|.+...+...     .++.++..|.+.+ +.+..+ +..+ +.+++|++|+++++. 
T Consensus       198 i--~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~-----~~~~~l~~l~l~~-n~~~~~-~~~~-~~l~~l~~L~~s~n~-  266 (394)
T COG4886         198 I--SDLPPEIELLSALEELDLSNNSIIELLSSL-----SNLKNLSGLELSN-NKLEDL-PESI-GNLSNLETLDLSNNQ-  266 (394)
T ss_pred             c--ccCchhhhhhhhhhhhhhcCCcceecchhh-----hhcccccccccCC-ceeeec-cchh-ccccccceecccccc-
Confidence            6  666666666677999999999766666666     6788898888764 556665 5555 789999999999763 


Q ss_pred             cccc
Q 048213          524 LKEI  527 (532)
Q Consensus       524 L~~i  527 (532)
                      ++++
T Consensus       267 i~~i  270 (394)
T COG4886         267 ISSI  270 (394)
T ss_pred             cccc
Confidence            4443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=0.00032  Score=74.17  Aligned_cols=180  Identities=16%  Similarity=0.092  Sum_probs=110.6

Q ss_pred             ccccccchHHHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhccC--------------------CCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENEK--------------------LFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~~~~~  163 (532)
                      -..++|-+..++.|.+.+..+. ...+.++|+.|+||||+|+.+++..--..                    |.|...++
T Consensus        15 f~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpDv~eId   94 (624)
T PRK14959         15 FAEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVDVVEID   94 (624)
T ss_pred             HHHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCceEEEe
Confidence            4567898888888888887665 46788899999999999999987653211                    11121121


Q ss_pred             cc--CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEE
Q 048213          164 EE--SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~  234 (532)
                      ..  ...+.+..+.+.+.    .+++-++|+|+++..  ..++.|...+..-.....+|++|.. ..+..........+.
T Consensus        95 ~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~i~  174 (624)
T PRK14959         95 GASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFT  174 (624)
T ss_pred             cccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhccc
Confidence            11  11122333433332    246679999999765  3345554444322234555555544 444322223335789


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc-hHHHHHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL-PVSIVTVARAL  285 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~~~~l  285 (532)
                      +.+++.++....+...+.... ..-..+.+..|++.++|. -.|+..+...+
T Consensus       175 F~pLs~~eL~~~L~~il~~eg-i~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        175 FTRLSEAGLEAHLTKVLGREG-VDYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             cCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            999999999988887654211 112356788899999995 46777766544

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.16  E-value=6e-05  Score=80.94  Aligned_cols=181  Identities=18%  Similarity=0.185  Sum_probs=94.4

Q ss_pred             ccccccchHHHHHHHHHhc-----CCCceEEEEEccCCCchHHHHHHHHHHhhcc---C---CCCEEEEec---cCc---
Q 048213          105 YEAFESRMSTFNDILNALK-----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENE---K---LFDRVIFVE---ESE---  167 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~-----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~---~F~~~~~~~---~~~---  167 (532)
                      +..+.||++++++|...|.     .+...++.|+|++|.|||++++.|.+.....   .   .|..+....   ...   
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            4568899999999998876     2233577899999999999999998765321   1   132222111   001   


Q ss_pred             -------------------hhhHHHHHHHHhc--cCcEEEEEcCCCCccc--ccccccccC-CCCCCeEEEE--eecChH
Q 048213          168 -------------------SGRARSLCNRLKK--EKMILVILDNIWENLD--FHAVGIPHG-DDHKGCKVLL--TARSLD  221 (532)
Q Consensus       168 -------------------~~~~~~l~~~l~~--~k~~LlVlDdv~~~~~--~~~l~~~~~-~~~~gs~ilv--Ttr~~~  221 (532)
                                         ......++..+..  +...+||||+++....  -+.|..-+. ....+++|++  .|....
T Consensus       834 YqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdlD  913 (1164)
T PTZ00112        834 YQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTMD  913 (1164)
T ss_pred             HHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCchh
Confidence                               1122333333321  2235899999985521  011110010 1123445443  333222


Q ss_pred             Hh----hhcCC--CCceEEccCCCHHHHHHHHHHHhCCC---CCCcchHHHHHHHHHHcCCchHHHHHHHHHH
Q 048213          222 VL----SRKMD--SQQDFWVGVLKEDEAWSLFKKMAGDY---IEGSEFKWVAKDVAKKCAGLPVSIVTVARAL  285 (532)
Q Consensus       222 v~----~~~~~--~~~~~~l~~L~~~~~~~Lf~~~~~~~---~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  285 (532)
                      ..    .....  ....+...|.+.++-.+++...+...   .....++-+|+.++...|-.-.||.++-.+.
T Consensus       914 LperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        914 LPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             cchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence            11    10100  11236679999999999999887521   1111122223333333344556665555444

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.14  E-value=2.7e-05  Score=77.28  Aligned_cols=142  Identities=15%  Similarity=0.087  Sum_probs=83.1

Q ss_pred             cccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccC-chhh-HHHHHHHHh-
Q 048213          104 DYEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEES-ESGR-ARSLCNRLK-  179 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~-~~~~-~~~l~~~l~-  179 (532)
                      .-..++|.++..+.+..++..+.. .++.++|++|+|||++|+.+++.....  |  ..+.... ..+. ...+.+... 
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~~~~--~--~~i~~~~~~~~~i~~~l~~~~~~   94 (316)
T PHA02544         19 TIDECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEVGAE--V--LFVNGSDCRIDFVRNRLTRFAST   94 (316)
T ss_pred             cHHHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCcc--c--eEeccCcccHHHHHHHHHHHHHh
Confidence            356788999999999998886654 566669999999999999998865311  2  1111111 1111 111222211 


Q ss_pred             ---ccCcEEEEEcCCCCc---ccccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEEccCCCHHHHHHHHHH
Q 048213          180 ---KEKMILVILDNIWEN---LDFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFWVGVLKEDEAWSLFKK  249 (532)
Q Consensus       180 ---~~k~~LlVlDdv~~~---~~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~l~~L~~~~~~~Lf~~  249 (532)
                         .+.+-++|+||+...   +..+.+...+.....++++|+||...... .........+.+...+.++..+++..
T Consensus        95 ~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544         95 VSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             hcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHHHHHH
Confidence               124568999999755   11222322232234567888888754322 11122234677777788777766543

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.14  E-value=1.9e-05  Score=75.95  Aligned_cols=147  Identities=13%  Similarity=0.047  Sum_probs=78.3

Q ss_pred             cccccchHHHHHHHHH---hc------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccC----
Q 048213          106 EAFESRMSTFNDILNA---LK------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEES----  166 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~---l~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~----  166 (532)
                      ..++|.+..+++|.+.   ..            .+....+.++|++|+||||+|+.+++.......-....+...+    
T Consensus         6 ~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~l   85 (261)
T TIGR02881         6 SRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERADL   85 (261)
T ss_pred             HHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHHh
Confidence            4577877776665433   21            1234567899999999999999998764211100000000000    


Q ss_pred             ----chhhHHHHHHHHhccCcEEEEEcCCCCcc----------cccccccccCCCCCCeEEEEeecChHHh------hhc
Q 048213          167 ----ESGRARSLCNRLKKEKMILVILDNIWENL----------DFHAVGIPHGDDHKGCKVLLTARSLDVL------SRK  226 (532)
Q Consensus       167 ----~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------~~~~l~~~~~~~~~gs~ilvTtr~~~v~------~~~  226 (532)
                          ..+....+.+.+......+|++|+++...          ..+.+...+........+++++.....-      ...
T Consensus        86 ~~~~~g~~~~~~~~~~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L  165 (261)
T TIGR02881        86 VGEYIGHTAQKTREVIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGL  165 (261)
T ss_pred             hhhhccchHHHHHHHHHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHH
Confidence                11112333333432234689999997532          2233333332333334555555432210      001


Q ss_pred             -CCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          227 -MDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       227 -~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                       ......+.+++++.++-.+++.+.+.
T Consensus       166 ~sRf~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       166 RSRFPISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             HhccceEEEECCCCHHHHHHHHHHHHH
Confidence             11134688899999999999887764

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.13  E-value=2.4e-05  Score=82.12  Aligned_cols=178  Identities=16%  Similarity=0.094  Sum_probs=106.9

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccC--------------------CCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEK--------------------LFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~~~~~  163 (532)
                      -..++|++..++.+.+++..+.. +.+.++|+.|+||||+|+.+++...-..                    +.|....+
T Consensus        15 F~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h~DiieId   94 (605)
T PRK05896         15 FKQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDIVELD   94 (605)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCCCceEEec
Confidence            45788999999999998876544 5788999999999999999987643211                    11211122


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEE-eecChHHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLL-TARSLDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilv-Ttr~~~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+.++.+.+...    .+++-++|+|+++..  ..++.+...+..-...+.+|+ |+....+..........+.
T Consensus        95 aas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRcq~ie  174 (605)
T PRK05896         95 AASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYN  174 (605)
T ss_pred             cccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhhhhcc
Confidence            111  1112333333322    134457999999764  345555444332233455554 4444344322233345889


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH-HHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV-SIVTVAR  283 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~  283 (532)
                      +.++++++....+...+.... ..-..+.+..+++.++|.+- |+..+-.
T Consensus       175 F~~Ls~~eL~~~L~~il~keg-i~Is~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        175 FKKLNNSELQELLKSIAKKEK-IKIEDNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             cCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            999999999988887654211 11125567889999999654 4444443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.13  E-value=1.7e-05  Score=88.09  Aligned_cols=170  Identities=11%  Similarity=0.075  Sum_probs=99.8

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCC----CCEEEE--ec-------cCch---
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKL----FDRVIF--VE-------ESES---  168 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~~--~~-------~~~~---  168 (532)
                      ...++||+.++.++++.|......-+.++|++|+||||+|..+++.......    .+..++  +.       ....   
T Consensus       186 ld~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge~e  265 (852)
T TIGR03345       186 IDPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGEFE  265 (852)
T ss_pred             CCcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchHHH
Confidence            4578999999999999988766677789999999999999999987532211    111111  00       0111   


Q ss_pred             hhHHHHHHHHh-ccCcEEEEEcCCCCcc-------ccc--ccccccCCCCCCeEEEEeecChHH----h--hhcCCCCce
Q 048213          169 GRARSLCNRLK-KEKMILVILDNIWENL-------DFH--AVGIPHGDDHKGCKVLLTARSLDV----L--SRKMDSQQD  232 (532)
Q Consensus       169 ~~~~~l~~~l~-~~k~~LlVlDdv~~~~-------~~~--~l~~~~~~~~~gs~ilvTtr~~~v----~--~~~~~~~~~  232 (532)
                      .....+.+.+. .+++++|++|++....       .-+  .+..|....+ .-++|-||.....    .  .........
T Consensus       266 ~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G-~l~~IgaTT~~e~~~~~~~d~AL~rRf~~  344 (852)
T TIGR03345       266 NRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALARG-ELRTIAATTWAEYKKYFEKDPALTRRFQV  344 (852)
T ss_pred             HHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhCC-CeEEEEecCHHHHhhhhhccHHHHHhCeE
Confidence            23333334333 2468999999987542       111  1222222222 2455555554321    0  111223458


Q ss_pred             EEccCCCHHHHHHHHHHHhC--C-CCCCcchHHHHHHHHHHcCCch
Q 048213          233 FWVGVLKEDEAWSLFKKMAG--D-YIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       233 ~~l~~L~~~~~~~Lf~~~~~--~-~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      +.+++++.++..+++.....  . .....-..+....++..+.+..
T Consensus       345 i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi  390 (852)
T TIGR03345       345 VKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYI  390 (852)
T ss_pred             EEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccccc
Confidence            99999999999999765442  1 1111223556667777776543

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=98.12  E-value=6.8e-07  Score=87.43  Aligned_cols=156  Identities=22%  Similarity=0.176  Sum_probs=105.0

Q ss_pred             HHHHHhhHHhhhhcccccCCchh--hhccccccEEEeccccccC---cccccccccccEEeecccccccc------ccCC
Q 048213          365 MEVARARVVIDLTYMNLLSLPSS--LGLLTNLQTLCLYYCKLQD---TSVLGELKILEILRLRVNELTRA------GSSQ  433 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~lp~~--~~~l~~L~~L~l~~~~l~~---~~~i~~l~~L~~L~l~~~~l~~~------~l~~  433 (532)
                      .+.+.....|+++.|.+....++  -..+++|+.|.+++|.+..   ......+|+|+.|.+.+|+.-..      -+..
T Consensus       168 ~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~  247 (505)
T KOG3207|consen  168 AEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQT  247 (505)
T ss_pred             HHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhH
Confidence            34444456778888876442222  2367888999999998876   33456789999999999852211      4678


Q ss_pred             cceEEeccccccCCCCCcccccCCCCCEEecCCcccccc--cccccccccccCCCccEEEeccCCCCCccchhhhhhcCC
Q 048213          434 LKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERI--WQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFV  511 (532)
Q Consensus       434 Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~l--p~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~  511 (532)
                      |+.|+|++|++.........+.|+.|+-|+++.|.|..+  |+.-...-.-.+++|++|++..+ ++..++...-+..++
T Consensus       248 L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N-~I~~w~sl~~l~~l~  326 (505)
T KOG3207|consen  248 LQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISEN-NIRDWRSLNHLRTLE  326 (505)
T ss_pred             HhhccccCCcccccccccccccccchhhhhccccCcchhcCCCccchhhhcccccceeeecccC-ccccccccchhhccc
Confidence            999999999872233345678999999999999977753  33310001124699999999974 455553333235678


Q ss_pred             CccEEEeecC
Q 048213          512 GLQCLEICEC  521 (532)
Q Consensus       512 ~L~~L~l~~c  521 (532)
                      +|+.|.+...
T Consensus       327 nlk~l~~~~n  336 (505)
T KOG3207|consen  327 NLKHLRITLN  336 (505)
T ss_pred             hhhhhhcccc
Confidence            8888876543

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=98.12  E-value=1.9e-05  Score=74.27  Aligned_cols=179  Identities=20%  Similarity=0.138  Sum_probs=115.1

Q ss_pred             cccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec-----cCchhhHHHHH-
Q 048213          102 NKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE-----ESESGRARSLC-  175 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~-----~~~~~~~~~l~-  175 (532)
                      +.....++|-+..+.-+.+.+.....+....+|++|.|||+-|..+++..--.+.|.+++...     ....-...+++ 
T Consensus        32 Pkt~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Kik~  111 (346)
T KOG0989|consen   32 PKTFDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKIKN  111 (346)
T ss_pred             CCcHHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhhcC
Confidence            344567889999999999999888889999999999999999999988776667788887211     11111111111 


Q ss_pred             -HHHhc---------cCc-EEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHH
Q 048213          176 -NRLKK---------EKM-ILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKED  241 (532)
Q Consensus       176 -~~l~~---------~k~-~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~  241 (532)
                       .++..         -+. -.+|||+++..  +.|.++...+......++.+..+.... +.......-.-+..++|.++
T Consensus       112 fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~d~  191 (346)
T KOG0989|consen  112 FAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLKDE  191 (346)
T ss_pred             HHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCCCcchH
Confidence             11110         122 37899999876  678888666655555566554444433 22111122235788899999


Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc-hHHHHHH
Q 048213          242 EAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL-PVSIVTV  281 (532)
Q Consensus       242 ~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~  281 (532)
                      +...-+...+-.... .-..+..+.|++.++|- --|+.++
T Consensus       192 ~iv~rL~~Ia~~E~v-~~d~~al~~I~~~S~GdLR~Ait~L  231 (346)
T KOG0989|consen  192 DIVDRLEKIASKEGV-DIDDDALKLIAKISDGDLRRAITTL  231 (346)
T ss_pred             HHHHHHHHHHHHhCC-CCCHHHHHHHHHHcCCcHHHHHHHH
Confidence            988888887752221 22256678889998884 3444433

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=98.10  E-value=2.3e-05  Score=86.37  Aligned_cols=145  Identities=14%  Similarity=0.161  Sum_probs=87.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC---CC-CEEEEecc------------Cch
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK---LF-DRVIFVEE------------SES  168 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~---~F-~~~~~~~~------------~~~  168 (532)
                      ...++||+++++++++.|......-+.++|++|+|||++|..+++......   .+ +..++...            ...
T Consensus       181 l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~~~~g~~e  260 (731)
T TIGR02639       181 IDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGTKYRGDFE  260 (731)
T ss_pred             CCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhccccchHH
Confidence            357899999999999988866666788999999999999999998753221   01 11221100            111


Q ss_pred             hhHHHHHHHHhccCcEEEEEcCCCCcc-----------cccccccccCCCCCCeEEEEeecChHH----h--hhcCCCCc
Q 048213          169 GRARSLCNRLKKEKMILVILDNIWENL-----------DFHAVGIPHGDDHKGCKVLLTARSLDV----L--SRKMDSQQ  231 (532)
Q Consensus       169 ~~~~~l~~~l~~~k~~LlVlDdv~~~~-----------~~~~l~~~~~~~~~gs~ilvTtr~~~v----~--~~~~~~~~  231 (532)
                      .....+.+.+...++.+|++|+++...           .-+.++..+ ..+ .-++|-+|.....    .  ........
T Consensus       261 ~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l-~~g-~i~~IgaTt~~e~~~~~~~d~al~rRf~  338 (731)
T TIGR02639       261 ERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPAL-SSG-KLRCIGSTTYEEYKNHFEKDRALSRRFQ  338 (731)
T ss_pred             HHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHH-hCC-CeEEEEecCHHHHHHHhhhhHHHHHhCc
Confidence            233444444443467999999987431           111222222 222 2344444443211    0  11112235


Q ss_pred             eEEccCCCHHHHHHHHHHHh
Q 048213          232 DFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       232 ~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      .+.+++++.++..+++....
T Consensus       339 ~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       339 KIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             eEEeCCCCHHHHHHHHHHHH
Confidence            78999999999999998654

>PLN03150 hypothetical protein; Provisional

Probab=98.10  E-value=5.7e-06  Score=89.42  Aligned_cols=102  Identities=17%  Similarity=0.140  Sum_probs=77.4

Q ss_pred             ccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCCCCEEecC
Q 048213          394 LQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLS  465 (532)
Q Consensus       394 L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~  465 (532)
                      +..|+|++|.+..  +..++++++|+.|+|++|.+.+.      .+++|+.|+|++|++ ....|..++++++|++|+|+
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~l-sg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSF-NGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCC-CCCCchHHhcCCCCCEEECc
Confidence            6677888887766  56788888888888888877643      677888888888877 66778888999999999999


Q ss_pred             Ccccc-ccccccccccccc-CCCccEEEeccCCCCCcc
Q 048213          466 SINIE-RIWQNQVAAMSCG-IQNLKRLILFNCWNLTCL  501 (532)
Q Consensus       466 ~~~l~-~lp~~~~~~~~~~-L~~L~~L~L~~c~~l~~l  501 (532)
                      +|+++ .+|..+     .. +.++..+++.+++.+...
T Consensus       499 ~N~l~g~iP~~l-----~~~~~~~~~l~~~~N~~lc~~  531 (623)
T PLN03150        499 GNSLSGRVPAAL-----GGRLLHRASFNFTDNAGLCGI  531 (623)
T ss_pred             CCcccccCChHH-----hhccccCceEEecCCccccCC
Confidence            99776 566654     32 346778888876655544

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.09  E-value=5.7e-05  Score=71.08  Aligned_cols=168  Identities=10%  Similarity=0.010  Sum_probs=93.8

Q ss_pred             cchHHH-HHHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccCcEEEE
Q 048213          110 SRMSTF-NDILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVI  187 (532)
Q Consensus       110 gR~~~~-~~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlV  187 (532)
                      |..... ..+.++.. ....+.+.|+|..|+|||+||..+++....+ .....+........   .+ ....  ..-+||
T Consensus        23 ~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~-~~~~~~i~~~~~~~---~~-~~~~--~~~~li   95 (227)
T PRK08903         23 GENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYG-GRNARYLDAASPLL---AF-DFDP--EAELYA   95 (227)
T ss_pred             CCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhC-CCcEEEEehHHhHH---HH-hhcc--cCCEEE
Confidence            443333 33334333 2345688999999999999999999875332 23333322222111   11 1122  335799


Q ss_pred             EcCCCCccccc--ccccccCC-CCCCe-EEEEeecChHHhhh-------cCCCCceEEccCCCHHHHHHHHHHHhCCCCC
Q 048213          188 LDNIWENLDFH--AVGIPHGD-DHKGC-KVLLTARSLDVLSR-------KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIE  256 (532)
Q Consensus       188 lDdv~~~~~~~--~l~~~~~~-~~~gs-~ilvTtr~~~v~~~-------~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~  256 (532)
                      +||+.....+.  .+...+.. ...+. .+|+|++.......       .......+.+.++++++-..++.+.+.... 
T Consensus        96 iDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~-  174 (227)
T PRK08903         96 VDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAAAERG-  174 (227)
T ss_pred             EeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHHHcC-
Confidence            99997543222  22222211 12333 36666664332110       112236889999999887777766443111 


Q ss_pred             CcchHHHHHHHHHHcCCchHHHHHHHHHH
Q 048213          257 GSEFKWVAKDVAKKCAGLPVSIVTVARAL  285 (532)
Q Consensus       257 ~~~~~~~~~~i~~~c~glPLai~~~~~~l  285 (532)
                      ..--++....+++.+.|.+..+..+-..+
T Consensus       175 v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        175 LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            22235678888888999998877666554

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.09  E-value=8.6e-05  Score=81.75  Aligned_cols=173  Identities=14%  Similarity=0.087  Sum_probs=108.2

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhcc----------------------CCCCEEE
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAENE----------------------KLFDRVI  161 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~----------------------~~F~~~~  161 (532)
                      -..++|.+..++.|.+++..+.+. .+.++|+.|+||||+|+.+++...-.                      .+++...
T Consensus        14 f~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~dv~e   93 (824)
T PRK07764         14 FAEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSLDVTE   93 (824)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCCcEEE
Confidence            457889999999999998876654 57899999999999999998875321                      1223222


Q ss_pred             EeccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEee-cChHHhhhcCCCCce
Q 048213          162 FVEES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTA-RSLDVLSRKMDSQQD  232 (532)
Q Consensus       162 ~~~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTt-r~~~v~~~~~~~~~~  232 (532)
                      ++..+  ..+.+..+.+.+.    .++.-++|||+++..  ..++.|...+..-...+.+|++| ....+..........
T Consensus        94 idaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrSRc~~  173 (824)
T PRK07764         94 IDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRTHH  173 (824)
T ss_pred             ecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhheeE
Confidence            22211  1222333433322    245568899999865  34555544444334455555544 444444333334568


Q ss_pred             EEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          233 FWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       233 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      |.+..++.++..+.+.+.+.... ..-..+....|++.++|-+..+
T Consensus       174 v~F~~l~~~~l~~~L~~il~~EG-v~id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        174 YPFRLVPPEVMRGYLERICAQEG-VPVEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             EEeeCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            99999999998888877653211 1122455678899999977433

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.09  E-value=4.8e-05  Score=79.67  Aligned_cols=173  Identities=14%  Similarity=0.121  Sum_probs=104.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhcc-------------------CCCCEEE-Ee
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAENE-------------------KLFDRVI-FV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~-~~  163 (532)
                      -..++|-+..++.|.+++..+... .+.++|+.|+||||+|+.+++..--.                   +.|...+ .+
T Consensus        15 f~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eid   94 (509)
T PRK14958         15 FQEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVD   94 (509)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEc
Confidence            457889999999999999876654 56899999999999999998864321                   1122222 22


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+....+.+.+.    .++.-++|+|+++..  ...+.+...+..-...+++|++|.+ ..+..........+.
T Consensus        95 aas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~~~  174 (509)
T PRK14958         95 AASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFH  174 (509)
T ss_pred             ccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhhhh
Confidence            111  1112222333222    246678999999865  3455554444333345666655543 333322222335788


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      +.+++.++....+...+.... ..-..+....|++.++|-+.-+
T Consensus       175 f~~l~~~~i~~~l~~il~~eg-i~~~~~al~~ia~~s~GslR~a  217 (509)
T PRK14958        175 LAQLPPLQIAAHCQHLLKEEN-VEFENAALDLLARAANGSVRDA  217 (509)
T ss_pred             cCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCcHHHH
Confidence            999999887776665543111 1122455778888999877544

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.08  E-value=4.1e-07  Score=84.66  Aligned_cols=62  Identities=19%  Similarity=0.308  Sum_probs=37.7

Q ss_pred             ccCCCCCEEecCCc-ccccccccccccccccCCCccEEEeccCCCCCccchhhh--hhcCCCccEEEeecCC
Q 048213          454 VALPKLETVCLSSI-NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSI--ISSFVGLQCLEICECP  522 (532)
Q Consensus       454 ~~l~~L~~L~L~~~-~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~--~~~L~~L~~L~l~~c~  522 (532)
                      ...|+|..|||+.| .++.  ..+  ...++++.|++|.|+.|+.+.   |..+  ++..|+|.||++-+|-
T Consensus       310 ~rcp~l~~LDLSD~v~l~~--~~~--~~~~kf~~L~~lSlsRCY~i~---p~~~~~l~s~psl~yLdv~g~v  374 (419)
T KOG2120|consen  310 RRCPNLVHLDLSDSVMLKN--DCF--QEFFKFNYLQHLSLSRCYDII---PETLLELNSKPSLVYLDVFGCV  374 (419)
T ss_pred             HhCCceeeeccccccccCc--hHH--HHHHhcchheeeehhhhcCCC---hHHeeeeccCcceEEEEecccc
Confidence            34577777888777 3331  111  111567788888888887643   3322  2567788888887773

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.07  E-value=4.8e-05  Score=80.19  Aligned_cols=176  Identities=15%  Similarity=0.135  Sum_probs=106.0

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhcc-------------------CCCCEEE-Ee
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAENE-------------------KLFDRVI-FV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~-~~  163 (532)
                      -..++|-+..++.+.+++..+... .+.++|+.|+||||+|+.+++..--.                   +.|...+ .+
T Consensus        15 f~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~ei~   94 (527)
T PRK14969         15 FSELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLIEVD   94 (527)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCceeEee
Confidence            456889999999999988876654 56899999999999999998764321                   1121221 11


Q ss_pred             cc--CchhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEE
Q 048213          164 EE--SESGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~  234 (532)
                      ..  ...+.+..+.+...    .+++-++|+|+++...  ..+.+...+..-...+.+|++|.+ ..+..........+.
T Consensus        95 ~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SRc~~~~  174 (527)
T PRK14969         95 AASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFN  174 (527)
T ss_pred             ccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHHHHHHh
Confidence            11  11122233333332    2466799999998653  344444444333345555555544 333211112235788


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH-HHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV-SIVTV  281 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  281 (532)
                      +.+++.++..+.+.+.+.... ....++....|++.++|.+- |+..+
T Consensus       175 f~~l~~~~i~~~L~~il~~eg-i~~~~~al~~la~~s~Gslr~al~ll  221 (527)
T PRK14969        175 LKQMPPPLIVSHLQHILEQEN-IPFDATALQLLARAAAGSMRDALSLL  221 (527)
T ss_pred             cCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999998888877653111 12235567889999999764 44443

>PRK05642 DNA replication initiation factor; Validated

Probab=98.06  E-value=0.00011  Score=69.25  Aligned_cols=152  Identities=13%  Similarity=0.092  Sum_probs=88.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccCcEEEEEcCCCCc---ccccc-ccc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWEN---LDFHA-VGI  202 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~---~~~~~-l~~  202 (532)
                      ...+.|+|..|+|||.|++++++....+. -................+.+.+.+ - =+||+||+...   ..|+. +..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~-~~v~y~~~~~~~~~~~~~~~~~~~-~-d~LiiDDi~~~~~~~~~~~~Lf~  121 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRG-EPAVYLPLAELLDRGPELLDNLEQ-Y-ELVCLDDLDVIAGKADWEEALFH  121 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEeeHHHHHhhhHHHHHhhhh-C-CEEEEechhhhcCChHHHHHHHH
Confidence            36789999999999999999987654322 222222221111112344444542 2 26889999743   34443 222


Q ss_pred             ccCC-CCCCeEEEEeecChHHhhhc--------CCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCC
Q 048213          203 PHGD-DHKGCKVLLTARSLDVLSRK--------MDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAG  273 (532)
Q Consensus       203 ~~~~-~~~gs~ilvTtr~~~v~~~~--------~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~g  273 (532)
                      .+.. ..+|..+|+|++.....-..        .....++.+++++.++-.+++.+++.... ..--+++..-|++.+.|
T Consensus       122 l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~-~~l~~ev~~~L~~~~~~  200 (234)
T PRK05642        122 LFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRG-LHLTDEVGHFILTRGTR  200 (234)
T ss_pred             HHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhcCC
Confidence            2211 13466788888764432101        12235788999999999999986654221 12225777788888877


Q ss_pred             chHHHHHHH
Q 048213          274 LPVSIVTVA  282 (532)
Q Consensus       274 lPLai~~~~  282 (532)
                      -.-++..+-
T Consensus       201 d~r~l~~~l  209 (234)
T PRK05642        201 SMSALFDLL  209 (234)
T ss_pred             CHHHHHHHH
Confidence            655544443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.05  E-value=7.2e-05  Score=72.64  Aligned_cols=124  Identities=15%  Similarity=0.005  Sum_probs=67.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhh--------HHHHHHHHhccCcEEEEEcCCCCc------
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGR--------ARSLCNRLKKEKMILVILDNIWEN------  194 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~--------~~~l~~~l~~~k~~LlVlDdv~~~------  194 (532)
                      -+.++|++|+|||++|+.++.............+...+..+.        ...+.+.+.....-+|+||++...      
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~~~~~g~~~~~~~~~~~~a~~gvL~iDEi~~L~~~~~~  139 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEILKRAMGGVLFIDEAYYLYRPDNE  139 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHhHhhcccchHHHHHHHHHccCcEEEEechhhhccCCCc
Confidence            588999999999999988776543221111000111000111        122233333224468999999732      


Q ss_pred             -----ccccccccccCCCCCCeEEEEeecChHHhhhc-------CCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          195 -----LDFHAVGIPHGDDHKGCKVLLTARSLDVLSRK-------MDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       195 -----~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~~-------~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                           +.++.+...+.....+.+||+++.....-...       ......+.+++++.+|-.+++...+-
T Consensus       140 ~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~  209 (284)
T TIGR02880       140 RDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLK  209 (284)
T ss_pred             cchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHH
Confidence                 11233333333334566777776543221100       11135789999999999999887764

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=98.05  E-value=8.5e-05  Score=75.31  Aligned_cols=168  Identities=16%  Similarity=0.199  Sum_probs=96.1

Q ss_pred             ccccccccchHHHHHHHHHhc----C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eec--
Q 048213          103 KDYEAFESRMSTFNDILNALK----S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVE--  164 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~----~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~--  164 (532)
                      .....+.|.+..+++|.+.+.    .         ...+-+.++|++|+|||++|+++++.....  |-...   +..  
T Consensus       142 v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~--fi~i~~s~l~~k~  219 (398)
T PTZ00454        142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAT--FIRVVGSEFVQKY  219 (398)
T ss_pred             CCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC--EEEEehHHHHHHh
Confidence            334567788888877776553    1         245789999999999999999999875433  32221   000  


Q ss_pred             -cCchhhHHHHHHHHhccCcEEEEEcCCCCcc------------c----ccccccccC--CCCCCeEEEEeecChHHhh-
Q 048213          165 -ESESGRARSLCNRLKKEKMILVILDNIWENL------------D----FHAVGIPHG--DDHKGCKVLLTARSLDVLS-  224 (532)
Q Consensus       165 -~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~~~~~--~~~~gs~ilvTtr~~~v~~-  224 (532)
                       .........+..........+|++|+++...            .    +..+...+.  ....+..||.||....... 
T Consensus       220 ~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDp  299 (398)
T PTZ00454        220 LGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDP  299 (398)
T ss_pred             cchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCH
Confidence             0111223334444444578999999987421            0    111111111  1124567888887655432 


Q ss_pred             hcCC---CCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          225 RKMD---SQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       225 ~~~~---~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      ....   -...+.+...+.++..++|..+........+.  ...++++.+.|+
T Consensus       300 AllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dv--d~~~la~~t~g~  350 (398)
T PTZ00454        300 ALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEV--DLEDFVSRPEKI  350 (398)
T ss_pred             HHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCccc--CHHHHHHHcCCC
Confidence            1222   23468888888888888888766432211111  134566666555

>CHL00181 cbbX CbbX; Provisional

Probab=98.04  E-value=9.2e-05  Score=71.87  Aligned_cols=125  Identities=13%  Similarity=0.001  Sum_probs=68.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhh--------HHHHHHHHhccCcEEEEEcCCCCc-----
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGR--------ARSLCNRLKKEKMILVILDNIWEN-----  194 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~--------~~~l~~~l~~~k~~LlVlDdv~~~-----  194 (532)
                      ..+.++|++|+||||+|+.+++.......-...-+...+..+.        .......+.....-+|++|++...     
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~l~~a~ggVLfIDE~~~l~~~~~  139 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLVGQYIGHTAPKTKEVLKKAMGGVLFIDEAYYLYKPDN  139 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHHHHHhccchHHHHHHHHHccCCEEEEEccchhccCCC
Confidence            4578999999999999999987643211110000111111111        112223333223469999999752     


Q ss_pred             ------ccccccccccCCCCCCeEEEEeecChHHhh-------hcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          195 ------LDFHAVGIPHGDDHKGCKVLLTARSLDVLS-------RKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       195 ------~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~-------~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                            +..+.+...+.....+.+||+++.......       -.......+..++++.++..+++...+.
T Consensus       140 ~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~  210 (287)
T CHL00181        140 ERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLE  210 (287)
T ss_pred             ccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHH
Confidence                  112223333333344567777775433210       0112235788999999999988887764

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.03  E-value=0.00015  Score=77.71  Aligned_cols=173  Identities=16%  Similarity=0.125  Sum_probs=110.2

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhh---------------------ccCCCCEEEE
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAE---------------------NEKLFDRVIF  162 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~---------------------~~~~F~~~~~  162 (532)
                      -..++|.+..++.|.+++..+... .+.++|+.|+||||+|+.++....                     ...+|+...+
T Consensus        16 f~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~~~l   95 (614)
T PRK14971         16 FESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNIHEL   95 (614)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCceEEe
Confidence            457889999999999999876654 578999999999999999887542                     1234555544


Q ss_pred             eccCc--hhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEE-eecChHHhhhcCCCCceE
Q 048213          163 VEESE--SGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLL-TARSLDVLSRKMDSQQDF  233 (532)
Q Consensus       163 ~~~~~--~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilv-Ttr~~~v~~~~~~~~~~~  233 (532)
                      +..+.  .+.+..+.+.+.    .+++-++|+|++...  ..++.+...+..-..++.+|+ |+....+.........++
T Consensus        96 d~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv  175 (614)
T PRK14971         96 DAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIF  175 (614)
T ss_pred             cccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhhhhee
Confidence            33221  122333333222    245568899998765  345555444433334555554 544444443333445689


Q ss_pred             EccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          234 WVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       234 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      ++.+++.++....+.+.+.... ..-..+.+..|+..++|-.--+
T Consensus       176 ~f~~ls~~ei~~~L~~ia~~eg-i~i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        176 DFNRIQVADIVNHLQYVASKEG-ITAEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             ecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            9999999999988887664221 1222456788999999966433

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.03  E-value=0.00018  Score=74.48  Aligned_cols=176  Identities=14%  Similarity=0.091  Sum_probs=107.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc---------------------CCCCEEEE
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE---------------------KLFDRVIF  162 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------~~F~~~~~  162 (532)
                      -..++|.+..++.+.+++..+.. ..+.++|+.|+||||+|..+++..--.                     .+++...+
T Consensus        16 ~~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d~~~i   95 (451)
T PRK06305         16 FSEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLDVLEI   95 (451)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCceEEe
Confidence            45788999999999999887665 567899999999999999998754321                     12332223


Q ss_pred             eccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceE
Q 048213          163 VEES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDF  233 (532)
Q Consensus       163 ~~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~  233 (532)
                      +..+  ..+.+..+.+.+.    .+++-++|+|+++..  ...+.+...+..-..++.+|++|.. ..+..........+
T Consensus        96 ~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~sRc~~v  175 (451)
T PRK06305         96 DGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKM  175 (451)
T ss_pred             eccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHHhceEE
Confidence            2211  1223334444443    145678999998754  2334443333332335556655543 33322222334578


Q ss_pred             EccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch-HHHHHH
Q 048213          234 WVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP-VSIVTV  281 (532)
Q Consensus       234 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~  281 (532)
                      .+.++++++....+.+.+.... ..-..+.+..|+..++|.+ .|+..+
T Consensus       176 ~f~~l~~~el~~~L~~~~~~eg-~~i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        176 HLKRIPEETIIDKLALIAKQEG-IETSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             eCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            9999999998888877653211 1123567888999999965 444443

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=98.01  E-value=0.0001  Score=75.36  Aligned_cols=165  Identities=16%  Similarity=0.145  Sum_probs=94.8

Q ss_pred             cccccchHHHHHHHHHhc----C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec------cC
Q 048213          106 EAFESRMSTFNDILNALK----S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE------ES  166 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~----~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~------~~  166 (532)
                      ..+.|.+..+++|.+.+.    .         ...+-+.++|++|+|||++|+++++.....  |-......      ..
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~--fi~V~~seL~~k~~Ge  260 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSAT--FLRVVGSELIQKYLGD  260 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCC--EEEEecchhhhhhcch
Confidence            456788888888877663    1         234678899999999999999999975432  42221000      00


Q ss_pred             chhhHHHHHHHHhccCcEEEEEcCCCCccc----------------ccccccccC--CCCCCeEEEEeecChHHhhhc-C
Q 048213          167 ESGRARSLCNRLKKEKMILVILDNIWENLD----------------FHAVGIPHG--DDHKGCKVLLTARSLDVLSRK-M  227 (532)
Q Consensus       167 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtr~~~v~~~~-~  227 (532)
                      .......+.+......+.+|+||+++....                +..+...+.  ....+.+||.||......... .
T Consensus       261 ~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLl  340 (438)
T PTZ00361        261 GPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALI  340 (438)
T ss_pred             HHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhc
Confidence            111233333333345778999999864210                001111111  112356788888866554221 2


Q ss_pred             ---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          228 ---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       228 ---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                         .....+.+...+.++..++|..+........+.  ....++..+.|+
T Consensus       341 RpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dv--dl~~la~~t~g~  388 (438)
T PTZ00361        341 RPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDV--DLEEFIMAKDEL  388 (438)
T ss_pred             cCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCc--CHHHHHHhcCCC
Confidence               123478899999999999999876532211111  134555555554

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.99  E-value=0.00028  Score=68.07  Aligned_cols=193  Identities=18%  Similarity=0.230  Sum_probs=118.5

Q ss_pred             cccccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eec-
Q 048213          102 NKDYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVE-  164 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~-  164 (532)
                      ...+..+-|-++.+++|.+...             =..++-|.+||++|.|||-||++|+++....  |=..+   +.+ 
T Consensus       147 dvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~At--FIrvvgSElVqK  224 (406)
T COG1222         147 DVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT--FIRVVGSELVQK  224 (406)
T ss_pred             CCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCce--EEEeccHHHHHH
Confidence            4446667888888888888764             1356889999999999999999999987655  54443   111 


Q ss_pred             --cCchhhHHHHHHHHhccCcEEEEEcCCCCcc------------c----ccccccccCC--CCCCeEEEEeecChHHh-
Q 048213          165 --ESESGRARSLCNRLKKEKMILVILDNIWENL------------D----FHAVGIPHGD--DHKGCKVLLTARSLDVL-  223 (532)
Q Consensus       165 --~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~~~~~~--~~~gs~ilvTtr~~~v~-  223 (532)
                        .........+++.-+....+.|.+|.++...            .    .-++...+..  ....-|||..|...+++ 
T Consensus       225 YiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LD  304 (406)
T COG1222         225 YIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILD  304 (406)
T ss_pred             HhccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccC
Confidence              1222345556666666789999999997431            0    0011111111  13457899888877665 


Q ss_pred             hhcCCC---CceEEccCCCHHHHHHHHHHHhCC--CCCCcchHHHHHHHHHHcCCch----HHHHHHHHHHc---cC---
Q 048213          224 SRKMDS---QQDFWVGVLKEDEAWSLFKKMAGD--YIEGSEFKWVAKDVAKKCAGLP----VSIVTVARALR---NK---  288 (532)
Q Consensus       224 ~~~~~~---~~~~~l~~L~~~~~~~Lf~~~~~~--~~~~~~~~~~~~~i~~~c~glP----Lai~~~~~~l~---~~---  288 (532)
                      ......   ...+++..-+.+.-.++|.-++..  ....-+    .+.+++.|.|.-    -|+.+=|++++   .+   
T Consensus       305 PALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd----~e~la~~~~g~sGAdlkaictEAGm~AiR~~R~~V  380 (406)
T COG1222         305 PALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVD----LELLARLTEGFSGADLKAICTEAGMFAIRERRDEV  380 (406)
T ss_pred             hhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcC----HHHHHHhcCCCchHHHHHHHHHHhHHHHHhccCee
Confidence            222222   246777766666667788877762  222223    345666676653    55666677665   12   


Q ss_pred             ChHHHHHHHHHh
Q 048213          289 RLFDWKDALEQL  300 (532)
Q Consensus       289 ~~~~w~~~l~~~  300 (532)
                      +.+.+..+.+..
T Consensus       381 t~~DF~~Av~KV  392 (406)
T COG1222         381 TMEDFLKAVEKV  392 (406)
T ss_pred             cHHHHHHHHHHH
Confidence            555555555443

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.99  E-value=0.00026  Score=75.02  Aligned_cols=176  Identities=16%  Similarity=0.116  Sum_probs=108.6

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhcc----------------------CCCCEEE
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAENE----------------------KLFDRVI  161 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~----------------------~~F~~~~  161 (532)
                      -..++|.+..++.|.+++..+.+. .+.++|+.|+||||+|+.+++...-.                      .+.+...
T Consensus        12 f~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~~~~dvie   91 (584)
T PRK14952         12 FAEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGPGSIDVVE   91 (584)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccCCCceEEE
Confidence            457889999999999999877655 46899999999999999998754311                      1222222


Q ss_pred             EeccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEE-EeecChHHhhhcCCCCce
Q 048213          162 FVEES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVL-LTARSLDVLSRKMDSQQD  232 (532)
Q Consensus       162 ~~~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~il-vTtr~~~v~~~~~~~~~~  232 (532)
                      .+..+  ..+.+..+.+.+.    .+++-++|+|++...  ...+.|...+..-...+.+| +||....+..........
T Consensus        92 idaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~SRc~~  171 (584)
T PRK14952         92 LDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHH  171 (584)
T ss_pred             eccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHHhceE
Confidence            22211  1223333433332    245668999998754  34555544444333455555 454444444322333568


Q ss_pred             EEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH-HHHHH
Q 048213          233 FWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV-SIVTV  281 (532)
Q Consensus       233 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  281 (532)
                      +.+.+++.++..+.+.+.+.... ..-..+....|++.++|-+- |+..+
T Consensus       172 ~~F~~l~~~~i~~~L~~i~~~eg-i~i~~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        172 YPFRLLPPRTMRALIARICEQEG-VVVDDAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             EEeeCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            99999999998888877654211 11224566788888888764 44443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.99  E-value=5.2e-05  Score=84.66  Aligned_cols=144  Identities=13%  Similarity=0.124  Sum_probs=85.2

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC------CCCEEEEec----------cCchh
Q 048213          106 EAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK------LFDRVIFVE----------ESESG  169 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~------~F~~~~~~~----------~~~~~  169 (532)
                      ..++||+++++++++.|......-+.++|++|+|||++|..++......+      .......+.          .....
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~l~ag~~~~ge~e~  258 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGLLLAGTKYRGEFEE  258 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHHHhccCCCccHHHH
Confidence            46899999999999999866666778999999999999999988753210      011111110          01112


Q ss_pred             hHHHHHHHHhccCcEEEEEcCCCCcc---------cccccccccCCCCCCeEEEEeecChHHh------hhcCCCCceEE
Q 048213          170 RARSLCNRLKKEKMILVILDNIWENL---------DFHAVGIPHGDDHKGCKVLLTARSLDVL------SRKMDSQQDFW  234 (532)
Q Consensus       170 ~~~~l~~~l~~~k~~LlVlDdv~~~~---------~~~~l~~~~~~~~~gs~ilvTtr~~~v~------~~~~~~~~~~~  234 (532)
                      ....+.+.+...++.+|++|+++...         +...+..+....+ .-++|.+|......      .........+.
T Consensus       259 rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~rg-~l~~IgaTt~~ey~~~ie~D~aL~rRf~~I~  337 (821)
T CHL00095        259 RLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALARG-ELQCIGATTLDEYRKHIEKDPALERRFQPVY  337 (821)
T ss_pred             HHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhCC-CcEEEEeCCHHHHHHHHhcCHHHHhcceEEe
Confidence            33344444444567999999996331         1111222222222 23455544443321      11122334678


Q ss_pred             ccCCCHHHHHHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKM  250 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~  250 (532)
                      +...+.++..+++...
T Consensus       338 v~ep~~~e~~aILr~l  353 (821)
T CHL00095        338 VGEPSVEETIEILFGL  353 (821)
T ss_pred             cCCCCHHHHHHHHHHH
Confidence            8888999988887653

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.98  E-value=0.00015  Score=77.27  Aligned_cols=176  Identities=14%  Similarity=0.143  Sum_probs=109.2

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccCC-------------------------CC
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEKL-------------------------FD  158 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~-------------------------F~  158 (532)
                      -..++|.+..++.|.+++..+.. ..+.++|+.|+||||+|+.+++..--...                         -|
T Consensus        23 f~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i~~g~h~D  102 (598)
T PRK09111         23 FDDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAIMEGRHVD  102 (598)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHHhcCCCCc
Confidence            45789999999999999887664 46889999999999999999886432211                         11


Q ss_pred             EEEEeccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEee-cChHHhhhcCCC
Q 048213          159 RVIFVEES--ESGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTA-RSLDVLSRKMDS  229 (532)
Q Consensus       159 ~~~~~~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTt-r~~~v~~~~~~~  229 (532)
                      ...++..+  ..+.+..+.+.+.    .+++-++|+|++....  ..+.+...+..-..++.+|++| ....+.......
T Consensus       103 v~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~SR  182 (598)
T PRK09111        103 VLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSR  182 (598)
T ss_pred             eEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHHhh
Confidence            11111111  1122333333332    2355689999997653  3455544443333456665544 444444322333


Q ss_pred             CceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          230 QQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       230 ~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      ...+.+..++.++....+.+.+.... ..-..+....|++.++|.+.-+...
T Consensus       183 cq~~~f~~l~~~el~~~L~~i~~keg-i~i~~eAl~lIa~~a~Gdlr~al~~  233 (598)
T PRK09111        183 CQRFDLRRIEADVLAAHLSRIAAKEG-VEVEDEALALIARAAEGSVRDGLSL  233 (598)
T ss_pred             eeEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            45889999999999988888764211 1122466788899999988655443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.96  E-value=0.00022  Score=74.44  Aligned_cols=176  Identities=16%  Similarity=0.132  Sum_probs=107.3

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~  163 (532)
                      -..++|-+..++.+...+..+... ...++|+.|+||||+|+.+++..--.                    .|++..-.+
T Consensus        13 fdeiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv~eld   92 (535)
T PRK08451         13 FDELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDIIEMD   92 (535)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeEEEec
Confidence            457889999999999988877655 56899999999999999888764211                    122222122


Q ss_pred             ccCc--hhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecCh-HHhhhcCCCCceEE
Q 048213          164 EESE--SGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSL-DVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~~--~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~-~v~~~~~~~~~~~~  234 (532)
                      ..+.  .+.+..+.+...    .+++-++|+|++...  +..+.+...+-.-...+++|++|.+. .+..........++
T Consensus        93 aas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SRc~~~~  172 (535)
T PRK08451         93 AASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFR  172 (535)
T ss_pred             cccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhhceeEE
Confidence            2111  122222222221    145668999999765  33445544443334456666666553 22221222346889


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      +.+++.++....+.+.+.... ..-.++.+..|++.++|.+--+...
T Consensus       173 F~~Ls~~ei~~~L~~Il~~EG-i~i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        173 FKQIPQNSIISHLKTILEKEG-VSYEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             cCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCcHHHHHHH
Confidence            999999999888877654211 1223567889999999988544333

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.95  E-value=0.00027  Score=75.85  Aligned_cols=177  Identities=14%  Similarity=0.122  Sum_probs=108.8

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccC---------------------CCCEEEE
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEK---------------------LFDRVIF  162 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~---------------------~F~~~~~  162 (532)
                      -..++|.+..++.|..++..+.. ..+.++|+.|+||||+|+.+++......                     +.+...+
T Consensus        15 ~~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~~~d~~~i   94 (585)
T PRK14950         15 FAELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGSAVDVIEM   94 (585)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCCCCeEEEE
Confidence            45788999999999888886654 4568999999999999999987643211                     1121111


Q ss_pred             ecc--CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceE
Q 048213          163 VEE--SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDF  233 (532)
Q Consensus       163 ~~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~  233 (532)
                      +..  ...+.+..+.+.+.    .+++-++|+|++...  +..+.+...+..-...+.+|++|.+ ..+..........+
T Consensus        95 ~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~SR~~~i  174 (585)
T PRK14950         95 DAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRF  174 (585)
T ss_pred             eccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHHhcccee
Confidence            111  11222334444333    145678999998754  3355554444333345666665544 33332222334578


Q ss_pred             EccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHH
Q 048213          234 WVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVA  282 (532)
Q Consensus       234 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  282 (532)
                      .+..++.++....+.+.+..... .-..+.+..|+..++|.+..+...-
T Consensus       175 ~f~~l~~~el~~~L~~~a~~egl-~i~~eal~~La~~s~Gdlr~al~~L  222 (585)
T PRK14950        175 DFHRHSVADMAAHLRKIAAAEGI-NLEPGALEAIARAATGSMRDAENLL  222 (585)
T ss_pred             eCCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            89999999988888877642111 1225678899999999886554433

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.95  E-value=6e-05  Score=76.71  Aligned_cols=135  Identities=19%  Similarity=0.097  Sum_probs=84.4

Q ss_pred             cchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhcc---CCCCEEEEeccCchhhHHHHHHHHhccCcEEE
Q 048213          110 SRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENE---KLFDRVIFVEESESGRARSLCNRLKKEKMILV  186 (532)
Q Consensus       110 gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~Ll  186 (532)
                      .|.....++++.+..... ++.|.|+-++||||+++.+.......   -.|+..........+....+.+.-. .++..|
T Consensus        21 ~~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l~d~~~~~~~~~~-~~~~yi   98 (398)
T COG1373          21 ERRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIELLDLLRAYIELKE-REKSYI   98 (398)
T ss_pred             hHHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhHHHHHHHHHHhhc-cCCceE
Confidence            344556666666654443 99999999999999997666543222   0111111111111111122222212 256899


Q ss_pred             EEcCCCCcccccccccccCCCCCCeEEEEeecChHHh-----hhcCCCCceEEccCCCHHHHHHHH
Q 048213          187 ILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVL-----SRKMDSQQDFWVGVLKEDEAWSLF  247 (532)
Q Consensus       187 VlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~-----~~~~~~~~~~~l~~L~~~~~~~Lf  247 (532)
                      +||.|.....|......+.+.++. +|++|+-+....     ....+....+.+.||+..|...+-
T Consensus        99 fLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~  163 (398)
T COG1373          99 FLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLK  163 (398)
T ss_pred             EEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhc
Confidence            999999999999987777776666 788888776554     222344568899999988887653

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.95  E-value=3.3e-07  Score=94.72  Aligned_cols=117  Identities=24%  Similarity=0.188  Sum_probs=83.9

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc------ccCCcceEEeccccccC
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASA  446 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~  446 (532)
                      +.++++|.+..+-.++.-++.|+.|+|++|++.+...+..|++|.+|||+.|.+..+      ++. |..|.|+||..  
T Consensus       168 ~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~lrnN~l--  244 (1096)
T KOG1859|consen  168 TASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNLRNNAL--  244 (1096)
T ss_pred             hhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhHHHHhcccccccccccchhccccccchhhhh-heeeeecccHH--
Confidence            557777888778888999999999999999999988999999999999999987766      333 77777777733  


Q ss_pred             CCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          447 PNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       447 ~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                       .....+.+|.+|+.||++.|-|...-+-.   +...|..|..|.|.|++
T Consensus       245 -~tL~gie~LksL~~LDlsyNll~~hseL~---pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  245 -TTLRGIENLKSLYGLDLSYNLLSEHSELE---PLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             -HhhhhHHhhhhhhccchhHhhhhcchhhh---HHHHHHHHHHHhhcCCc
Confidence             33445667777777777777443321111   00234567777777754

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.94  E-value=0.0002  Score=76.89  Aligned_cols=176  Identities=20%  Similarity=0.144  Sum_probs=107.4

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc-----------------CCCCEEEEeccC
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE-----------------KLFDRVIFVEES  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~-----------------~~F~~~~~~~~~  166 (532)
                      -..++|.+..++.+.+++..+.+ ..+.++|+.|+||||+|+.+++..--.                 .+++..-.+..+
T Consensus        17 f~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvieidaas   96 (725)
T PRK07133         17 FDDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEMDAAS   96 (725)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEEeccc
Confidence            45688999999999999986654 556799999999999999998753211                 112211121111


Q ss_pred             --chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeE-EEEeecChHHhhhcCCCCceEEccC
Q 048213          167 --ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCK-VLLTARSLDVLSRKMDSQQDFWVGV  237 (532)
Q Consensus       167 --~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~-ilvTtr~~~v~~~~~~~~~~~~l~~  237 (532)
                        ..+.++.+.+.+.    .+++-++|+|++...  ..++.+...+-.-...+. |++|++...+..........+.+.+
T Consensus        97 n~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~ieF~~  176 (725)
T PRK07133         97 NNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRR  176 (725)
T ss_pred             cCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhceeEEccC
Confidence              1222444444443    246678999998754  345555443322223444 4455555555433333346899999


Q ss_pred             CCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH-HHHHH
Q 048213          238 LKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV-SIVTV  281 (532)
Q Consensus       238 L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  281 (532)
                      ++.++....+...+.... ..-..+.+..|++.++|-+- |+..+
T Consensus       177 L~~eeI~~~L~~il~keg-I~id~eAl~~LA~lS~GslR~AlslL  220 (725)
T PRK07133        177 ISEDEIVSRLEFILEKEN-ISYEKNALKLIAKLSSGSLRDALSIA  220 (725)
T ss_pred             CCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999888877543111 11224567889999988664 44433

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.90  E-value=0.00047  Score=73.10  Aligned_cols=175  Identities=15%  Similarity=0.127  Sum_probs=108.9

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~  163 (532)
                      -..++|-+..++.+..++..+.. ..+.++|+.|+||||+|+.+++..--.                    .+++...++
T Consensus        15 f~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~~dv~~id   94 (563)
T PRK06647         15 FNSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNSLDVIEID   94 (563)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCCCCeEEec
Confidence            45788999999999999986654 457899999999999999998864321                    134433232


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+.+..+.+.+.    .+++-++|+|++....  .++.+...+..-...+.+|.+|.. ..+..........+.
T Consensus        95 gas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SRc~~~~  174 (563)
T PRK06647         95 GASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFN  174 (563)
T ss_pred             CcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHhceEEE
Confidence            211  1122333333222    2466689999987653  455554444333345555555543 333322233345789


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVT  280 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~  280 (532)
                      ..+++.++....+.+.+.... ..-.++.+..|++.++|.+-.+..
T Consensus       175 f~~l~~~el~~~L~~i~~~eg-i~id~eAl~lLa~~s~GdlR~als  219 (563)
T PRK06647        175 FRLLSLEKIYNMLKKVCLEDQ-IKYEDEALKWIAYKSTGSVRDAYT  219 (563)
T ss_pred             ecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            999999998888887664211 122356678889999997754433

>PTZ00202 tuzin; Provisional

Probab=97.89  E-value=7.6e-05  Score=74.35  Aligned_cols=146  Identities=13%  Similarity=0.142  Sum_probs=85.0

Q ss_pred             ccccccccccccchHHHHHHHHHhcC---CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE--------------
Q 048213           99 LLSNKDYEAFESRMSTFNDILNALKS---PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI--------------  161 (532)
Q Consensus        99 ~~~~~~~~~~~gR~~~~~~i~~~l~~---~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~--------------  161 (532)
                      ++.+.+...|+||+.++..+...|.+   +..+++.|.|++|+|||||++.+.....    +...+              
T Consensus       255 ~~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNprg~eElLr~LL  330 (550)
T PTZ00202        255 QSAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDVRGTEDTLRSVV  330 (550)
T ss_pred             cCCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ceEEEECCCCHHHHHHHHH
Confidence            44566788999999999999998862   2346899999999999999999986543    33332              


Q ss_pred             --Eec---cCchhhHHHHHHHHh----c-cCcEEEEEcCCCCccccccc---ccccCCCCCCeEEEEeecChHHh--hhc
Q 048213          162 --FVE---ESESGRARSLCNRLK----K-EKMILVILDNIWENLDFHAV---GIPHGDDHKGCKVLLTARSLDVL--SRK  226 (532)
Q Consensus       162 --~~~---~~~~~~~~~l~~~l~----~-~k~~LlVlDdv~~~~~~~~l---~~~~~~~~~gs~ilvTtr~~~v~--~~~  226 (532)
                        +..   ....+....|.+.+.    . +++.+||+-== +.+.+..+   ...+.+...-|.|++----+...  ...
T Consensus       331 ~ALGV~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lr-eg~~l~rvyne~v~la~drr~ch~v~evpleslt~~~~~  409 (550)
T PTZ00202        331 KALGVPNVEACGDLLDFISEACRRAKKMNGETPLLVLKLR-EGSSLQRVYNEVVALACDRRLCHVVIEVPLESLTIANTL  409 (550)
T ss_pred             HHcCCCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEec-CCCcHHHHHHHHHHHHccchhheeeeeehHhhcchhccc
Confidence              111   111234445555443    2 56666665421 11111111   12233334446666544433321  222


Q ss_pred             CCCCceEEccCCCHHHHHHHHHH
Q 048213          227 MDSQQDFWVGVLKEDEAWSLFKK  249 (532)
Q Consensus       227 ~~~~~~~~l~~L~~~~~~~Lf~~  249 (532)
                      .+.-.-|.+.+++.++|.+.-..
T Consensus       410 lprldf~~vp~fsr~qaf~y~~h  432 (550)
T PTZ00202        410 LPRLDFYLVPNFSRSQAFAYTQH  432 (550)
T ss_pred             CccceeEecCCCCHHHHHHHHhh
Confidence            33445788888998888765443

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.87  E-value=0.00019  Score=75.71  Aligned_cols=175  Identities=18%  Similarity=0.184  Sum_probs=96.0

Q ss_pred             cccccccccchHHHHHHHHHhc---C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eec--
Q 048213          102 NKDYEAFESRMSTFNDILNALK---S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVE--  164 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~---~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~--  164 (532)
                      ...-..+.|-++.++++.+.+.   .         ...+-+.++|++|+|||++|+.+++.....  |-..-   +..  
T Consensus        51 ~~~~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~--~~~i~~~~~~~~~  128 (495)
T TIGR01241        51 KVTFKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--FFSISGSDFVEMF  128 (495)
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCC--eeeccHHHHHHHH
Confidence            3445567787777666554432   1         224568899999999999999999876443  21110   000  


Q ss_pred             -cCchhhHHHHHHHHhccCcEEEEEcCCCCcc------------cc----cccccccC--CCCCCeEEEEeecChHHhh-
Q 048213          165 -ESESGRARSLCNRLKKEKMILVILDNIWENL------------DF----HAVGIPHG--DDHKGCKVLLTARSLDVLS-  224 (532)
Q Consensus       165 -~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~~----~~l~~~~~--~~~~gs~ilvTtr~~~v~~-  224 (532)
                       .........+.+.......++|++||++...            .+    ..+...+.  ....+..||.||....... 
T Consensus       129 ~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~  208 (495)
T TIGR01241       129 VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDP  208 (495)
T ss_pred             hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCH
Confidence             0011223334444333466899999996531            01    11111111  1223455667776654221 


Q ss_pred             hcC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc-hHHHHH
Q 048213          225 RKM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL-PVSIVT  280 (532)
Q Consensus       225 ~~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~  280 (532)
                      ...   .-...+.+...+.++-.++|..+........  ......++..+.|. +-.|..
T Consensus       209 al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~--~~~l~~la~~t~G~sgadl~~  266 (495)
T TIGR01241       209 ALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAP--DVDLKAVARRTPGFSGADLAN  266 (495)
T ss_pred             HHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCc--chhHHHHHHhCCCCCHHHHHH
Confidence            111   2235788888898888899888765322211  12245777777774 333433

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.87  E-value=1.4e-05  Score=72.41  Aligned_cols=51  Identities=18%  Similarity=0.186  Sum_probs=34.9

Q ss_pred             ccccchHHHHHHHHHhc---CCCceEEEEEccCCCchHHHHHHHHHHhhccCCC
Q 048213          107 AFESRMSTFNDILNALK---SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLF  157 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F  157 (532)
                      .|+||+++++++...+.   ....+.+.|+|.+|+|||+|.++++........+
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~   54 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGY   54 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCE
Confidence            48999999999999993   5567999999999999999999999887766333

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.86  E-value=5.6e-06  Score=89.39  Aligned_cols=124  Identities=17%  Similarity=0.128  Sum_probs=87.1

Q ss_pred             cccccEEEeccccccC---cccc-cccccccEEeecccccccc-------ccCCcceEEeccccccCCCCCcccccCCCC
Q 048213          391 LTNLQTLCLYYCKLQD---TSVL-GELKILEILRLRVNELTRA-------GSSQLKHLSVRGLRASAPNPTESEVALPKL  459 (532)
Q Consensus       391 l~~L~~L~l~~~~l~~---~~~i-~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L  459 (532)
                      -.+|++|++++...-.   +..+ .-||.|++|.+.+-.+..-       ++|+|+.|++++++.  .+ ..++++|++|
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI--~n-l~GIS~LknL  197 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNI--SN-LSGISRLKNL  197 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCc--cC-cHHHhccccH
Confidence            4688999998854222   3333 4689999999988655433       899999999999976  33 3778899999


Q ss_pred             CEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchh------hhhhcCCCccEEEeecCC
Q 048213          460 ETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTS------SIISSFVGLQCLEICECP  522 (532)
Q Consensus       460 ~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~------~~~~~L~~L~~L~l~~c~  522 (532)
                      +.|.+.+-.+..-++-.   ..|+|++|++||+|.-.+.. - +.      .....||+|+.|+.|++.
T Consensus       198 q~L~mrnLe~e~~~~l~---~LF~L~~L~vLDIS~~~~~~-~-~~ii~qYlec~~~LpeLrfLDcSgTd  261 (699)
T KOG3665|consen  198 QVLSMRNLEFESYQDLI---DLFNLKKLRVLDISRDKNND-D-TKIIEQYLECGMVLPELRFLDCSGTD  261 (699)
T ss_pred             HHHhccCCCCCchhhHH---HHhcccCCCeeecccccccc-c-hHHHHHHHHhcccCccccEEecCCcc
Confidence            99988887666533221   22889999999999643322 2 11      111358999999999764

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.86  E-value=0.00045  Score=74.09  Aligned_cols=176  Identities=15%  Similarity=0.105  Sum_probs=105.6

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccC----------------------CCCEEE
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEK----------------------LFDRVI  161 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~----------------------~F~~~~  161 (532)
                      -..++|.+..++.|.+++..+.. ..+.++|+.|+||||+|+.+++..--..                      |.|...
T Consensus        15 f~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~h~D~~e   94 (620)
T PRK14948         15 FDELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGNALDVIE   94 (620)
T ss_pred             HhhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCCCccEEE
Confidence            45688999999999998886643 6778999999999999999988753221                      111111


Q ss_pred             Eecc--CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEE-eecChHHhhhcCCCCce
Q 048213          162 FVEE--SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLL-TARSLDVLSRKMDSQQD  232 (532)
Q Consensus       162 ~~~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilv-Ttr~~~v~~~~~~~~~~  232 (532)
                      .+..  ...+.+..+.+.+.    .+++-++|+|+++..  +.++.+...+..-...+.+|+ |+....+..........
T Consensus        95 i~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIrSRc~~  174 (620)
T PRK14948         95 IDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQR  174 (620)
T ss_pred             EeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHHhheeE
Confidence            1111  11122333333332    145568999999865  345555444433233444444 44333333322333457


Q ss_pred             EEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          233 FWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       233 ~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      +.+..++.++....+.+.+..... .-..+.+..|++.++|.+..+...
T Consensus       175 ~~f~~l~~~ei~~~L~~ia~kegi-~is~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        175 FDFRRIPLEAMVQHLSEIAEKESI-EIEPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             EEecCCCHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            888899998888877766542111 112456788999999977544433

>PRK06620 hypothetical protein; Validated

Probab=97.86  E-value=7.9e-05  Score=69.08  Aligned_cols=134  Identities=14%  Similarity=-0.065  Sum_probs=78.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccCcEEEEEcCCCCcccccccccccCC-
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGD-  206 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~-  206 (532)
                      +.+.|+|++|+|||+|++.+++.....  |-     ..  ....   .+...  ..-++++||+....+ ..+...+.. 
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~-----~~--~~~~---~~~~~--~~d~lliDdi~~~~~-~~lf~l~N~~  109 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAY--II-----KD--IFFN---EEILE--KYNAFIIEDIENWQE-PALLHIFNII  109 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCE--Ec-----ch--hhhc---hhHHh--cCCEEEEeccccchH-HHHHHHHHHH
Confidence            668999999999999999987765321  11     10  0000   11222  335788999974321 112111100 


Q ss_pred             CCCCeEEEEeecChHHh------hhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHH
Q 048213          207 DHKGCKVLLTARSLDVL------SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVS  277 (532)
Q Consensus       207 ~~~gs~ilvTtr~~~v~------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  277 (532)
                      ...|..+|+|++.....      ...+....++.+++++.++-..++.+.+... ...--+++.+-|++.+.|---.
T Consensus       110 ~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~-~l~l~~ev~~~L~~~~~~d~r~  185 (214)
T PRK06620        110 NEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSIS-SVTISRQIIDFLLVNLPREYSK  185 (214)
T ss_pred             HhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHccCCHHH
Confidence            14567899998854331      1112334589999999999888888776421 1122356677777777665433

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.85  E-value=0.0017  Score=69.42  Aligned_cols=177  Identities=18%  Similarity=0.138  Sum_probs=107.7

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~  163 (532)
                      -..++|.+..++.|.+++..+.+ ..+.++|+.|+||||+|+.+++..--.                    .++|...++
T Consensus        15 f~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~d~~eid   94 (576)
T PRK14965         15 FSDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSVDVFEID   94 (576)
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCCCeeeee
Confidence            45788999999999999887665 456899999999999999988764211                    122222222


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEE-EeecChHHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVL-LTARSLDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~il-vTtr~~~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+.+..+.+.+.    .+++-++|+|+++...  ..+.+...+-.-...+.+| +||....+..........+.
T Consensus        95 ~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~SRc~~~~  174 (576)
T PRK14965         95 GASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRFD  174 (576)
T ss_pred             ccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHHhhhhhh
Confidence            211  1223444444443    2355689999997653  3444544333223345555 45544445433333345788


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch-HHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP-VSIVTVA  282 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~  282 (532)
                      +.+++.++....+...+.... ..-..+....|++.++|.. .|+..+-
T Consensus       175 f~~l~~~~i~~~L~~i~~~eg-i~i~~~al~~la~~a~G~lr~al~~Ld  222 (576)
T PRK14965        175 FRRIPLQKIVDRLRYIADQEG-ISISDAALALVARKGDGSMRDSLSTLD  222 (576)
T ss_pred             cCCCCHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            999999988887776553211 1122556788889998855 4554443

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=97.85  E-value=0.0016  Score=61.05  Aligned_cols=171  Identities=13%  Similarity=0.067  Sum_probs=102.4

Q ss_pred             ccccccccchHHHHHHHHHhc-----CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHH
Q 048213          103 KDYEAFESRMSTFNDILNALK-----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNR  177 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~-----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~  177 (532)
                      ..-..|+|-++.++++-=.+.     ....--+.++|++|.||||||.-+++...+.  +....-..-........+...
T Consensus        23 ~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn--~k~tsGp~leK~gDlaaiLt~  100 (332)
T COG2255          23 KTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVN--LKITSGPALEKPGDLAAILTN  100 (332)
T ss_pred             ccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCC--eEecccccccChhhHHHHHhc
Confidence            346789998888877665444     4456789999999999999999999988765  221111111122223333333


Q ss_pred             HhccCcEEEEEcCCCCcc---------ccccccc-ccCCCCCCe-----------EEEEeecChHHhhh-cCCCCceEEc
Q 048213          178 LKKEKMILVILDNIWENL---------DFHAVGI-PHGDDHKGC-----------KVLLTARSLDVLSR-KMDSQQDFWV  235 (532)
Q Consensus       178 l~~~k~~LlVlDdv~~~~---------~~~~l~~-~~~~~~~gs-----------~ilvTtr~~~v~~~-~~~~~~~~~l  235 (532)
                      |.  ..=.+.+|.+....         ..+++.. -....++++           -|=.|||.-.+..- ...-..+..+
T Consensus       101 Le--~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrdRFGi~~rl  178 (332)
T COG2255         101 LE--EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQRL  178 (332)
T ss_pred             CC--cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhHHhcCCeeee
Confidence            43  34567888887541         1111100 001112222           24468886544310 1122346788


Q ss_pred             cCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          236 GVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       236 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      +--+.+|-.+...+.+..- ..+-.++.+.+|+++..|-|--.
T Consensus       179 efY~~~eL~~Iv~r~a~~l-~i~i~~~~a~eIA~rSRGTPRIA  220 (332)
T COG2255         179 EFYTVEELEEIVKRSAKIL-GIEIDEEAALEIARRSRGTPRIA  220 (332)
T ss_pred             ecCCHHHHHHHHHHHHHHh-CCCCChHHHHHHHHhccCCcHHH
Confidence            8888999999998887521 12223667899999999999533

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.85  E-value=6.3e-05  Score=63.92  Aligned_cols=61  Identities=21%  Similarity=0.215  Sum_probs=38.7

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec-----cCchh---hHHHHHHHHhccC-cEEEEEcCCCCc
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE-----ESESG---RARSLCNRLKKEK-MILVILDNIWEN  194 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~-----~~~~~---~~~~l~~~l~~~k-~~LlVlDdv~~~  194 (532)
                      |.|+|++|+|||++|+.+++.....  |  ...+.     .....   ....+.+...... +.+|++||++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~--~--~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l   70 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFP--F--IEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKL   70 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSE--E--EEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccc--c--ccccccccccccccccccccccccccccccccceeeeeccchhc
Confidence            5799999999999999999987532  2  22111     11122   2333333333233 799999999754

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.84  E-value=0.00022  Score=79.67  Aligned_cols=146  Identities=12%  Similarity=0.094  Sum_probs=85.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC------CCCEEEEecc----------Cch
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK------LFDRVIFVEE----------SES  168 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~------~F~~~~~~~~----------~~~  168 (532)
                      ...++||+.++.++++.|.......+.++|++|+|||++|..++.......      .......+..          ...
T Consensus       177 l~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~ag~~~~g~~e  256 (857)
T PRK10865        177 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFE  256 (857)
T ss_pred             CCcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhhccchhhhhH
Confidence            356899999999999999866666788999999999999999988753211      1121111111          111


Q ss_pred             hhHHHHHHHHh-ccCcEEEEEcCCCCccc---------ccccccccCCCCCCeEEEEeecChHHh------hhcCCCCce
Q 048213          169 GRARSLCNRLK-KEKMILVILDNIWENLD---------FHAVGIPHGDDHKGCKVLLTARSLDVL------SRKMDSQQD  232 (532)
Q Consensus       169 ~~~~~l~~~l~-~~k~~LlVlDdv~~~~~---------~~~l~~~~~~~~~gs~ilvTtr~~~v~------~~~~~~~~~  232 (532)
                      .....+.+.+. .+++.+|++|+++....         ...+..|....+ .-++|-+|......      .........
T Consensus       257 ~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g-~l~~IgaTt~~e~r~~~~~d~al~rRf~~  335 (857)
T PRK10865        257 ERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG-ELHCVGATTLDEYRQYIEKDAALERRFQK  335 (857)
T ss_pred             HHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhcC-CCeEEEcCCCHHHHHHhhhcHHHHhhCCE
Confidence            12333333332 24679999999975421         112222222222 23455444443320      111122235


Q ss_pred             EEccCCCHHHHHHHHHHHh
Q 048213          233 FWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       233 ~~l~~L~~~~~~~Lf~~~~  251 (532)
                      +.+...+.++...++....
T Consensus       336 i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        336 VFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             EEeCCCCHHHHHHHHHHHh
Confidence            6677778899998887654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.84  E-value=0.00012  Score=81.98  Aligned_cols=146  Identities=12%  Similarity=0.094  Sum_probs=85.9

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC------CCCEEEEecc----------Cch
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK------LFDRVIFVEE----------SES  168 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~------~F~~~~~~~~----------~~~  168 (532)
                      ...++||+.++.+++..|.......+.++|++|+|||++|..++.......      .......+..          ...
T Consensus       172 ~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~l~a~~~~~g~~e  251 (852)
T TIGR03346       172 LDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGALIAGAKYRGEFE  251 (852)
T ss_pred             CCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHHHhhcchhhhhHH
Confidence            356899999999999998866667778999999999999999988753211      1111111100          111


Q ss_pred             hhHHHHHHHHh-ccCcEEEEEcCCCCccc---------ccccccccCCCCCCeEEEEeecChHHh------hhcCCCCce
Q 048213          169 GRARSLCNRLK-KEKMILVILDNIWENLD---------FHAVGIPHGDDHKGCKVLLTARSLDVL------SRKMDSQQD  232 (532)
Q Consensus       169 ~~~~~l~~~l~-~~k~~LlVlDdv~~~~~---------~~~l~~~~~~~~~gs~ilvTtr~~~v~------~~~~~~~~~  232 (532)
                      .....+.+.+. .+++.+|++|++.....         ...+..+....+ .-++|-+|.....-      .........
T Consensus       252 ~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g-~i~~IgaTt~~e~r~~~~~d~al~rRf~~  330 (852)
T TIGR03346       252 ERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALARG-ELHCIGATTLDEYRKYIEKDAALERRFQP  330 (852)
T ss_pred             HHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhcC-ceEEEEeCcHHHHHHHhhcCHHHHhcCCE
Confidence            12333334443 24689999999975421         111222222222 23444444433220      111122346


Q ss_pred             EEccCCCHHHHHHHHHHHh
Q 048213          233 FWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       233 ~~l~~L~~~~~~~Lf~~~~  251 (532)
                      +.+...+.++...++....
T Consensus       331 i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       331 VFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             EEeCCCCHHHHHHHHHHHH
Confidence            7899999999999887654

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.83  E-value=0.0011  Score=61.46  Aligned_cols=121  Identities=10%  Similarity=0.146  Sum_probs=75.6

Q ss_pred             cccccccccchHHHHHHHHHh----cCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHH
Q 048213          102 NKDYEAFESRMSTFNDILNAL----KSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNR  177 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~  177 (532)
                      +.....++|-+..++.|++=.    ...+..-+.++|..|.|||++++++.+....+. ...+ -.....-.....+.+.
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~G-LRlI-ev~k~~L~~l~~l~~~  100 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQG-LRLI-EVSKEDLGDLPELLDL  100 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC-ceEE-EECHHHhccHHHHHHH
Confidence            344677899998888877532    244567788999999999999999998766543 1111 1222222345566666


Q ss_pred             Hh-ccCcEEEEEcCCCCc---ccccccccccCC----CCCCeEEEEeecChHHhh
Q 048213          178 LK-KEKMILVILDNIWEN---LDFHAVGIPHGD----DHKGCKVLLTARSLDVLS  224 (532)
Q Consensus       178 l~-~~k~~LlVlDdv~~~---~~~~~l~~~~~~----~~~gs~ilvTtr~~~v~~  224 (532)
                      +. ...+|+|.+||+.=.   .....++..+..    ...+..|-+||..++..+
T Consensus       101 l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~  155 (249)
T PF05673_consen  101 LRDRPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVP  155 (249)
T ss_pred             HhcCCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccc
Confidence            65 357899999998633   234444333321    123445556666666553

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.80  E-value=6.4e-05  Score=82.10  Aligned_cols=145  Identities=14%  Similarity=0.124  Sum_probs=86.9

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC-C---CCEEEEecc------------Cchh
Q 048213          106 EAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-L---FDRVIFVEE------------SESG  169 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~---F~~~~~~~~------------~~~~  169 (532)
                      ..++||++++.++++.|......-+.++|++|+|||++|+.++....... .   .++.++...            ....
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~~~Ge~e~  265 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEK  265 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccchhhhHHH
Confidence            46899999999999988865556667999999999999999987642211 0   122221110            1112


Q ss_pred             hHHHHHHHHhccCcEEEEEcCCCCc--------c--cccccccccCCCCCCeEEEEeecChHHh------hhcCCCCceE
Q 048213          170 RARSLCNRLKKEKMILVILDNIWEN--------L--DFHAVGIPHGDDHKGCKVLLTARSLDVL------SRKMDSQQDF  233 (532)
Q Consensus       170 ~~~~l~~~l~~~k~~LlVlDdv~~~--------~--~~~~l~~~~~~~~~gs~ilvTtr~~~v~------~~~~~~~~~~  233 (532)
                      ....+.+.+...++.+|++|++...        .  +...+..++...+ .-++|-+|......      .........+
T Consensus       266 rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g-~i~vIgATt~~E~~~~~~~D~AL~rRFq~I  344 (758)
T PRK11034        266 RFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTTYQEFSNIFEKDRALARRFQKI  344 (758)
T ss_pred             HHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCC-CeEEEecCChHHHHHHhhccHHHHhhCcEE
Confidence            2334444454446789999999743        1  1111222322222 23455444433321      0011223579


Q ss_pred             EccCCCHHHHHHHHHHHh
Q 048213          234 WVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       234 ~l~~L~~~~~~~Lf~~~~  251 (532)
                      .+++++.++..+++....
T Consensus       345 ~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        345 DITEPSIEETVQIINGLK  362 (758)
T ss_pred             EeCCCCHHHHHHHHHHHH
Confidence            999999999999998654

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=97.79  E-value=3.3e-05  Score=51.56  Aligned_cols=39  Identities=26%  Similarity=0.232  Sum_probs=23.7

Q ss_pred             CCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCcc
Q 048213          457 PKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCL  501 (532)
Q Consensus       457 ~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l  501 (532)
                      ++|++|++++|+|+.+|+.+     .+|++|++|++++|+ ++++
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l-----~~l~~L~~L~l~~N~-i~~i   39 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPEL-----SNLPNLETLNLSNNP-ISDI   39 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHG-----TTCTTSSEEEETSSC-CSBE
T ss_pred             CcceEEEccCCCCcccCchH-----hCCCCCCEEEecCCC-CCCC
Confidence            35667777777777666655     566777777777643 5555

...

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.79  E-value=0.00024  Score=73.80  Aligned_cols=151  Identities=16%  Similarity=0.144  Sum_probs=88.8

Q ss_pred             ccccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccC----CCCEEEEecc
Q 048213          103 KDYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK----LFDRVIFVEE  165 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~~~~~  165 (532)
                      .....+.|.+..+++|.+.+.             -...+-+.++|++|+|||++|+++++......    .....+....
T Consensus       179 v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~  258 (512)
T TIGR03689       179 VTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIK  258 (512)
T ss_pred             CCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEecc
Confidence            345667889999988887753             12356789999999999999999999764321    0111111000


Q ss_pred             ----------CchhhHHHHHHHHh----ccCcEEEEEcCCCCcc---------cc-----cccccccCC--CCCCeEEEE
Q 048213          166 ----------SESGRARSLCNRLK----KEKMILVILDNIWENL---------DF-----HAVGIPHGD--DHKGCKVLL  215 (532)
Q Consensus       166 ----------~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~---------~~-----~~l~~~~~~--~~~gs~ilv  215 (532)
                                ........+.+...    .+++++|+||+++...         +.     ..+...+..  ...+..||.
T Consensus       259 ~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~  338 (512)
T TIGR03689       259 GPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIG  338 (512)
T ss_pred             chhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEe
Confidence                      01112233333332    2478999999997431         11     122111211  113455666


Q ss_pred             eecChHHhh-hcC---CCCceEEccCCCHHHHHHHHHHHhCC
Q 048213          216 TARSLDVLS-RKM---DSQQDFWVGVLKEDEAWSLFKKMAGD  253 (532)
Q Consensus       216 Ttr~~~v~~-~~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~  253 (532)
                      ||....... ...   .-...+.++..+.++..++|..+...
T Consensus       339 ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       339 ASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             ccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence            776554431 112   22346899999999999999988753

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.79  E-value=0.00081  Score=71.54  Aligned_cols=173  Identities=16%  Similarity=0.098  Sum_probs=105.6

Q ss_pred             ccccccchHHHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~  163 (532)
                      -..++|.+..++.+.+++..+. ...+.++|+.|+||||+|+.+++..--.                    .++|...++
T Consensus        15 f~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~~dv~eid   94 (559)
T PRK05563         15 FEDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSLMDVIEID   94 (559)
T ss_pred             HHhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCCCCeEEee
Confidence            4678999999999999988654 4557789999999999999998754211                    133333232


Q ss_pred             ccC--chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEE-EeecChHHhhhcCCCCceEE
Q 048213          164 EES--ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVL-LTARSLDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~~--~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~il-vTtr~~~v~~~~~~~~~~~~  234 (532)
                      ..+  ..+.+..+.+...    .++.-++|+|++...  ..++.+...+..-.....+| .||....+..........+.
T Consensus        95 aas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SRc~~~~  174 (559)
T PRK05563         95 AASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRFD  174 (559)
T ss_pred             ccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhHheEEe
Confidence            221  1223344444432    246678899999855  34555544433222344444 44444433322223345788


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      ..+++.++....+...+.... ..-..+....|++.++|-+..+
T Consensus       175 f~~~~~~ei~~~L~~i~~~eg-i~i~~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        175 FKRISVEDIVERLKYILDKEG-IEYEDEALRLIARAAEGGMRDA  217 (559)
T ss_pred             cCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            899999998888877654211 1112456778888888876533

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.78  E-value=0.00082  Score=70.12  Aligned_cols=177  Identities=15%  Similarity=0.094  Sum_probs=105.6

Q ss_pred             ccccccchHHHHHHHHHhcCCCce-EEEEEccCCCchHHHHHHHHHHhhc---cC----------------CCCEEE-Ee
Q 048213          105 YEAFESRMSTFNDILNALKSPDVN-MLGIYGMGGIRKTTPAKEVAIKAEN---EK----------------LFDRVI-FV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~-vv~I~G~gGiGKTtLA~~v~~~~~~---~~----------------~F~~~~-~~  163 (532)
                      -..++|.+..+..+.+++..+... .+.++|+.|+||||+|+.++....-   ..                .|.... .+
T Consensus        15 f~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~~eid   94 (486)
T PRK14953         15 FKEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDLIEID   94 (486)
T ss_pred             HHHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcEEEEe
Confidence            456789999999999999866544 5678999999999999998875421   00                011111 11


Q ss_pred             cc--CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEee-cChHHhhhcCCCCceEE
Q 048213          164 EE--SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTA-RSLDVLSRKMDSQQDFW  234 (532)
Q Consensus       164 ~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTt-r~~~v~~~~~~~~~~~~  234 (532)
                      ..  ...+.+..+.+...    .+++-++|+|+++..  ...+.+...+..-.....+|++| +...+..........+.
T Consensus        95 aas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SRc~~i~  174 (486)
T PRK14953         95 AASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFI  174 (486)
T ss_pred             CccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHhceEEE
Confidence            11  11222344444443    246679999998755  23444433333323344555444 43333322222345789


Q ss_pred             ccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVA  282 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  282 (532)
                      +.+++.++....+...+-... ..-..+.+..|+..++|.+..+....
T Consensus       175 f~~ls~~el~~~L~~i~k~eg-i~id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        175 FSKPTKEQIKEYLKRICNEEK-IEYEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             cCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            999999998888887654211 12235667788899999765444333

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.78  E-value=3.5e-05  Score=68.15  Aligned_cols=105  Identities=21%  Similarity=0.165  Sum_probs=75.6

Q ss_pred             cccccEEEeccccccCcccccccccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCCCCEEec
Q 048213          391 LTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCL  464 (532)
Q Consensus       391 l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L  464 (532)
                      +.+...++++.|.+.....+..++.|.+|.+++|.|+.+      -+++|..|.|.+|++.-.....++..+|.|++|.+
T Consensus        41 ~d~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltl  120 (233)
T KOG1644|consen   41 LDQFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTL  120 (233)
T ss_pred             ccccceecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeee
Confidence            345667788888887777788888888888888888877      56778888888887633334556777888888888


Q ss_pred             CCcccccccccccccccccCCCccEEEeccCC
Q 048213          465 SSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       465 ~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      -+|.++....-- .-..+++++|++||..+..
T Consensus       121 l~Npv~~k~~YR-~yvl~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen  121 LGNPVEHKKNYR-LYVLYKLPSLRTLDFQKVT  151 (233)
T ss_pred             cCCchhcccCce-eEEEEecCcceEeehhhhh
Confidence            888776544321 0011578888888887643

>PF14516 AAA_35: AAA-like domain

Probab=97.75  E-value=0.0014  Score=65.12  Aligned_cols=179  Identities=12%  Similarity=0.071  Sum_probs=107.7

Q ss_pred             ccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---------------------
Q 048213          103 KDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---------------------  161 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---------------------  161 (532)
                      .+.+-.+.|...-+++.+.+... ...+.|.|+-.+|||+|...+.+..+.+ .+.+..                     
T Consensus         8 ~~~~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~~~-~~~~v~id~~~~~~~~~~~~~~f~~~~   85 (331)
T PF14516_consen    8 LDSPFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQQQ-GYRCVYIDLQQLGSAIFSDLEQFLRWF   85 (331)
T ss_pred             CCCCcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHHHC-CCEEEEEEeecCCCcccCCHHHHHHHH
Confidence            34556778886777777777653 3689999999999999999998877654 244443                     


Q ss_pred             -----------------Eecc--CchhhHHHHHHHHh--ccCcEEEEEcCCCCcccc----ccccccc----------CC
Q 048213          162 -----------------FVEE--SESGRARSLCNRLK--KEKMILVILDNIWENLDF----HAVGIPH----------GD  206 (532)
Q Consensus       162 -----------------~~~~--~~~~~~~~l~~~l~--~~k~~LlVlDdv~~~~~~----~~l~~~~----------~~  206 (532)
                                       |...  +.......+.+.+.  .+++.+|++|+++..-..    +.+...+          +.
T Consensus        86 ~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~  165 (331)
T PF14516_consen   86 CEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPI  165 (331)
T ss_pred             HHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcc
Confidence                             0000  00111122333332  158899999999854221    1111100          00


Q ss_pred             CCCCeEEEEeecChHHhhh----cCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHH
Q 048213          207 DHKGCKVLLTARSLDVLSR----KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVA  282 (532)
Q Consensus       207 ~~~gs~ilvTtr~~~v~~~----~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  282 (532)
                      ..+=+-|++.+........    .......+.|++++.+|...|..++-...     .....+.|...+||+|.-+..++
T Consensus       166 ~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~-----~~~~~~~l~~~tgGhP~Lv~~~~  240 (331)
T PF14516_consen  166 WQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEF-----SQEQLEQLMDWTGGHPYLVQKAC  240 (331)
T ss_pred             cceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccC-----CHHHHHHHHHHHCCCHHHHHHHH
Confidence            1111122332221111110    11223478999999999999998864321     13338999999999999999999


Q ss_pred             HHHccC
Q 048213          283 RALRNK  288 (532)
Q Consensus       283 ~~l~~~  288 (532)
                      ..+...
T Consensus       241 ~~l~~~  246 (331)
T PF14516_consen  241 YLLVEE  246 (331)
T ss_pred             HHHHHc
Confidence            999754

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.74  E-value=0.00099  Score=65.89  Aligned_cols=150  Identities=13%  Similarity=0.096  Sum_probs=89.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccC--------------------CCCEEEEeccC-----chhhHHHHHHHHh--
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEK--------------------LFDRVIFVEES-----ESGRARSLCNRLK--  179 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~~~~~~~~-----~~~~~~~l~~~l~--  179 (532)
                      ...+.++|+.|+||||+|..+++..--..                    |=|...+....     ..+.+..+.+.+.  
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~  101 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQVRELVSFVVQT  101 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHHHHHHHHHhhc
Confidence            45688999999999999999887643211                    11222222111     1123334444443  


Q ss_pred             --ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHhCCC
Q 048213          180 --KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDY  254 (532)
Q Consensus       180 --~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~  254 (532)
                        .+++-++|+|+++..  +..+.+...+-.-..++.+|++|.+.. +..........+.+.+++.+++.+.+...... 
T Consensus       102 ~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~-  180 (328)
T PRK05707        102 AQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE-  180 (328)
T ss_pred             cccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc-
Confidence              234455678999865  344454444332234666777776654 33333333457899999999999988765311 


Q ss_pred             CCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          255 IEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       255 ~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                          ...+.+..++..++|.|+....+
T Consensus       181 ----~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        181 ----SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             ----CChHHHHHHHHHcCCCHHHHHHH
Confidence                12344567789999999755443

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=97.71  E-value=0.00017  Score=65.11  Aligned_cols=89  Identities=16%  Similarity=0.079  Sum_probs=57.7

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-----EeccCchhhHHHHHHHHh
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-----FVEESESGRARSLCNRLK  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-----~~~~~~~~~~~~l~~~l~  179 (532)
                      ...+||-++.++++--...+++.+-+.|.||+|+||||-+..+++..--.. +...+     .++...+.....++..-+
T Consensus        26 l~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~LLG~~-~ke~vLELNASdeRGIDvVRn~IK~FAQ  104 (333)
T KOG0991|consen   26 LQDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLARELLGDS-YKEAVLELNASDERGIDVVRNKIKMFAQ  104 (333)
T ss_pred             HHHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHHhChh-hhhHhhhccCccccccHHHHHHHHHHHH
Confidence            457899999999887777799999999999999999998887777543211 11111     122222222222222221


Q ss_pred             ------ccCcEEEEEcCCCCc
Q 048213          180 ------KEKMILVILDNIWEN  194 (532)
Q Consensus       180 ------~~k~~LlVlDdv~~~  194 (532)
                            .++.-.+|||..++.
T Consensus       105 ~kv~lp~grhKIiILDEADSM  125 (333)
T KOG0991|consen  105 KKVTLPPGRHKIIILDEADSM  125 (333)
T ss_pred             hhccCCCCceeEEEeeccchh
Confidence                  256668999999865

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=97.70  E-value=3.6e-05  Score=51.37  Aligned_cols=41  Identities=27%  Similarity=0.299  Sum_probs=32.9

Q ss_pred             CCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccc
Q 048213          432 SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQ  474 (532)
Q Consensus       432 ~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~  474 (532)
                      ++|++|++++|++  .+.+..++++++|++|++++|.|+.++.
T Consensus         1 ~~L~~L~l~~N~i--~~l~~~l~~l~~L~~L~l~~N~i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQI--TDLPPELSNLPNLETLNLSNNPISDISP   41 (44)
T ss_dssp             TT-SEEEETSSS---SSHGGHGTTCTTSSEEEETSSCCSBEGG
T ss_pred             CcceEEEccCCCC--cccCchHhCCCCCCEEEecCCCCCCCcC
Confidence            4788999999976  5666669999999999999999987653

...

>CHL00176 ftsH cell division protein; Validated

Probab=97.70  E-value=0.00077  Score=72.44  Aligned_cols=164  Identities=20%  Similarity=0.219  Sum_probs=92.5

Q ss_pred             cccccchHHHHHHHHH---hcCC---------CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eecc---Cc
Q 048213          106 EAFESRMSTFNDILNA---LKSP---------DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEE---SE  167 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~---l~~~---------~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~---~~  167 (532)
                      ..+.|.++..+++.+.   +...         ..+-+.++|++|+|||+||+++++...+.  |-..-   +...   ..
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p--~i~is~s~f~~~~~g~~  260 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP--FFSISGSEFVEMFVGVG  260 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC--eeeccHHHHHHHhhhhh
Confidence            3466766655554443   3321         24568999999999999999999876432  21110   1000   01


Q ss_pred             hhhHHHHHHHHhccCcEEEEEcCCCCcc------------c----ccccccccC--CCCCCeEEEEeecChHHhh-hcCC
Q 048213          168 SGRARSLCNRLKKEKMILVILDNIWENL------------D----FHAVGIPHG--DDHKGCKVLLTARSLDVLS-RKMD  228 (532)
Q Consensus       168 ~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~~~~~--~~~~gs~ilvTtr~~~v~~-~~~~  228 (532)
                      ......+.+.......++|++||++...            .    +..+...+.  ....+..||.||....... ....
T Consensus       261 ~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlR  340 (638)
T CHL00176        261 AARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLR  340 (638)
T ss_pred             HHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhc
Confidence            1122333444444578999999996431            1    112211111  1234566777776654331 1121


Q ss_pred             ---CCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCC
Q 048213          229 ---SQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAG  273 (532)
Q Consensus       229 ---~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~g  273 (532)
                         -...+.++..+.++-.++|..++......  .......+++.+.|
T Consensus       341 pGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~--~d~~l~~lA~~t~G  386 (638)
T CHL00176        341 PGRFDRQITVSLPDREGRLDILKVHARNKKLS--PDVSLELIARRTPG  386 (638)
T ss_pred             cccCceEEEECCCCHHHHHHHHHHHHhhcccc--hhHHHHHHHhcCCC
Confidence               23578888899999999998887542211  12345677777777

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=97.69  E-value=7.1e-06  Score=76.60  Aligned_cols=148  Identities=21%  Similarity=0.156  Sum_probs=73.8

Q ss_pred             HHhhhhcccccC--CchhhhccccccEEEeccccccC--cccccccccccEEeecccc-cccc-------ccCCcceEEe
Q 048213          372 VVIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNE-LTRA-------GSSQLKHLSV  439 (532)
Q Consensus       372 ~~l~l~~~~l~~--lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~-l~~~-------~l~~Lr~L~l  439 (532)
                      .++|++...++-  +..-++++.+|+.|.+.++.+.+  ...|.+-.+|+.|+++.++ +++.       .++.|..|+|
T Consensus       188 q~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNl  267 (419)
T KOG2120|consen  188 QHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNL  267 (419)
T ss_pred             HHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcCc
Confidence            345555554422  23334556666666666666666  2345566666666666552 3222       5566666666


Q ss_pred             ccccccCCCCCccccc-CCCCCEEecCCc--ccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEE
Q 048213          440 RGLRASAPNPTESEVA-LPKLETVCLSSI--NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL  516 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~-l~~L~~L~L~~~--~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L  516 (532)
                      +.|....+.....+.+ -++|.-|+|+|+  ++..-.-+++   .-+.++|..|||++|..++.- -...+-+++.|++|
T Consensus       268 sWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL---~~rcp~l~~LDLSD~v~l~~~-~~~~~~kf~~L~~l  343 (419)
T KOG2120|consen  268 SWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTL---VRRCPNLVHLDLSDSVMLKND-CFQEFFKFNYLQHL  343 (419)
T ss_pred             hHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHH---HHhCCceeeeccccccccCch-HHHHHHhcchheee
Confidence            6664312222222221 235666666666  2221100110   023466666666666665542 22222466666666


Q ss_pred             EeecCCc
Q 048213          517 EICECPV  523 (532)
Q Consensus       517 ~l~~c~~  523 (532)
                      .++.|.-
T Consensus       344 SlsRCY~  350 (419)
T KOG2120|consen  344 SLSRCYD  350 (419)
T ss_pred             ehhhhcC
Confidence            6666653

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=97.67  E-value=0.00037  Score=73.08  Aligned_cols=143  Identities=21%  Similarity=0.161  Sum_probs=88.1

Q ss_pred             ccccchHHHHHHHHHhc------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc-Cc-----------h
Q 048213          107 AFESRMSTFNDILNALK------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE-SE-----------S  168 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~-~~-----------~  168 (532)
                      .-+|-++.+++|++.|.      .-.-+++++||++|+|||+|++.+++....+  |-....... ++           .
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rk--fvR~sLGGvrDEAEIRGHRRTYIG  401 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRK--FVRISLGGVRDEAEIRGHRRTYIG  401 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCC--EEEEecCccccHHHhccccccccc
Confidence            45699999999999987      2345899999999999999999999876544  433331111 11           1


Q ss_pred             hhHHHHHHHHh--ccCcEEEEEcCCCCcc------------------cccccccccCCCC-CCeEE--EEeecChH-Hhh
Q 048213          169 GRARSLCNRLK--KEKMILVILDNIWENL------------------DFHAVGIPHGDDH-KGCKV--LLTARSLD-VLS  224 (532)
Q Consensus       169 ~~~~~l~~~l~--~~k~~LlVlDdv~~~~------------------~~~~l~~~~~~~~-~gs~i--lvTtr~~~-v~~  224 (532)
                      ..-.++.+.++  +.++=+++||.++...                  |=..|........ -=|.|  |.|..+-+ ++.
T Consensus       402 amPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~tIP~  481 (782)
T COG0466         402 AMPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLDTIPA  481 (782)
T ss_pred             cCChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCccccCCh
Confidence            12234444443  2478899999997431                  1111111100000 01334  33444433 443


Q ss_pred             hcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          225 RKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       225 ~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      -.+....++++.+-+++|=.++-.++.
T Consensus       482 PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         482 PLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             HHhcceeeeeecCCChHHHHHHHHHhc
Confidence            356677899999999999888777665

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.67  E-value=1.7e-05  Score=85.66  Aligned_cols=126  Identities=16%  Similarity=0.132  Sum_probs=84.0

Q ss_pred             hhHHhhhhcccc--cCCchhhh-ccccccEEEeccccccC---cccccccccccEEeecccccccc----ccCCcceEEe
Q 048213          370 ARVVIDLTYMNL--LSLPSSLG-LLTNLQTLCLYYCKLQD---TSVLGELKILEILRLRVNELTRA----GSSQLKHLSV  439 (532)
Q Consensus       370 ~~~~l~l~~~~l--~~lp~~~~-~l~~L~~L~l~~~~l~~---~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l  439 (532)
                      +.+.+++.|...  ...|..++ .+|.|+.|.+.+-.+..   .....++++|..||+++++++.+    .+++|+.|.+
T Consensus       123 nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~GIS~LknLq~L~m  202 (699)
T KOG3665|consen  123 NLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLSGISRLKNLQVLSM  202 (699)
T ss_pred             hhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcHHHhccccHHHHhc
Confidence            336677777543  22455555 47899999998876654   23456889999999999988877    7888888888


Q ss_pred             ccccccCCCCCcccccCCCCCEEecCCccccccccccc-cccc-ccCCCccEEEeccC
Q 048213          440 RGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQV-AAMS-CGIQNLKRLILFNC  495 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~-~~~~-~~L~~L~~L~L~~c  495 (532)
                      .+-.+........+-+|++|+.||+|......-+.-+. ...+ -.|++|+.||.++.
T Consensus       203 rnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgT  260 (699)
T KOG3665|consen  203 RNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGT  260 (699)
T ss_pred             cCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCc
Confidence            88766322334456678999999999873332221110 0011 13789999998873

>PRK10536 hypothetical protein; Provisional

Probab=97.66  E-value=0.00041  Score=65.01  Aligned_cols=56  Identities=27%  Similarity=0.227  Sum_probs=43.9

Q ss_pred             cccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          104 DYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      +...+.+|......++.++.+.  .++.+.|++|.|||+||.++..+.-..+.|+..+
T Consensus        53 ~~~~i~p~n~~Q~~~l~al~~~--~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIi  108 (262)
T PRK10536         53 DTSPILARNEAQAHYLKAIESK--QLIFATGEAGCGKTWISAAKAAEALIHKDVDRII  108 (262)
T ss_pred             CCccccCCCHHHHHHHHHHhcC--CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEE
Confidence            3456778889999999988764  4999999999999999999888643234476665

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.65  E-value=9.1e-05  Score=62.95  Aligned_cols=92  Identities=20%  Similarity=0.195  Sum_probs=52.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhcc----CCCCEEE---------------------Eec---cCchhhHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENE----KLFDRVI---------------------FVE---ESESGRARSLCNR  177 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~---------------------~~~---~~~~~~~~~l~~~  177 (532)
                      +.+.+.|+|.+|+|||+++..+++.....    .+.+...                     ...   .+.....+.+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDA   82 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHH
Confidence            34789999999999999999999875421    0112111                     000   1233445667777


Q ss_pred             HhccCcEEEEEcCCCCc-c--cccccccccCCCCCCeEEEEeecC
Q 048213          178 LKKEKMILVILDNIWEN-L--DFHAVGIPHGDDHKGCKVLLTARS  219 (532)
Q Consensus       178 l~~~k~~LlVlDdv~~~-~--~~~~l~~~~~~~~~gs~ilvTtr~  219 (532)
                      +.+.+..+||+|+++.. .  .++.+..-.  +..+.++|+..+.
T Consensus        83 l~~~~~~~lviDe~~~l~~~~~l~~l~~l~--~~~~~~vvl~G~~  125 (131)
T PF13401_consen   83 LDRRRVVLLVIDEADHLFSDEFLEFLRSLL--NESNIKVVLVGTP  125 (131)
T ss_dssp             HHHCTEEEEEEETTHHHHTHHHHHHHHHHT--CSCBEEEEEEESS
T ss_pred             HHhcCCeEEEEeChHhcCCHHHHHHHHHHH--hCCCCeEEEEECh
Confidence            77555579999999875 2  233332221  2566777776654

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=97.62  E-value=0.00014  Score=67.77  Aligned_cols=151  Identities=17%  Similarity=0.102  Sum_probs=83.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEeccCc---------hhhHHHHHHHHhccCcEEEEEcCCCCcc-
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEESE---------SGRARSLCNRLKKEKMILVILDNIWENL-  195 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~~~---------~~~~~~l~~~l~~~k~~LlVlDdv~~~~-  195 (532)
                      ...+.|+|..|+|||.|.+++++...... ............         ......+.+.+.  .-=+|++||++... 
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~~~~~~~~~~~~--~~DlL~iDDi~~l~~  111 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRDGEIEEFKDRLR--SADLLIIDDIQFLAG  111 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHTTSHHHHHHHHC--TSSEEEEETGGGGTT
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHcccchhhhhhhh--cCCEEEEecchhhcC
Confidence            45789999999999999999999765431 122222221111         112334555555  23489999997652 


Q ss_pred             --ccccc-ccccCC-CCCCeEEEEeecChHHh-h-------hcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHH
Q 048213          196 --DFHAV-GIPHGD-DHKGCKVLLTARSLDVL-S-------RKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWV  263 (532)
Q Consensus       196 --~~~~l-~~~~~~-~~~gs~ilvTtr~~~v~-~-------~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~  263 (532)
                        .|... ..-+.. ...|.+||+|++..... .       .......++++.+++.++-.+++.+.+..... .--+++
T Consensus       112 ~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~-~l~~~v  190 (219)
T PF00308_consen  112 KQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGI-ELPEEV  190 (219)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT---S-HHH
T ss_pred             chHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCC-CCcHHH
Confidence              22221 111100 13466899999654321 0       11233458999999999999999988762111 123566


Q ss_pred             HHHHHHHcCCchHHHHH
Q 048213          264 AKDVAKKCAGLPVSIVT  280 (532)
Q Consensus       264 ~~~i~~~c~glPLai~~  280 (532)
                      ++-|++.+.+..-.+..
T Consensus       191 ~~~l~~~~~~~~r~L~~  207 (219)
T PF00308_consen  191 IEYLARRFRRDVRELEG  207 (219)
T ss_dssp             HHHHHHHTTSSHHHHHH
T ss_pred             HHHHHHhhcCCHHHHHH
Confidence            66777776665544433

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.60  E-value=0.00015  Score=71.77  Aligned_cols=44  Identities=11%  Similarity=-0.042  Sum_probs=34.4

Q ss_pred             HHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          117 DILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       117 ~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      ++++.+. -+.-...+|+|++|+||||||+.+|+..... +|+..+
T Consensus       158 rvID~l~PIGkGQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~  202 (416)
T PRK09376        158 RIIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHL  202 (416)
T ss_pred             eeeeeecccccCceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEE
Confidence            4455444 2344778999999999999999999988775 788775

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.59  E-value=0.0017  Score=63.90  Aligned_cols=173  Identities=11%  Similarity=0.092  Sum_probs=106.6

Q ss_pred             cccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc-------------CCCCEEEEecc-----C
Q 048213          106 EAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE-------------KLFDRVIFVEE-----S  166 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~-------------~~F~~~~~~~~-----~  166 (532)
                      ..++|.+..++.+.+.+..+.+ ....++|+.|+||+++|..+++..--.             ..+++..+...     .
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g   83 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQG   83 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccc
Confidence            3578999999999998887764 789999999999999999887753211             11211111110     0


Q ss_pred             ---------------------chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecC
Q 048213          167 ---------------------ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARS  219 (532)
Q Consensus       167 ---------------------~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~  219 (532)
                                           ..+.+..+.+.+.    .+++-++|+|++...  ...+.+...+-.-.+..-|++|+..
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~  163 (314)
T PRK07399         84 KLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSP  163 (314)
T ss_pred             cccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECCh
Confidence                                 0112334444443    256678999998755  3344443333211233444555554


Q ss_pred             hHHhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHH
Q 048213          220 LDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVA  282 (532)
Q Consensus       220 ~~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  282 (532)
                      ..+..........+.+.++++++..+.+.+.....    ........++..++|.|.......
T Consensus       164 ~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~----~~~~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        164 ESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEE----ILNINFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             HhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccc----cchhHHHHHHHHcCCCHHHHHHHH
Confidence            44444344445689999999999999998864311    111124688899999996655433

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.59  E-value=0.00069  Score=70.41  Aligned_cols=169  Identities=16%  Similarity=0.122  Sum_probs=91.5

Q ss_pred             ccccccchHHHHHHHHHh---c-------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Ee--ccCchh
Q 048213          105 YEAFESRMSTFNDILNAL---K-------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FV--EESESG  169 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l---~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~--~~~~~~  169 (532)
                      ...+.|.+..++.+.+..   .       -...+-|.++|++|+|||.+|+++++..... .|....   +.  ......
T Consensus       227 ~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~-~~~l~~~~l~~~~vGese~  305 (489)
T CHL00195        227 ISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLP-LLRLDVGKLFGGIVGESES  305 (489)
T ss_pred             HHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC-EEEEEhHHhcccccChHHH
Confidence            345667666555544321   1       1235678999999999999999999976432 011110   00  011122


Q ss_pred             hHHHHHHHHhccCcEEEEEcCCCCccc----c----------cccccccCCCCCCeEEEEeecChHHhh-hcC---CCCc
Q 048213          170 RARSLCNRLKKEKMILVILDNIWENLD----F----------HAVGIPHGDDHKGCKVLLTARSLDVLS-RKM---DSQQ  231 (532)
Q Consensus       170 ~~~~l~~~l~~~k~~LlVlDdv~~~~~----~----------~~l~~~~~~~~~gs~ilvTtr~~~v~~-~~~---~~~~  231 (532)
                      ....+.+......+++|++|+++....    .          ..+...+.....+.-||.||....... ...   .-..
T Consensus       306 ~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~  385 (489)
T CHL00195        306 RMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDE  385 (489)
T ss_pred             HHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCe
Confidence            333444443445789999999974310    0          001111111233445666776654321 111   2335


Q ss_pred             eEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          232 DFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       232 ~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      .+.++..+.++-.++|..+.....+..........+++.+.|.
T Consensus       386 ~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~Gf  428 (489)
T CHL00195        386 IFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKF  428 (489)
T ss_pred             EEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCC
Confidence            7888888999999999887753222111112245666666664

>PHA00729 NTP-binding motif containing protein

Probab=97.56  E-value=0.00027  Score=65.06  Aligned_cols=119  Identities=13%  Similarity=0.132  Sum_probs=66.7

Q ss_pred             HHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhcc------------CCCCEEEEeccCchhhHHHHHHHHhccCc
Q 048213          116 NDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENE------------KLFDRVIFVEESESGRARSLCNRLKKEKM  183 (532)
Q Consensus       116 ~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------------~~F~~~~~~~~~~~~~~~~l~~~l~~~k~  183 (532)
                      .++++.+...+...|.|.|.+|+||||||..+.+..-..            ....+.++   +.......+.....+..+
T Consensus         6 k~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fi---d~~~Ll~~L~~a~~~~~~   82 (226)
T PHA00729          6 KKIVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFF---ELPDALEKIQDAIDNDYR   82 (226)
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEE---EHHHHHHHHHHHHhcCCC
Confidence            456666777777889999999999999999998874211            01112222   233444555544443222


Q ss_pred             -EEEEEcCC--CCc-ccccccccccCCCCCCeEEEEeecChHHhhhcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          184 -ILVILDNI--WEN-LDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       184 -~LlVlDdv--~~~-~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                       =+||+||+  |-. ..|..-  .         .   +-.-.+..........+.+.++++++..+.+....
T Consensus        83 ~dlLIIDd~G~~~~~~~wh~~--~---------~---~~yf~L~~aLrSR~~l~il~~ls~edL~~~Lr~Rg  140 (226)
T PHA00729         83 IPLIIFDDAGIWLSKYVWYED--Y---------M---KTFYKIYALIRTRVSAVIFTTPSPEDLAFYLREKG  140 (226)
T ss_pred             CCEEEEeCCchhhcccchhhh--c---------c---chHHHHHHHHHhhCcEEEEecCCHHHHHHHHHhCC
Confidence             37999994  322 123210  0         0   00000111112234567788888888888888754

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=97.54  E-value=0.00015  Score=68.62  Aligned_cols=36  Identities=14%  Similarity=-0.104  Sum_probs=30.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      .....++|+|++|+|||||++.++++.... +|+..+
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~   49 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYL   49 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEE
Confidence            345789999999999999999999987665 787775

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.50  E-value=0.002  Score=64.10  Aligned_cols=144  Identities=10%  Similarity=0.051  Sum_probs=86.9

Q ss_pred             cccc-chHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccC--------------------CCCEEEEec
Q 048213          107 AFES-RMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEK--------------------LFDRVIFVE  164 (532)
Q Consensus       107 ~~~g-R~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~~~~~~  164 (532)
                      .++| -+..++.+.+.+..+.+ ....++|+.|+||||+|..+.+..--..                    |-|......
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~~   85 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVAP   85 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEecc
Confidence            3455 66677777777776654 5568999999999999999877642111                    223332221


Q ss_pred             cCc---hhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEE
Q 048213          165 ESE---SGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFW  234 (532)
Q Consensus       165 ~~~---~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~  234 (532)
                      ...   .+.+..+.+.+.    .+.+-++|+|++...  +..+.+...+..-..++.+|++|.+.. +..........++
T Consensus        86 ~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc~~i~  165 (329)
T PRK08058         86 DGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRCQVVE  165 (329)
T ss_pred             ccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhceeee
Confidence            111   123334444443    245567999998755  234444444433345666666666543 3333334456899


Q ss_pred             ccCCCHHHHHHHHHHH
Q 048213          235 VGVLKEDEAWSLFKKM  250 (532)
Q Consensus       235 l~~L~~~~~~~Lf~~~  250 (532)
                      +.+++.++..+.+...
T Consensus       166 ~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        166 FRPLPPESLIQRLQEE  181 (329)
T ss_pred             CCCCCHHHHHHHHHHc
Confidence            9999999998888653

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=97.50  E-value=7.6e-06  Score=84.38  Aligned_cols=106  Identities=25%  Similarity=0.240  Sum_probs=81.3

Q ss_pred             HHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEec
Q 048213          365 MEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVR  440 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~  440 (532)
                      +........+++.++.+..+...+..+.+|++|++++|.+..+..+..++.|+.|++.+|.+..+    .+++|+.++++
T Consensus        91 l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L~l~~N~i~~~~~~~~l~~L~~l~l~  170 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNLSGNLISDISGLESLKSLKLLDLS  170 (414)
T ss_pred             cccccceeeeeccccchhhcccchhhhhcchheeccccccccccchhhccchhhheeccCcchhccCCccchhhhcccCC
Confidence            33444446778888888877766788899999999999999888888888899999999988877    47788889999


Q ss_pred             cccccCCCCCcc-cccCCCCCEEecCCcccccc
Q 048213          441 GLRASAPNPTES-EVALPKLETVCLSSINIERI  472 (532)
Q Consensus       441 ~~~~~~~~~~~~-~~~l~~L~~L~L~~~~l~~l  472 (532)
                      +|++  ...... ...+.+|+.+.+.+|.+..+
T Consensus       171 ~n~i--~~ie~~~~~~~~~l~~l~l~~n~i~~i  201 (414)
T KOG0531|consen  171 YNRI--VDIENDELSELISLEELDLGGNSIREI  201 (414)
T ss_pred             cchh--hhhhhhhhhhccchHHHhccCCchhcc
Confidence            8876  222211 46778888888888866543

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.49  E-value=0.0021  Score=66.24  Aligned_cols=88  Identities=17%  Similarity=0.148  Sum_probs=63.1

Q ss_pred             ccccccchHHHHHHHHHhc---C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE------EeccC
Q 048213          105 YEAFESRMSTFNDILNALK---S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------FVEES  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~---~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~------~~~~~  166 (532)
                      -..+-|.+..+.++.+.+.   .         ...+-|.+||++|.|||.||+++++...+-  |-.+.      -....
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vP--f~~isApeivSGvSGE  266 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVP--FLSISAPEIVSGVSGE  266 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCc--eEeecchhhhcccCcc
Confidence            4567888998888887765   1         246789999999999999999999988765  43222      11112


Q ss_pred             chhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          167 ESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       167 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      .+..+..++..-.+.-.|++++|+++..
T Consensus       267 SEkkiRelF~~A~~~aPcivFiDeIDAI  294 (802)
T KOG0733|consen  267 SEKKIRELFDQAKSNAPCIVFIDEIDAI  294 (802)
T ss_pred             cHHHHHHHHHHHhccCCeEEEeeccccc
Confidence            2334556666655568899999999743

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.47  E-value=0.00024  Score=71.13  Aligned_cols=68  Identities=22%  Similarity=0.331  Sum_probs=37.4

Q ss_pred             HhhHHhhhhcccccCCchhhhccccccEEEecccc-ccC-cccccccccccEEeeccc-cccccccCCcceEEeccc
Q 048213          369 RARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCK-LQD-TSVLGELKILEILRLRVN-ELTRAGSSQLKHLSVRGL  442 (532)
Q Consensus       369 ~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~-l~~-~~~i~~l~~L~~L~l~~~-~l~~~~l~~Lr~L~l~~~  442 (532)
                      .+...|++.+|++..+|.   -..+|+.|.+.+|. +.. |..+  .++|++|.+++| .+..+ .+.|+.|.+.++
T Consensus        52 ~~l~~L~Is~c~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sL-P~sLe~L~L~~n  122 (426)
T PRK15386         52 RASGRLYIKDCDIESLPV---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGL-PESVRSLEIKGS  122 (426)
T ss_pred             cCCCEEEeCCCCCcccCC---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCccccccc-ccccceEEeCCC
Confidence            334566777777777662   23357777777653 222 2222  246777777766 44433 234666666544

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.47  E-value=0.0012  Score=68.49  Aligned_cols=172  Identities=13%  Similarity=0.054  Sum_probs=98.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc-CCCCEEEEeccCc-h----------hhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE-KLFDRVIFVEESE-S----------GRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~~~~~~~-~----------~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      ...+.|+|..|+|||.|++++.+..... ............. .          .....+.+.+.  ..-+||+||+...
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~~--~~dvLiIDDiq~l  218 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEIC--QNDVLIIDDVQFL  218 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHhc--cCCEEEEeccccc
Confidence            3568999999999999999999864432 1122221111110 0          11122222232  2348999999754


Q ss_pred             c---cc-cccccccCC-CCCCeEEEEeecChHHh--------hhcCCCCceEEccCCCHHHHHHHHHHHhCCCCC-Ccch
Q 048213          195 L---DF-HAVGIPHGD-DHKGCKVLLTARSLDVL--------SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIE-GSEF  260 (532)
Q Consensus       195 ~---~~-~~l~~~~~~-~~~gs~ilvTtr~~~v~--------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~-~~~~  260 (532)
                      .   .+ +.+...+.. ...|..||+|+....-.        ...+...-++.+.+++.++-.+++.+.+-.... ..-.
T Consensus       219 ~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~  298 (450)
T PRK14087        219 SYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQEVT  298 (450)
T ss_pred             cCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCCCCC
Confidence            2   12 222221111 12345688887643211        111333467889999999999999988752211 1234


Q ss_pred             HHHHHHHHHHcCCchHHHHHHHHHHc-----c---C--ChHHHHHHHHHh
Q 048213          261 KWVAKDVAKKCAGLPVSIVTVARALR-----N---K--RLFDWKDALEQL  300 (532)
Q Consensus       261 ~~~~~~i~~~c~glPLai~~~~~~l~-----~---~--~~~~w~~~l~~~  300 (532)
                      +++..-|+..+.|.|-.+.-+...+.     .   +  +.+.-+.++...
T Consensus       299 ~evl~~Ia~~~~gd~R~L~gaL~~l~~~a~~~~~~~~it~~~v~~~l~~~  348 (450)
T PRK14087        299 EEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLFRDI  348 (450)
T ss_pred             HHHHHHHHHccCCCHHHHHHHHHHHHHHHhcccCCCCCCHHHHHHHHhhc
Confidence            67889999999999977765553331     1   2  555555555544

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.46  E-value=0.0018  Score=71.84  Aligned_cols=167  Identities=14%  Similarity=0.123  Sum_probs=94.5

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe------cc
Q 048213          105 YEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV------EE  165 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~------~~  165 (532)
                      ...+.|.+..++.|.+.+.             -...+-+.++|++|+|||++|+++++.....  |-..-..      ..
T Consensus       452 ~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~--fi~v~~~~l~~~~vG  529 (733)
T TIGR01243       452 WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGAN--FIAVRGPEILSKWVG  529 (733)
T ss_pred             hhhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCC--EEEEehHHHhhcccC
Confidence            3456677777776666543             1234568899999999999999999876432  3211100      01


Q ss_pred             CchhhHHHHHHHHhccCcEEEEEcCCCCcc--------------cccccccccCC--CCCCeEEEEeecChHHhh-hcC-
Q 048213          166 SESGRARSLCNRLKKEKMILVILDNIWENL--------------DFHAVGIPHGD--DHKGCKVLLTARSLDVLS-RKM-  227 (532)
Q Consensus       166 ~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--------------~~~~l~~~~~~--~~~gs~ilvTtr~~~v~~-~~~-  227 (532)
                      .....+..+.+.......++|++|+++...              ....+...+..  ...+.-||.||....... ... 
T Consensus       530 ese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allR  609 (733)
T TIGR01243       530 ESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLR  609 (733)
T ss_pred             cHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcC
Confidence            112234445555444577999999986431              01112112211  123455666776655431 122 


Q ss_pred             --CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          228 --DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       228 --~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                        .-...+.+...+.++-.++|..+.......+..  ....+++.+.|.-
T Consensus       610 pgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~--~l~~la~~t~g~s  657 (733)
T TIGR01243       610 PGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDV--DLEELAEMTEGYT  657 (733)
T ss_pred             CCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccC--CHHHHHHHcCCCC
Confidence              234578888889998889987765432211111  1456667777653

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.44  E-value=0.0011  Score=67.28  Aligned_cols=52  Identities=23%  Similarity=0.191  Sum_probs=41.2

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCC
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFD  158 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~  158 (532)
                      ...+++.++..+.++..+...  +.+.++|++|+|||++|+.+++.......|+
T Consensus       174 l~d~~i~e~~le~l~~~L~~~--~~iil~GppGtGKT~lA~~la~~l~~~~~~~  225 (459)
T PRK11331        174 LNDLFIPETTIETILKRLTIK--KNIILQGPPGVGKTFVARRLAYLLTGEKAPQ  225 (459)
T ss_pred             hhcccCCHHHHHHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhcCCcccc
Confidence            345678889999999988754  5788899999999999999998765443343

>PRK08118 topology modulation protein; Reviewed

Probab=97.44  E-value=0.00023  Score=63.29  Aligned_cols=63  Identities=19%  Similarity=0.243  Sum_probs=39.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc-CCCCEEEE----eccCchhhHHHHHHHHhccCcEEEEEcCCCC
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE-KLFDRVIF----VEESESGRARSLCNRLKKEKMILVILDNIWE  193 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~~----~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  193 (532)
                      +.|.|+|++|+||||||+.+++..... -+||..++    ...+..+....+.+.+. +..  .|+|....
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~~~~w~~~~~~~~~~~~~~~~~-~~~--wVidG~~~   69 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPNWEGVPKEEQITVQNELVK-EDE--WIIDGNYG   69 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhcccCCcCCCHHHHHHHHHHHhc-CCC--EEEeCCcc
Confidence            468999999999999999999986654 44665542    22333333333333343 344  46676543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.42  E-value=0.0028  Score=66.03  Aligned_cols=171  Identities=16%  Similarity=0.084  Sum_probs=97.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEeccCc-hh--------hHHHHHHHHhccCcEEEEEcCCCCccc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEESE-SG--------RARSLCNRLKKEKMILVILDNIWENLD  196 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~~~-~~--------~~~~l~~~l~~~k~~LlVlDdv~~~~~  196 (532)
                      ...+.|+|+.|+|||+|++++++....+. ..........+. ..        ....+.+.+.  +.-+|+|||+.....
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~--~~dlLiiDDi~~l~~  225 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRNNTMEEFKEKYR--SVDVLLIDDIQFLAG  225 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHcCcHHHHHHHHh--cCCEEEEehhhhhcC
Confidence            46689999999999999999999865431 111111111110 00        1123333443  234899999975311


Q ss_pred             ---c-cccccccCC-CCCCeEEEEeecChH--Hh------hhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHH
Q 048213          197 ---F-HAVGIPHGD-DHKGCKVLLTARSLD--VL------SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWV  263 (532)
Q Consensus       197 ---~-~~l~~~~~~-~~~gs~ilvTtr~~~--v~------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~  263 (532)
                         + +.+...+.. ...|..+|+||....  +.      ........++.+.+.+.++-..++.+.+... ...--+++
T Consensus       226 ~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~-~~~l~~e~  304 (450)
T PRK00149        226 KERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEE-GIDLPDEV  304 (450)
T ss_pred             CHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHc-CCCCCHHH
Confidence               1 122111110 123455777776532  10      1123334578999999999999999987532 12223667


Q ss_pred             HHHHHHHcCCchHHHH----HHHHH--HccC--ChHHHHHHHHHh
Q 048213          264 AKDVAKKCAGLPVSIV----TVARA--LRNK--RLFDWKDALEQL  300 (532)
Q Consensus       264 ~~~i~~~c~glPLai~----~~~~~--l~~~--~~~~w~~~l~~~  300 (532)
                      ..-|++.+.|..-.+.    .+..+  +.++  +.+..+.++...
T Consensus       305 l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~~  349 (450)
T PRK00149        305 LEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKDL  349 (450)
T ss_pred             HHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            8888888888765433    22222  1222  777777777765

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.41  E-value=0.0029  Score=65.11  Aligned_cols=171  Identities=16%  Similarity=0.065  Sum_probs=94.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEeccCc-h--------hhHHHHHHHHhccCcEEEEEcCCCCccc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEESE-S--------GRARSLCNRLKKEKMILVILDNIWENLD  196 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~~~-~--------~~~~~l~~~l~~~k~~LlVlDdv~~~~~  196 (532)
                      ...+.|+|+.|+|||.|++++++....+. ............ .        .....+.+.+.  ..-+|+|||+.....
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~--~~dlLiiDDi~~l~~  213 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKYR--SVDLLLIDDIQFLAG  213 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHHH--hCCEEEEehhhhhcC
Confidence            35689999999999999999998765431 111111111100 0        01122333343  234899999975421


Q ss_pred             ---c-cccccccCC-CCCCeEEEEeecChHHh-h-------hcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHH
Q 048213          197 ---F-HAVGIPHGD-DHKGCKVLLTARSLDVL-S-------RKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWV  263 (532)
Q Consensus       197 ---~-~~l~~~~~~-~~~gs~ilvTtr~~~v~-~-------~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~  263 (532)
                         + +.+...+.. ...|..+|+|+....-. .       ..+.....+.+.+.+.++-.+++.+.+.... ..--+++
T Consensus       214 ~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~~~-~~l~~e~  292 (405)
T TIGR00362       214 KERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEEEG-LELPDEV  292 (405)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHHcC-CCCCHHH
Confidence               1 112111111 12345678877642211 1       1122234789999999999999998876321 2223677


Q ss_pred             HHHHHHHcCCchHHHHH----HHHHH--ccC--ChHHHHHHHHHh
Q 048213          264 AKDVAKKCAGLPVSIVT----VARAL--RNK--RLFDWKDALEQL  300 (532)
Q Consensus       264 ~~~i~~~c~glPLai~~----~~~~l--~~~--~~~~w~~~l~~~  300 (532)
                      ..-|++.+.|..-.+.-    +..+-  .++  +.+....++...
T Consensus       293 l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~~  337 (405)
T TIGR00362       293 LEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKDL  337 (405)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHh
Confidence            88888888887654332    22211  122  666677776654

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=0.0088  Score=60.04  Aligned_cols=176  Identities=16%  Similarity=0.177  Sum_probs=97.1

Q ss_pred             cccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhhccC-CCC-EEE------------------
Q 048213          106 EAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFD-RVI------------------  161 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~-~~~------------------  161 (532)
                      ..+.+|+++++++...|.    .+...-+.|+|..|.|||+.++.+++...... ..+ ..+                  
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~   96 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNK   96 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHH
Confidence            348899999999998876    33344499999999999999999998765431 121 111                  


Q ss_pred             Eec-----cCchhhHHHHHHHHhc-cCcEEEEEcCCCCccccc--ccccccCC-CCCCeEE--EEeecChHHhh------
Q 048213          162 FVE-----ESESGRARSLCNRLKK-EKMILVILDNIWENLDFH--AVGIPHGD-DHKGCKV--LLTARSLDVLS------  224 (532)
Q Consensus       162 ~~~-----~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~~~--~l~~~~~~-~~~gs~i--lvTtr~~~v~~------  224 (532)
                      +..     .+.......+.+.+.. ++.+++|||+++....-+  .+-.-+.. ....++|  |..+.+.....      
T Consensus        97 ~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld~rv  176 (366)
T COG1474          97 LGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPRV  176 (366)
T ss_pred             cCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhhhhh
Confidence            100     1122234455555543 678999999998653321  11011111 1114443  33444433221      


Q ss_pred             -hcCCCCceEEccCCCHHHHHHHHHHHhC----CCCCCcchHHHHHHHHHHcC-CchHHHHHHH
Q 048213          225 -RKMDSQQDFWVGVLKEDEAWSLFKKMAG----DYIEGSEFKWVAKDVAKKCA-GLPVSIVTVA  282 (532)
Q Consensus       225 -~~~~~~~~~~l~~L~~~~~~~Lf~~~~~----~~~~~~~~~~~~~~i~~~c~-glPLai~~~~  282 (532)
                       ...+. ..+...|=+.++-...+...+-    .....+..-+.+..++..-+ -.-.||..+-
T Consensus       177 ~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr  239 (366)
T COG1474         177 KSSLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILR  239 (366)
T ss_pred             hhccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHH
Confidence             11122 2367778888888888887763    22223333333444444444 4445554443

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.40  E-value=0.00021  Score=71.50  Aligned_cols=80  Identities=14%  Similarity=0.135  Sum_probs=54.5

Q ss_pred             hhccccccEEEeccccccCcccccccccccEEeeccc-ccccc---ccCCcceEEeccccccCCCCCcccccCCCCCEEe
Q 048213          388 LGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVN-ELTRA---GSSQLKHLSVRGLRASAPNPTESEVALPKLETVC  463 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~-~l~~~---~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~  463 (532)
                      +..+.+++.|++++|.+..++.+  -.+|++|.+++| ++..+   -.++|++|.+++|.. +..+|      ++|+.|+
T Consensus        48 ~~~~~~l~~L~Is~c~L~sLP~L--P~sLtsL~Lsnc~nLtsLP~~LP~nLe~L~Ls~Cs~-L~sLP------~sLe~L~  118 (426)
T PRK15386         48 IEEARASGRLYIKDCDIESLPVL--PNELTEITIENCNNLTTLPGSIPEGLEKLTVCHCPE-ISGLP------ESVRSLE  118 (426)
T ss_pred             HHHhcCCCEEEeCCCCCcccCCC--CCCCcEEEccCCCCcccCCchhhhhhhheEccCccc-ccccc------cccceEE
Confidence            44567899999999988775532  236999999875 44443   235899999999854 34444      3577777


Q ss_pred             cCCcc---cccccccc
Q 048213          464 LSSIN---IERIWQNQ  476 (532)
Q Consensus       464 L~~~~---l~~lp~~~  476 (532)
                      ++++.   +..+|+++
T Consensus       119 L~~n~~~~L~~LPssL  134 (426)
T PRK15386        119 IKGSATDSIKNVPNGL  134 (426)
T ss_pred             eCCCCCcccccCcchH
Confidence            87764   55666554

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.38  E-value=0.0049  Score=60.52  Aligned_cols=162  Identities=15%  Similarity=0.114  Sum_probs=94.6

Q ss_pred             HHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccC-----------------CCCEEEE--eccC------
Q 048213          113 STFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEK-----------------LFDRVIF--VEES------  166 (532)
Q Consensus       113 ~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~-----------------~F~~~~~--~~~~------  166 (532)
                      ...+.+...+..+.+ ..+.++|+.|+||+++|..+++..--..                 |=|....  ....      
T Consensus        11 ~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~   90 (319)
T PRK08769         11 RAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLR   90 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCccccccc
Confidence            345666666666554 4688999999999999999886532211                 1111112  1110      


Q ss_pred             ---chhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEEcc
Q 048213          167 ---ESGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFWVG  236 (532)
Q Consensus       167 ---~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~l~  236 (532)
                         ..+.+..+.+.+.    .+++-++|+|+++...  .-+.+...+-.-..++.+|++|.+ ..+..........+.+.
T Consensus        91 ~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~  170 (319)
T PRK08769         91 TEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFK  170 (319)
T ss_pred             ccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCC
Confidence               0112233333332    2466789999998652  233333333222345666666655 44433333334578899


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          237 VLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       237 ~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      +++.+++.+.+... +  .    ....+..++..++|.|+....+
T Consensus       171 ~~~~~~~~~~L~~~-~--~----~~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        171 LPPAHEALAWLLAQ-G--V----SERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             CcCHHHHHHHHHHc-C--C----ChHHHHHHHHHcCCCHHHHHHH
Confidence            99999999888753 1  1    1233667899999999866443

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.38  E-value=3.8e-05  Score=79.94  Aligned_cols=108  Identities=22%  Similarity=0.151  Sum_probs=81.1

Q ss_pred             HHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCccccc-ccccccEEeecccccccc----ccCCcceEEe
Q 048213          365 MEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLG-ELKILEILRLRVNELTRA----GSSQLKHLSV  439 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~-~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l  439 (532)
                      ++-+...+.++++.|.+.++- .+..+++|++|+|++|.++..+.++ .-.+|+.|.+++|.++++    ++++|+.|++
T Consensus       183 Lqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrnN~l~tL~gie~LksL~~LDl  261 (1096)
T KOG1859|consen  183 LQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRNNALTTLRGIENLKSLYGLDL  261 (1096)
T ss_pred             HHHHHHhhhhccchhhhhhhH-HHHhcccccccccccchhccccccchhhhhheeeeecccHHHhhhhHHhhhhhhccch
Confidence            444445568899999987766 6888999999999999988854332 223499999999988887    7889999999


Q ss_pred             ccccccCCCCCcccccCCCCCEEecCCccccccc
Q 048213          440 RGLRASAPNPTESEVALPKLETVCLSSINIERIW  473 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp  473 (532)
                      +.|-..--....+++.|..|+.|.|-||.+-.-|
T Consensus       262 syNll~~hseL~pLwsLs~L~~L~LeGNPl~c~p  295 (1096)
T KOG1859|consen  262 SYNLLSEHSELEPLWSLSSLIVLWLEGNPLCCAP  295 (1096)
T ss_pred             hHhhhhcchhhhHHHHHHHHHHHhhcCCccccCH
Confidence            9885422223446677888999999999775443

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.36  E-value=1.1e-05  Score=66.82  Aligned_cols=120  Identities=18%  Similarity=0.162  Sum_probs=69.3

Q ss_pred             HHhcccCCcccHHHHHhhHHhhhhcccccCCchhh---hccccccEEEeccccccC-cccc-cccccccEEeeccccccc
Q 048213          354 MGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSL---GLLTNLQTLCLYYCKLQD-TSVL-GELKILEILRLRVNELTR  428 (532)
Q Consensus       354 ~aeg~~~~~~~~~~~~~~~~l~l~~~~l~~lp~~~---~~l~~L~~L~l~~~~l~~-~~~i-~~l~~L~~L~l~~~~l~~  428 (532)
                      ++.|..+-.++.++..+..+++++.|.+-.++...   ....+|...++++|.+++ |+.+ .+.+.+.+|++.+|.+..
T Consensus        12 agrgV~evVercedakE~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisd   91 (177)
T KOG4579|consen   12 AGRGVNEVVERCEDAKELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISD   91 (177)
T ss_pred             HhhhHHHHHHhhHHHHHhhhcccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhh
Confidence            55555555566677777778888888776555443   344556666788887776 4333 344566677776666655


Q ss_pred             c-----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCccccccccc
Q 048213          429 A-----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQN  475 (532)
Q Consensus       429 ~-----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~  475 (532)
                      +     .++.||.|+++.|.+  ...|..+..|.+|-+|+..+|.+..+|..
T Consensus        92 vPeE~Aam~aLr~lNl~~N~l--~~~p~vi~~L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen   92 VPEELAAMPALRSLNLRFNPL--NAEPRVIAPLIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             chHHHhhhHHhhhcccccCcc--ccchHHHHHHHhHHHhcCCCCccccCcHH
Confidence            4     345555555555543  33333444455555555555544444444

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.34  E-value=7.6e-05  Score=71.43  Aligned_cols=125  Identities=19%  Similarity=0.186  Sum_probs=70.7

Q ss_pred             hHHhhhhcccccC--Cc---hhhhccccccEEEeccccccC---------------cccccccccccEEeecccccccc-
Q 048213          371 RVVIDLTYMNLLS--LP---SSLGLLTNLQTLCLYYCKLQD---------------TSVLGELKILEILRLRVNELTRA-  429 (532)
Q Consensus       371 ~~~l~l~~~~l~~--lp---~~~~~l~~L~~L~l~~~~l~~---------------~~~i~~l~~L~~L~l~~~~l~~~-  429 (532)
                      ...++|++|-+-.  ++   .-+..+..|+.|.+.+|.+..               ...+.+-++|+++....|.+..- 
T Consensus        94 L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrlen~g  173 (382)
T KOG1909|consen   94 LQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRLENGG  173 (382)
T ss_pred             eeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeecccccccc
Confidence            4577888887632  22   235667888999998886543               11345567888888888866544 


Q ss_pred             ---------ccCCcceEEeccccccCCCC----CcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          430 ---------GSSQLKHLSVRGLRASAPNP----TESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       430 ---------~l~~Lr~L~l~~~~~~~~~~----~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                               ..+.|+.+.++.|.+ -++.    ...+...++|+.|||..|-++.-....+....+.+++|+.|++++|.
T Consensus       174 a~~~A~~~~~~~~leevr~~qN~I-~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcl  252 (382)
T KOG1909|consen  174 ATALAEAFQSHPTLEEVRLSQNGI-RPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCL  252 (382)
T ss_pred             HHHHHHHHHhccccceEEEecccc-cCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccc
Confidence                     345566666665544 1111    12445556666666666644433222222222334556666666654

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.33  E-value=0.0008  Score=57.42  Aligned_cols=68  Identities=29%  Similarity=0.181  Sum_probs=42.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc----------------------CchhhHHHHHHHHhccCcEE
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE----------------------SESGRARSLCNRLKKEKMIL  185 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~----------------------~~~~~~~~l~~~l~~~k~~L  185 (532)
                      ..+.|+|++|+||||+|+.++....... .........                      ........+.+.....+..+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG-GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC-CCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            5789999999999999999998765442 122221110                      11112333444444323389


Q ss_pred             EEEcCCCCccc
Q 048213          186 VILDNIWENLD  196 (532)
Q Consensus       186 lVlDdv~~~~~  196 (532)
                      |++|++.....
T Consensus        82 iiiDei~~~~~   92 (148)
T smart00382       82 LILDEITSLLD   92 (148)
T ss_pred             EEEECCcccCC
Confidence            99999987644

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.32  E-value=0.00022  Score=63.29  Aligned_cols=94  Identities=26%  Similarity=0.246  Sum_probs=73.7

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc-------ccCCcceEEecccc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA-------GSSQLKHLSVRGLR  443 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~l~~~~  443 (532)
                      .+|+.+|.+..++. +..+++|.+|.+.+|.+..  +.--.-+++|.+|.+.+|++.++       .+|+|++|.+-+|.
T Consensus        46 ~iDLtdNdl~~l~~-lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll~Np  124 (233)
T KOG1644|consen   46 AIDLTDNDLRKLDN-LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTLLGNP  124 (233)
T ss_pred             eecccccchhhccc-CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeeecCCc
Confidence            56788887765543 6788999999999999988  33345678899999999998887       78999999999996


Q ss_pred             ccC--CCCCcccccCCCCCEEecCCc
Q 048213          444 ASA--PNPTESEVALPKLETVCLSSI  467 (532)
Q Consensus       444 ~~~--~~~~~~~~~l~~L~~L~L~~~  467 (532)
                      ...  .--..-+..+|+|++||+.+-
T Consensus       125 v~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  125 VEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             hhcccCceeEEEEecCcceEeehhhh
Confidence            511  112235678999999999886

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.31  E-value=0.0018  Score=68.36  Aligned_cols=148  Identities=15%  Similarity=0.051  Sum_probs=83.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc-CCCCEEEEeccCc-hh--------hHHHHHHHHhccCcEEEEEcCCCCc--
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE-KLFDRVIFVEESE-SG--------RARSLCNRLKKEKMILVILDNIWEN--  194 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~~~~~~~-~~--------~~~~l~~~l~~~k~~LlVlDdv~~~--  194 (532)
                      ...+.|+|..|+|||.|++++++..... ..+.......... ..        ....+.+++.  +-=+|+|||+...  
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~y~--~~DLLlIDDIq~l~g  391 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRRYR--EMDILLVDDIQFLED  391 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHHhh--cCCEEEEehhccccC
Confidence            3458999999999999999999976432 1122222111110 01        1112222332  1248999999754  


Q ss_pred             -ccccc-cccccCC-CCCCeEEEEeecChH--H------hhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHH
Q 048213          195 -LDFHA-VGIPHGD-DHKGCKVLLTARSLD--V------LSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWV  263 (532)
Q Consensus       195 -~~~~~-l~~~~~~-~~~gs~ilvTtr~~~--v------~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~  263 (532)
                       +.|.. +...+.. ...|..||+||+...  +      +...+...-++.+...+.+.-.+++.+++.... ..--+++
T Consensus       392 ke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r~-l~l~~eV  470 (617)
T PRK14086        392 KESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQEQ-LNAPPEV  470 (617)
T ss_pred             CHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhcC-CCCCHHH
Confidence             22222 2111111 123556888887631  1      011234456889999999999999998876321 1222566


Q ss_pred             HHHHHHHcCCchHH
Q 048213          264 AKDVAKKCAGLPVS  277 (532)
Q Consensus       264 ~~~i~~~c~glPLa  277 (532)
                      .+-|++.+.+..-.
T Consensus       471 i~yLa~r~~rnvR~  484 (617)
T PRK14086        471 LEFIASRISRNIRE  484 (617)
T ss_pred             HHHHHHhccCCHHH
Confidence            77777777655433

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.29  E-value=0.0066  Score=60.84  Aligned_cols=177  Identities=14%  Similarity=0.148  Sum_probs=110.4

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEccCCCchHHHH-HHHHHHhhccCCCCEEE----------------------------
Q 048213          111 RMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPA-KEVAIKAENEKLFDRVI----------------------------  161 (532)
Q Consensus       111 R~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA-~~v~~~~~~~~~F~~~~----------------------------  161 (532)
                      |.+..++|..||.+..-..|.|.||-|+||+.|+ .++.++.+..-..||.-                            
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r~~vL~IDC~~i~~ar~D~~~I~~lA~qvGY~PvFsw~n   80 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDRKNVLVIDCDQIVKARGDAAFIKNLASQVGYFPVFSWMN   80 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCCCCEEEEEChHhhhccChHHHHHHHHHhcCCCcchHHHH
Confidence            6678899999999888889999999999999999 77766543221112111                            


Q ss_pred             -------------------EeccCchhhH-------HHHHH-----H--------------Hh--ccCcEEEEEcCCCCc
Q 048213          162 -------------------FVEESESGRA-------RSLCN-----R--------------LK--KEKMILVILDNIWEN  194 (532)
Q Consensus       162 -------------------~~~~~~~~~~-------~~l~~-----~--------------l~--~~k~~LlVlDdv~~~  194 (532)
                                         |....+.+..       ..|++     +              |.  -.++=+||+||....
T Consensus        81 Siss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVVIdnF~~k  160 (431)
T PF10443_consen   81 SISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVVIDNFLHK  160 (431)
T ss_pred             HHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEEEcchhcc
Confidence                               1111111111       01111     0              00  023568999998654


Q ss_pred             c-----------cccccccccCCCCCCeEEEEeecChHHh---hhcCCC--CceEEccCCCHHHHHHHHHHHhCCCCCC-
Q 048213          195 L-----------DFHAVGIPHGDDHKGCKVLLTARSLDVL---SRKMDS--QQDFWVGVLKEDEAWSLFKKMAGDYIEG-  257 (532)
Q Consensus       195 ~-----------~~~~l~~~~~~~~~gs~ilvTtr~~~v~---~~~~~~--~~~~~l~~L~~~~~~~Lf~~~~~~~~~~-  257 (532)
                      .           +|.....    .++-.+||++|-+....   ...++.  ...+.|...+++.|......+....... 
T Consensus       161 ~~~~~~iy~~laeWAa~Lv----~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~~~~~~  236 (431)
T PF10443_consen  161 AEENDFIYDKLAEWAASLV----QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDEDTEDS  236 (431)
T ss_pred             CcccchHHHHHHHHHHHHH----hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhccccccc
Confidence            2           2433211    24556788888775543   223333  3578999999999999999887632110 


Q ss_pred             ------------------cchHHHHHHHHHHcCCchHHHHHHHHHHc-cCChH
Q 048213          258 ------------------SEFKWVAKDVAKKCAGLPVSIVTVARALR-NKRLF  291 (532)
Q Consensus       258 ------------------~~~~~~~~~i~~~c~glPLai~~~~~~l~-~~~~~  291 (532)
                                        ..........+...||=-.-+..+++.++ +.++.
T Consensus       237 ~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p~  289 (431)
T PF10443_consen  237 SDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESPE  289 (431)
T ss_pred             ccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCHH
Confidence                              12344566778889999999999998888 44443

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.28  E-value=0.0023  Score=68.60  Aligned_cols=169  Identities=20%  Similarity=0.151  Sum_probs=105.1

Q ss_pred             ccccchHHH---HHHHHHhcCC---------CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eecc---Cch
Q 048213          107 AFESRMSTF---NDILNALKSP---------DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEE---SES  168 (532)
Q Consensus       107 ~~~gR~~~~---~~i~~~l~~~---------~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~---~~~  168 (532)
                      .+.|-++.+   .++++.|.+.         -++=+.++|++|.|||-||++++-...+-  |=...   |.+.   ...
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVP--F~svSGSEFvE~~~g~~a  389 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVP--FFSVSGSEFVEMFVGVGA  389 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCc--eeeechHHHHHHhcccch
Confidence            455655554   5555555532         35778999999999999999999987765  32222   1111   124


Q ss_pred             hhHHHHHHHHhccCcEEEEEcCCCCcc-----------------cccccccccCCCC--CCeEEEEeecChHHhh-hcCC
Q 048213          169 GRARSLCNRLKKEKMILVILDNIWENL-----------------DFHAVGIPHGDDH--KGCKVLLTARSLDVLS-RKMD  228 (532)
Q Consensus       169 ~~~~~l~~~l~~~k~~LlVlDdv~~~~-----------------~~~~l~~~~~~~~--~gs~ilvTtr~~~v~~-~~~~  228 (532)
                      .....+...-+....+.+.+|+++...                 .++++...+....  .+.-++.+|+..++.. ..+.
T Consensus       390 srvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~allr  469 (774)
T KOG0731|consen  390 SRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDPALLR  469 (774)
T ss_pred             HHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCHHhcC
Confidence            455666666665678899999987431                 1233333322222  2334455676666652 1222


Q ss_pred             C---CceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          229 S---QQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       229 ~---~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      .   ...+.++.-+.....++|.-++.......+..++.+ |+...-|.+=|.
T Consensus       470 pGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  470 PGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             CCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHH-HHhcCCCCcHHH
Confidence            2   347888888889999999999875544445566666 888887776443

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.27  E-value=0.0024  Score=70.85  Aligned_cols=168  Identities=15%  Similarity=0.128  Sum_probs=91.1

Q ss_pred             cccccccchHHHHHHHHHhcC-------------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEE---ec---
Q 048213          104 DYEAFESRMSTFNDILNALKS-------------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF---VE---  164 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~~-------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~---~~---  164 (532)
                      ....+.|.+..+++|.+.+..             ...+.+.++|++|+|||+||+.+++.....  |-..-.   ..   
T Consensus       176 ~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~--~i~i~~~~i~~~~~  253 (733)
T TIGR01243       176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAY--FISINGPEIMSKYY  253 (733)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCe--EEEEecHHHhcccc
Confidence            344578999998888776531             234678999999999999999999875432  211100   00   


Q ss_pred             cCchhhHHHHHHHHhccCcEEEEEcCCCCccc-------------ccccccccCC-CCCCeEEEE-eecChHHhh-hcC-
Q 048213          165 ESESGRARSLCNRLKKEKMILVILDNIWENLD-------------FHAVGIPHGD-DHKGCKVLL-TARSLDVLS-RKM-  227 (532)
Q Consensus       165 ~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~~l~~~~~~-~~~gs~ilv-Ttr~~~v~~-~~~-  227 (532)
                      .........+.+........+|++|+++....             ...+...+.. ...+..+++ ||....-.. ... 
T Consensus       254 g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r  333 (733)
T TIGR01243       254 GESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRR  333 (733)
T ss_pred             cHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhC
Confidence            01112334444444444668999999864310             1112111111 122333444 554433211 111 


Q ss_pred             --CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          228 --DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       228 --~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                        .-...+.+...+.++-.+++..+........  ......+++.+.|.-
T Consensus       334 ~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~--d~~l~~la~~t~G~~  381 (733)
T TIGR01243       334 PGRFDREIVIRVPDKRARKEILKVHTRNMPLAE--DVDLDKLAEVTHGFV  381 (733)
T ss_pred             chhccEEEEeCCcCHHHHHHHHHHHhcCCCCcc--ccCHHHHHHhCCCCC
Confidence              1234677888888888888886553221111  112466777777764

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=97.26  E-value=0.00012  Score=67.67  Aligned_cols=109  Identities=23%  Similarity=0.263  Sum_probs=48.5

Q ss_pred             cccccEEEeccccccCcccccccccccEEeeccccccccccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccc
Q 048213          391 LTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIE  470 (532)
Q Consensus       391 l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~  470 (532)
                      ..+|..|++.++.+.....+..|++|+.|.++.|..                +. ...........|+|++|++++|.|.
T Consensus        42 ~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~----------------~~-~~~l~vl~e~~P~l~~l~ls~Nki~  104 (260)
T KOG2739|consen   42 FVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYR----------------RV-SGGLEVLAEKAPNLKVLNLSGNKIK  104 (260)
T ss_pred             ccchhhhhhhccceeecccCCCcchhhhhcccCCcc----------------cc-cccceehhhhCCceeEEeecCCccc
Confidence            344555555555554444455555555555555522                11 1222222333455666666665443


Q ss_pred             cccccccccccccCCCccEEEeccCCCCC--ccchhhhhhcCCCccEEEeec
Q 048213          471 RIWQNQVAAMSCGIQNLKRLILFNCWNLT--CLFTSSIISSFVGLQCLEICE  520 (532)
Q Consensus       471 ~lp~~~~~~~~~~L~~L~~L~L~~c~~l~--~l~p~~~~~~L~~L~~L~l~~  520 (532)
                      - ++.+.|  ..+|.||.+|++.+|.-..  .- -..++.-+++|.+|+-..
T Consensus       105 ~-lstl~p--l~~l~nL~~Ldl~n~~~~~l~dy-re~vf~ll~~L~~LD~~d  152 (260)
T KOG2739|consen  105 D-LSTLRP--LKELENLKSLDLFNCSVTNLDDY-REKVFLLLPSLKYLDGCD  152 (260)
T ss_pred             c-ccccch--hhhhcchhhhhcccCCccccccH-HHHHHHHhhhhccccccc
Confidence            2 122211  1234566666666554322  11 122224556666555433

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.26  E-value=0.0087  Score=61.96  Aligned_cols=171  Identities=14%  Similarity=0.109  Sum_probs=94.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-E-eccC-chh--------hHHHHHHHHhccCcEEEEEcCCCCcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-F-VEES-ESG--------RARSLCNRLKKEKMILVILDNIWENL  195 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-~-~~~~-~~~--------~~~~l~~~l~~~k~~LlVlDdv~~~~  195 (532)
                      ...+.|+|..|+|||.|++++++...... ....+ + .... ...        ....+.+.+. .+.-+|++||+....
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~-~~~~v~yi~~~~f~~~~~~~~~~~~~~~f~~~~~-~~~dvLlIDDi~~l~  207 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNE-PDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYR-KKVDVLLIDDVQFLI  207 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhC-CCCeEEEEEHHHHHHHHHHHHhcccHHHHHHHHH-hcCCEEEEechhhhc
Confidence            45699999999999999999999765321 22222 1 1111 000        1122233332 134589999997431


Q ss_pred             ---cc-cccccccCC-CCCCeEEEEeec-ChHHh----hh---cCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHH
Q 048213          196 ---DF-HAVGIPHGD-DHKGCKVLLTAR-SLDVL----SR---KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKW  262 (532)
Q Consensus       196 ---~~-~~l~~~~~~-~~~gs~ilvTtr-~~~v~----~~---~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~  262 (532)
                         .+ +.+...+.. ...|..||+||. ...-.    ..   ......++.+++.+.+.-.+++.+.+.... ..--++
T Consensus       208 ~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~~-~~l~~e  286 (440)
T PRK14088        208 GKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIEH-GELPEE  286 (440)
T ss_pred             CcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhcC-CCCCHH
Confidence               11 122111111 123456888875 32221    11   123345789999999999999998875211 122366


Q ss_pred             HHHHHHHHcCCchHHHHHHHH------HHccC--ChHHHHHHHHHh
Q 048213          263 VAKDVAKKCAGLPVSIVTVAR------ALRNK--RLFDWKDALEQL  300 (532)
Q Consensus       263 ~~~~i~~~c~glPLai~~~~~------~l~~~--~~~~w~~~l~~~  300 (532)
                      +..-|++.+.|.--.+.-+-.      .+.++  +.+....++...
T Consensus       287 v~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~~~  332 (440)
T PRK14088        287 VLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLKDF  332 (440)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            788888888775433322221      12233  777777777655

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.23  E-value=0.0057  Score=60.19  Aligned_cols=159  Identities=13%  Similarity=0.062  Sum_probs=94.7

Q ss_pred             HHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhccC--------------------CCCEEEEec-cC---ch
Q 048213          114 TFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENEK--------------------LFDRVIFVE-ES---ES  168 (532)
Q Consensus       114 ~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~~~~~~-~~---~~  168 (532)
                      ..+.+.+.+..+. .....++|+.|+||+++|..++...--..                    |=|...... ..   ..
T Consensus        10 ~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~I~i   89 (325)
T PRK06871         10 TYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPIDNKDIGV   89 (325)
T ss_pred             HHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccccCCCCCH
Confidence            3456666666554 36777999999999999999987532211                    111111211 11   12


Q ss_pred             hhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecCh-HHhhhcCCCCceEEccCCCHH
Q 048213          169 GRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSL-DVLSRKMDSQQDFWVGVLKED  241 (532)
Q Consensus       169 ~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~-~v~~~~~~~~~~~~l~~L~~~  241 (532)
                      +.+..+.+.+.    .+++-++|+|+++..  ...+.+...+-.-..++.+|++|.+. .+..........+.+.+++.+
T Consensus        90 d~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~  169 (325)
T PRK06871         90 DQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQ  169 (325)
T ss_pred             HHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHH
Confidence            23334444443    256668889999865  33444433333334456666666654 443333333468899999999


Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          242 EAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       242 ~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      +..+.+.......      ...+...+..++|.|+..
T Consensus       170 ~~~~~L~~~~~~~------~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        170 QALDWLQAQSSAE------ISEILTALRINYGRPLLA  200 (325)
T ss_pred             HHHHHHHHHhccC------hHHHHHHHHHcCCCHHHH
Confidence            9998888754211      223566788999999633

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=97.22  E-value=0.00013  Score=70.90  Aligned_cols=80  Identities=28%  Similarity=0.197  Sum_probs=68.9

Q ss_pred             hhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCCC
Q 048213          388 LGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPKL  459 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L  459 (532)
                      |..|++|+.|++++|++..  ..++..+..++.|.|..|++..+      ++..|+.|+|.+|++ ..-.|..|..+.+|
T Consensus       270 f~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~N~l~~v~~~~f~~ls~L~tL~L~~N~i-t~~~~~aF~~~~~l  348 (498)
T KOG4237|consen  270 FKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTRNKLEFVSSGMFQGLSGLKTLSLYDNQI-TTVAPGAFQTLFSL  348 (498)
T ss_pred             HhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCcchHHHHHHHhhhccccceeeeecCCee-EEEeccccccccee
Confidence            8889999999999999888  45788999999999999988877      788899999999988 66677888888899


Q ss_pred             CEEecCCcc
Q 048213          460 ETVCLSSIN  468 (532)
Q Consensus       460 ~~L~L~~~~  468 (532)
                      .+|+|-.|.
T Consensus       349 ~~l~l~~Np  357 (498)
T KOG4237|consen  349 STLNLLSNP  357 (498)
T ss_pred             eeeehccCc
Confidence            999887764

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.21  E-value=0.0027  Score=67.85  Aligned_cols=51  Identities=18%  Similarity=0.185  Sum_probs=41.2

Q ss_pred             cccccccccchHHHHHHHHHhcC-----CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          102 NKDYEAFESRMSTFNDILNALKS-----PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~~-----~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      |.....++|.++.++++..|+..     ...+++.|+|++|+||||+++.++....
T Consensus        80 P~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        80 PETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            34466789999999999998873     2346799999999999999999987543

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.21  E-value=0.0018  Score=71.55  Aligned_cols=144  Identities=19%  Similarity=0.167  Sum_probs=85.7

Q ss_pred             cccccchHHHHHHHHHhc------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc-Cc-----------
Q 048213          106 EAFESRMSTFNDILNALK------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE-SE-----------  167 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~-~~-----------  167 (532)
                      ...+|.++.+++|++++.      .....++.++|++|+||||+|+.++......  |-..-+... +.           
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~--~~~i~~~~~~d~~~i~g~~~~~~  399 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRK--YVRMALGGVRDEAEIRGHRRTYI  399 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCC--EEEEEcCCCCCHHHhccchhccC
Confidence            447899999999998886      1345689999999999999999999764422  321111111 00           


Q ss_pred             hhhHHHHHHHHhc--cCcEEEEEcCCCCccc------ccccccccC---------------CCCCCeEEEEeecChHHhh
Q 048213          168 SGRARSLCNRLKK--EKMILVILDNIWENLD------FHAVGIPHG---------------DDHKGCKVLLTARSLDVLS  224 (532)
Q Consensus       168 ~~~~~~l~~~l~~--~k~~LlVlDdv~~~~~------~~~l~~~~~---------------~~~~gs~ilvTtr~~~v~~  224 (532)
                      ......+.+.+..  ..+-+++||.++....      .+.+...+.               ..-.+.-+|.|+....+..
T Consensus       400 g~~~G~~~~~l~~~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~~i~~  479 (784)
T PRK10787        400 GSMPGKLIQKMAKVGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSMNIPA  479 (784)
T ss_pred             CCCCcHHHHHHHhcCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCCCCCH
Confidence            0111223333332  1345789999975421      112211111               1123445566666554443


Q ss_pred             hcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          225 RKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       225 ~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      .......++.+.+++.++-.++..++.
T Consensus       480 aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        480 PLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             HHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            344455688999999998888877665

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=97.21  E-value=0.00014  Score=75.11  Aligned_cols=114  Identities=25%  Similarity=0.256  Sum_probs=87.9

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccCccc-ccccccccEEeecccccccc----ccCCcceEEeccccccCC
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSV-LGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAP  447 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~-i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~  447 (532)
                      .+.+..+.+..+-..++.+.+|..|++..|.+..+.. +..+++|++|++++|.|+.+    .++.|+.|++++|.+   
T Consensus        76 ~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L~l~~N~i---  152 (414)
T KOG0531|consen   76 ELNLRQNLIAKILNHLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNLSGNLI---  152 (414)
T ss_pred             hhccchhhhhhhhcccccccceeeeeccccchhhcccchhhhhcchheeccccccccccchhhccchhhheeccCcc---
Confidence            3345555555444447788999999999999999777 99999999999999999888    667799999999965   


Q ss_pred             CCCcccccCCCCCEEecCCccccccccc-ccccccccCCCccEEEecc
Q 048213          448 NPTESEVALPKLETVCLSSINIERIWQN-QVAAMSCGIQNLKRLILFN  494 (532)
Q Consensus       448 ~~~~~~~~l~~L~~L~L~~~~l~~lp~~-~~~~~~~~L~~L~~L~L~~  494 (532)
                      .....+..++.|+.+++++|.++.+... .     ..+.+|+.|.+.+
T Consensus       153 ~~~~~~~~l~~L~~l~l~~n~i~~ie~~~~-----~~~~~l~~l~l~~  195 (414)
T KOG0531|consen  153 SDISGLESLKSLKLLDLSYNRIVDIENDEL-----SELISLEELDLGG  195 (414)
T ss_pred             hhccCCccchhhhcccCCcchhhhhhhhhh-----hhccchHHHhccC
Confidence            3334455588999999999988877662 1     3457777777775

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.014  Score=59.33  Aligned_cols=139  Identities=18%  Similarity=0.266  Sum_probs=82.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE------EeccCchhhHHHHHHHHhc---cCcEEEEEcCCCCccc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------FVEESESGRARSLCNRLKK---EKMILVILDNIWENLD  196 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~------~~~~~~~~~~~~l~~~l~~---~k~~LlVlDdv~~~~~  196 (532)
                      ....+.+.|++|+|||+||..++....    |+.+-      ....++......+.+....   ..--.||+||+...-+
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S~----FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErLiD  612 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSSD----FPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERLLD  612 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhcC----CCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhhhc
Confidence            456788999999999999999987654    55443      2223444445555544431   3456899999988777


Q ss_pred             cccccccc---------------CCCCCCeEEEEeecChHHhhhcCCC----CceEEccCCCH-HHHHHHHHHHhCCCCC
Q 048213          197 FHAVGIPH---------------GDDHKGCKVLLTARSLDVLSRKMDS----QQDFWVGVLKE-DEAWSLFKKMAGDYIE  256 (532)
Q Consensus       197 ~~~l~~~~---------------~~~~~gs~ilvTtr~~~v~~~~~~~----~~~~~l~~L~~-~~~~~Lf~~~~~~~~~  256 (532)
                      |-.+...|               |..+..--|+-||....+... ++-    ...+.++.++. ++..+.+...-  ...
T Consensus       613 ~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~-m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~n--~fs  689 (744)
T KOG0741|consen  613 YVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQE-MGILDCFSSTIHVPNLTTGEQLLEVLEELN--IFS  689 (744)
T ss_pred             ccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHH-cCHHHhhhheeecCccCchHHHHHHHHHcc--CCC
Confidence            76553322               222333334556666777632 222    24678888876 67777776542  111


Q ss_pred             CcchHHHHHHHHHHc
Q 048213          257 GSEFKWVAKDVAKKC  271 (532)
Q Consensus       257 ~~~~~~~~~~i~~~c  271 (532)
                      ....+..+.+...+|
T Consensus       690 d~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  690 DDEVRAIAEQLLSKK  704 (744)
T ss_pred             cchhHHHHHHHhccc
Confidence            223344455555555

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.15  E-value=0.0014  Score=59.63  Aligned_cols=49  Identities=24%  Similarity=0.292  Sum_probs=34.3

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          111 RMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       111 R~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      +..+-...++.+.  +..++.+.|++|.|||.||.+.+-+.-..+.|+..+
T Consensus         5 ~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kii   53 (205)
T PF02562_consen    5 KNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKII   53 (205)
T ss_dssp             -SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEE
T ss_pred             CCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEE
Confidence            4445556666666  457999999999999999999887766567788777

; GO: 0005524 ATP binding; PDB: 3B85_A.

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.14  E-value=0.0044  Score=57.29  Aligned_cols=166  Identities=16%  Similarity=0.155  Sum_probs=98.1

Q ss_pred             ccccccchHHHHH---HHHHhcC------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE------EeccCchh
Q 048213          105 YEAFESRMSTFND---ILNALKS------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------FVEESESG  169 (532)
Q Consensus       105 ~~~~~gR~~~~~~---i~~~l~~------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~------~~~~~~~~  169 (532)
                      ...++|.++.+.+   |++.|.+      --++-|..+|++|.|||-+|+++++...+-  |-..-      -...+...
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp--~l~vkat~liGehVGdgar  197 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVP--LLLVKATELIGEHVGDGAR  197 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCc--eEEechHHHHHHHhhhHHH
Confidence            3456777665543   4555553      246889999999999999999999987654  32111      00112233


Q ss_pred             hHHHHHHHHhccCcEEEEEcCCCCc--------------ccccccccccCC--CCCCeEEEEeecChHHhhhcCCC--Cc
Q 048213          170 RARSLCNRLKKEKMILVILDNIWEN--------------LDFHAVGIPHGD--DHKGCKVLLTARSLDVLSRKMDS--QQ  231 (532)
Q Consensus       170 ~~~~l~~~l~~~k~~LlVlDdv~~~--------------~~~~~l~~~~~~--~~~gs~ilvTtr~~~v~~~~~~~--~~  231 (532)
                      .+..+.++-.+.-.|.+.+|.++..              +..+++...+..  .+.|..-|..|.+...+.....+  ..
T Consensus       198 ~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiRsRFEe  277 (368)
T COG1223         198 RIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIRSRFEE  277 (368)
T ss_pred             HHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHHhhhhh
Confidence            4555666666567899999998743              112223222211  34566677777776665322222  23


Q ss_pred             eEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          232 DFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       232 ~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      -++...-+++|-.+++..++-...-+  .....+.++++.+|+
T Consensus       278 EIEF~LP~~eEr~~ile~y~k~~Plp--v~~~~~~~~~~t~g~  318 (368)
T COG1223         278 EIEFKLPNDEERLEILEYYAKKFPLP--VDADLRYLAAKTKGM  318 (368)
T ss_pred             eeeeeCCChHHHHHHHHHHHHhCCCc--cccCHHHHHHHhCCC
Confidence            56667778888888888887421111  111145566666664

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=97.13  E-value=0.0034  Score=55.46  Aligned_cols=129  Identities=17%  Similarity=0.087  Sum_probs=74.5

Q ss_pred             cchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc-------------------CCCCEEEEeccCc--
Q 048213          110 SRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE-------------------KLFDRVIFVEESE--  167 (532)
Q Consensus       110 gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~~~~~~~--  167 (532)
                      |-++..+.+.+.+..+.. ..+.++|+.|+||+++|..+++..--.                   .|-|..+......  
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            445667777777776665 467999999999999999988753221                   2344444433322  


Q ss_pred             ---hhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChHH-hhhcCCCCceEEccC
Q 048213          168 ---SGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLDV-LSRKMDSQQDFWVGV  237 (532)
Q Consensus       168 ---~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~v-~~~~~~~~~~~~l~~  237 (532)
                         .+.+..+.+.+.    .+++=++|+||++..  +.++++...+-.-..++.+|++|++..- ..........+.+.+
T Consensus        81 ~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i~~~~  160 (162)
T PF13177_consen   81 SIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVIRFRP  160 (162)
T ss_dssp             SBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEEEE--
T ss_pred             hhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEEecCC
Confidence               223334444442    245668999999865  4556665555444567888888887653 332223334555555


Q ss_pred             C
Q 048213          238 L  238 (532)
Q Consensus       238 L  238 (532)
                      +
T Consensus       161 l  161 (162)
T PF13177_consen  161 L  161 (162)
T ss_dssp             -
T ss_pred             C
Confidence            4

...

>PRK07261 topology modulation protein; Provisional

Probab=97.12  E-value=0.00093  Score=59.69  Aligned_cols=62  Identities=23%  Similarity=0.296  Sum_probs=39.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc-CCCCEEEE----eccCchhhHHHHHHHHhccCcEEEEEcCCCC
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAENE-KLFDRVIF----VEESESGRARSLCNRLKKEKMILVILDNIWE  193 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~~----~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  193 (532)
                      .|.|+|++|+||||||+.+....... -+.|...+    ...+..+....+.+.+.+ .+  .|+|+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~-~~--wIidg~~~   68 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFLLK-HD--WIIDGNYS   68 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEeccccccCCHHHHHHHHHHHHhC-CC--EEEcCcch
Confidence            58999999999999999998764322 12333332    233344556666666664 44  67787644

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.12  E-value=0.0008  Score=62.74  Aligned_cols=32  Identities=28%  Similarity=0.332  Sum_probs=25.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      -.++|+|..|+|||||...+......+  |+.+.
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~~~--f~~I~   45 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLRHK--FDHIF   45 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhccc--CCEEE
Confidence            367899999999999999998765443  65555

This is thought to be an ATPase involved in viral DNA packaging [].

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.12  E-value=0.0018  Score=59.74  Aligned_cols=90  Identities=20%  Similarity=0.240  Sum_probs=61.3

Q ss_pred             cccccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe---c-
Q 048213          102 NKDYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV---E-  164 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~---~-  164 (532)
                      ...+..+-|-.+.+++|.+...             -+..+-|.++|++|.|||-+|++|+|+....  |-.++-.   + 
T Consensus       173 dvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdac--firvigselvqk  250 (435)
T KOG0729|consen  173 DVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDAC--FIRVIGSELVQK  250 (435)
T ss_pred             CcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCce--EEeehhHHHHHH
Confidence            3446667788888888777543             1356778999999999999999999976544  5444311   1 


Q ss_pred             --cCchhhHHHHHHHHhccCcEEEEEcCCCC
Q 048213          165 --ESESGRARSLCNRLKKEKMILVILDNIWE  193 (532)
Q Consensus       165 --~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  193 (532)
                        .........+++.-..+|-|+|.+|.++.
T Consensus       251 yvgegarmvrelf~martkkaciiffdeida  281 (435)
T KOG0729|consen  251 YVGEGARMVRELFEMARTKKACIIFFDEIDA  281 (435)
T ss_pred             HhhhhHHHHHHHHHHhcccceEEEEeecccc
Confidence              11122344555555567889999999863

>TIGR00763 lon ATP-dependent protease La

Probab=97.12  E-value=0.0055  Score=68.21  Aligned_cols=143  Identities=22%  Similarity=0.171  Sum_probs=79.5

Q ss_pred             ccccchHHHHHHHHHhc------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc-C-----------ch
Q 048213          107 AFESRMSTFNDILNALK------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE-S-----------ES  168 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~-~-----------~~  168 (532)
                      .++|.++.+++|.+++.      ....+++.++|++|+|||++|+.+++.....  |-....... +           ..
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~--~~~i~~~~~~~~~~i~g~~~~~~g  398 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRK--FVRFSLGGVRDEAEIRGHRRTYVG  398 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC--eEEEeCCCcccHHHHcCCCCceeC
Confidence            46788888888888664      2234689999999999999999999876432  321110000 0           00


Q ss_pred             hhHHHHHHHHh--ccCcEEEEEcCCCCccc------cccccc--------ccCCC-------CCCeEEEEeecChHHh-h
Q 048213          169 GRARSLCNRLK--KEKMILVILDNIWENLD------FHAVGI--------PHGDD-------HKGCKVLLTARSLDVL-S  224 (532)
Q Consensus       169 ~~~~~l~~~l~--~~k~~LlVlDdv~~~~~------~~~l~~--------~~~~~-------~~gs~ilvTtr~~~v~-~  224 (532)
                      .....+.+.+.  ..++-+++||.++....      ...+..        .|.+.       ..+.-+|.||...... .
T Consensus       399 ~~~g~i~~~l~~~~~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN~~~~i~~  478 (775)
T TIGR00763       399 AMPGRIIQGLKKAKTKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANSIDTIPR  478 (775)
T ss_pred             CCCchHHHHHHHhCcCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecCCchhCCH
Confidence            01112223332  12445889999875421      011111        11111       1234445555543322 2


Q ss_pred             hcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          225 RKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       225 ~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      .......++.+.+++.++-.+++.++.
T Consensus       479 ~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       479 PLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             HHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            223344688999999988888877654

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=97.11  E-value=0.00018  Score=66.52  Aligned_cols=74  Identities=18%  Similarity=0.169  Sum_probs=48.1

Q ss_pred             hhHHhhhhcccccCCchhhhccccccEEEeccccc--cC--cccccccccccEEeecccccccc-------ccCCcceEE
Q 048213          370 ARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKL--QD--TSVLGELKILEILRLRVNELTRA-------GSSQLKHLS  438 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l--~~--~~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~  438 (532)
                      +..++.+.+..++++. .+-.|++|++|.++.|..  ..  ...+.++++|.+|++++|.+..+       .+++|..|+
T Consensus        44 ~le~ls~~n~gltt~~-~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ld  122 (260)
T KOG2739|consen   44 ELELLSVINVGLTTLT-NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLD  122 (260)
T ss_pred             chhhhhhhccceeecc-cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhhhh
Confidence            3345566666554432 255688999999999943  33  33455668888888888877644       445566666


Q ss_pred             eccccc
Q 048213          439 VRGLRA  444 (532)
Q Consensus       439 l~~~~~  444 (532)
                      +.+|..
T Consensus       123 l~n~~~  128 (260)
T KOG2739|consen  123 LFNCSV  128 (260)
T ss_pred             cccCCc
Confidence            666643

>PRK08181 transposase; Validated

Probab=97.11  E-value=0.0038  Score=59.83  Aligned_cols=64  Identities=19%  Similarity=0.153  Sum_probs=38.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc---------hhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE---------SGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~---------~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      .-+.++|++|+|||.||.++.+....+ .+...+......         ......+.+.+.  +-=||||||+...
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~-g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~--~~dLLIIDDlg~~  179 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIEN-GWRVLFTRTTDLVQKLQVARRELQLESAIAKLD--KFDLLILDDLAYV  179 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHc-CCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHh--cCCEEEEeccccc
Confidence            569999999999999999998865433 233332111100         011122333333  3459999999643

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.11  E-value=5.7e-05  Score=62.64  Aligned_cols=105  Identities=16%  Similarity=0.068  Sum_probs=85.5

Q ss_pred             hccccccEEEeccccccC----cccccccccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCC
Q 048213          389 GLLTNLQTLCLYYCKLQD----TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPK  458 (532)
Q Consensus       389 ~~l~~L~~L~l~~~~l~~----~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~  458 (532)
                      ..-..+..+++++|.+-.    +..+.....|...+|++|.+.++      .++.++.|++++|..  .+.|..+..++.
T Consensus        24 edakE~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~nei--sdvPeE~Aam~a  101 (177)
T KOG4579|consen   24 EDAKELHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEI--SDVPEELAAMPA  101 (177)
T ss_pred             HHHHHhhhcccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhh--hhchHHHhhhHH
Confidence            344567788899997654    34566667788889999999876      667899999999976  888888999999


Q ss_pred             CCEEecCCcccccccccccccccccCCCccEEEeccCCCCCcc
Q 048213          459 LETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCL  501 (532)
Q Consensus       459 L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l  501 (532)
                      |+.|+++.|.+..+|.-+     +.|.+|-.|+.-+ +....+
T Consensus       102 Lr~lNl~~N~l~~~p~vi-----~~L~~l~~Lds~~-na~~ei  138 (177)
T KOG4579|consen  102 LRSLNLRFNPLNAEPRVI-----APLIKLDMLDSPE-NARAEI  138 (177)
T ss_pred             hhhcccccCccccchHHH-----HHHHhHHHhcCCC-CccccC
Confidence            999999999999999888     6678889998876 446667

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.09  E-value=0.0076  Score=59.33  Aligned_cols=146  Identities=14%  Similarity=0.107  Sum_probs=78.3

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-------EeccCchhhHHHHHHHHh-----ccCcEEEEEcCCC
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-------FVEESESGRARSLCNRLK-----KEKMILVILDNIW  192 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-------~~~~~~~~~~~~l~~~l~-----~~k~~LlVlDdv~  192 (532)
                      ..++.++|||++|.|||.+|+++++.....  |=..-       +..+ .+..+..+++.-.     .++.++|++|+++
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~~--~i~vsa~eL~sk~vGE-sEk~IR~~F~~A~~~a~~~~aPcVLFIDEID  222 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGIE--PIVMSAGELESENAGE-PGKLIRQRYREAADIIKKKGKMSCLFINDLD  222 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCCC--eEEEEHHHhhcCcCCc-HHHHHHHHHHHHHHHhhccCCCeEEEEehhh
Confidence            456889999999999999999999987654  31111       1111 1122333332221     2578999999997


Q ss_pred             Ccc------c--c------cccccc--------cC------CCCCCeEEEEeecChHHh-hhcCCCC-ceEEccCCCHHH
Q 048213          193 ENL------D--F------HAVGIP--------HG------DDHKGCKVLLTARSLDVL-SRKMDSQ-QDFWVGVLKEDE  242 (532)
Q Consensus       193 ~~~------~--~------~~l~~~--------~~------~~~~gs~ilvTtr~~~v~-~~~~~~~-~~~~l~~L~~~~  242 (532)
                      ...      +  .      ..+...        ++      ....+..||+||...... ....... -.-.+..-+.++
T Consensus       223 A~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~i~lPd~e~  302 (413)
T PLN00020        223 AGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTRED  302 (413)
T ss_pred             hcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCceeCCCCHHH
Confidence            431      0  0      011100        11      124566788898776643 1112211 111233455666


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH
Q 048213          243 AWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV  276 (532)
Q Consensus       243 ~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL  276 (532)
                      -.++++.+...... +  ..-..+|+....|-|+
T Consensus       303 R~eIL~~~~r~~~l-~--~~dv~~Lv~~f~gq~~  333 (413)
T PLN00020        303 RIGVVHGIFRDDGV-S--REDVVKLVDTFPGQPL  333 (413)
T ss_pred             HHHHHHHHhccCCC-C--HHHHHHHHHcCCCCCc
Confidence            66776655443221 1  2345567776666654

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.07  E-value=1.9e-05  Score=73.11  Aligned_cols=79  Identities=29%  Similarity=0.403  Sum_probs=56.2

Q ss_pred             hccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEeccccccCCCCCcccccCCCCCEEec
Q 048213          389 GLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCL  464 (532)
Q Consensus       389 ~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L  464 (532)
                      +.+.+.+.|+.-+|.+.++....+++.|++|.|+-|.|+.+    .|++|+.|+|..|.+...+...-+.++|+|++|.|
T Consensus        16 sdl~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   16 SDLENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             hHHHHhhhhcccCCCccHHHHHHhcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhh
Confidence            34566777788888888887788888888888888887777    67777777777775522223334567777777777


Q ss_pred             CCc
Q 048213          465 SSI  467 (532)
Q Consensus       465 ~~~  467 (532)
                      ..|
T Consensus        96 ~EN   98 (388)
T KOG2123|consen   96 DEN   98 (388)
T ss_pred             ccC
Confidence            666

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.07  E-value=0.00082  Score=66.24  Aligned_cols=47  Identities=19%  Similarity=0.162  Sum_probs=40.6

Q ss_pred             ccccchHHHHHHHHHhcC------CCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          107 AFESRMSTFNDILNALKS------PDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~~------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .++|.++.++++++++..      ..-++++++|++|+||||||..+.+....
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            688999999999999872      24588999999999999999999887654

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.06  E-value=0.0005  Score=57.47  Aligned_cols=23  Identities=39%  Similarity=0.371  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +|+|.|++|+||||+|+.+++..
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999875

...

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.06  E-value=0.0041  Score=64.24  Aligned_cols=144  Identities=8%  Similarity=-0.012  Sum_probs=79.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc-hh--------hHHHHHHHHhccCcEEEEEcCCCCcccc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE-SG--------RARSLCNRLKKEKMILVILDNIWENLDF  197 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~-~~--------~~~~l~~~l~~~k~~LlVlDdv~~~~~~  197 (532)
                      ...+.|+|+.|+|||+|++++++..... ............ ..        ..+.+++.+.  ..-+|++||+......
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~-~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~~--~~dvLiIDDiq~l~~k  217 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRES-GGKILYVRSELFTEHLVSAIRSGEMQRFRQFYR--NVDALFIEDIEVFSGK  217 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHc-CCCEEEeeHHHHHHHHHHHHhcchHHHHHHHcc--cCCEEEEcchhhhcCC
Confidence            3568999999999999999999976532 122222111100 00        1112222222  3348999998764221


Q ss_pred             ----cccccccCC-CCCCeEEEEeecCh-HHh-------hhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHH
Q 048213          198 ----HAVGIPHGD-DHKGCKVLLTARSL-DVL-------SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVA  264 (532)
Q Consensus       198 ----~~l~~~~~~-~~~gs~ilvTtr~~-~v~-------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~  264 (532)
                          +.+...+.. ...|..||+||... .-.       ........++.+.+++.++-.+++.+.+.... ..--+++.
T Consensus       218 ~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~-~~l~~evl  296 (445)
T PRK12422        218 GATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALS-IRIEETAL  296 (445)
T ss_pred             hhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcC-CCCCHHHH
Confidence                112111110 12355688888642 111       11133346889999999999999998775321 11224556


Q ss_pred             HHHHHHcCCc
Q 048213          265 KDVAKKCAGL  274 (532)
Q Consensus       265 ~~i~~~c~gl  274 (532)
                      .-|+..+.+.
T Consensus       297 ~~la~~~~~d  306 (445)
T PRK12422        297 DFLIEALSSN  306 (445)
T ss_pred             HHHHHhcCCC
Confidence            6666666643

>TIGR00767 rho transcription termination factor Rho

Probab=97.03  E-value=0.0013  Score=65.73  Aligned_cols=36  Identities=11%  Similarity=-0.121  Sum_probs=29.6

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      +.-..++|+|++|+|||||++.+++..... +|+..+
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n-hfdv~v  201 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAITRN-HPEVEL  201 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhccc-CCceEE
Confidence            344789999999999999999999987654 676555

Members of this family differ in the specificity of RNA binding.

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.02  E-value=0.0017  Score=68.05  Aligned_cols=145  Identities=17%  Similarity=0.076  Sum_probs=85.4

Q ss_pred             cccccchHHHHHHHHHhc------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc-----------h
Q 048213          106 EAFESRMSTFNDILNALK------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE-----------S  168 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~-----------~  168 (532)
                      ..-+|.++.+++|++.+.      +.+-++++.+|++|+|||++|+.++.....+ .|...+-...+.           .
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRk-FfRfSvGG~tDvAeIkGHRRTYVG  489 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRK-FFRFSVGGMTDVAEIKGHRRTYVG  489 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCc-eEEEeccccccHHhhcccceeeec
Confidence            446799999999999886      3456899999999999999999999876443 333332111111           1


Q ss_pred             hhHHHHHHHHhc--cCcEEEEEcCCCCcc------------------cccccccccCCC-CCCeEEEEeecChH---Hhh
Q 048213          169 GRARSLCNRLKK--EKMILVILDNIWENL------------------DFHAVGIPHGDD-HKGCKVLLTARSLD---VLS  224 (532)
Q Consensus       169 ~~~~~l~~~l~~--~k~~LlVlDdv~~~~------------------~~~~l~~~~~~~-~~gs~ilvTtr~~~---v~~  224 (532)
                      ..-.++.+.|+.  ..+=|+.+|.|+...                  |=..|...+.+- --=|+|++......   +..
T Consensus       490 AMPGkiIq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~idtIP~  569 (906)
T KOG2004|consen  490 AMPGKIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANVIDTIPP  569 (906)
T ss_pred             cCChHHHHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEeccccccCCh
Confidence            123455666652  356799999997431                  100110000000 01256654322211   212


Q ss_pred             hcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          225 RKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       225 ~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      -......++++.+-..+|=.++-.++.
T Consensus       570 pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  570 PLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             hhhhhhheeeccCccHHHHHHHHHHhh
Confidence            234455688888888887777666554

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.02  E-value=0.0081  Score=60.38  Aligned_cols=171  Identities=16%  Similarity=0.077  Sum_probs=93.0

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchh-----------hHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESG-----------RARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~-----------~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      ....+.|+|..|.|||-|++++.+...... .+.++....+...           ..+..++.. +  -=++++||++..
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~-~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y-~--~dlllIDDiq~l  187 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANG-PNARVVYLTSEDFTNDFVKALRDNEMEKFKEKY-S--LDLLLIDDIQFL  187 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhC-CCceEEeccHHHHHHHHHHHHHhhhHHHHHHhh-c--cCeeeechHhHh
Confidence            378999999999999999999999765431 2223322222221           122333333 1  238999999754


Q ss_pred             cc---ccc-cccccCC-CCCCeEEEEeecChHHh--------hhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchH
Q 048213          195 LD---FHA-VGIPHGD-DHKGCKVLLTARSLDVL--------SRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFK  261 (532)
Q Consensus       195 ~~---~~~-l~~~~~~-~~~gs~ilvTtr~~~v~--------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~  261 (532)
                      ..   |+. +...|.. ...|-.||+|++...-.        .......-++.+.+++.+....++.+.+...... --+
T Consensus       188 ~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~-i~~  266 (408)
T COG0593         188 AGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIE-IPD  266 (408)
T ss_pred             cCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHhcCCC-CCH
Confidence            22   222 2222211 12344799998653321        1123344689999999999999999876521111 112


Q ss_pred             HHHHHHHHH----cCCchHHHHHHHHHHc--cC--ChHHHHHHHHHhc
Q 048213          262 WVAKDVAKK----CAGLPVSIVTVARALR--NK--RLFDWKDALEQLR  301 (532)
Q Consensus       262 ~~~~~i~~~----c~glPLai~~~~~~l~--~~--~~~~w~~~l~~~~  301 (532)
                      ++..-|++.    ..-+.=|+..+..+-.  ++  |.+.-+.+++...
T Consensus       267 ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~~  314 (408)
T COG0593         267 EVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKDLL  314 (408)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHHHHhcCccCcHHHHHHHHHHhh
Confidence            333333333    2333444433333222  22  6666666666655

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.99  E-value=0.018  Score=56.51  Aligned_cols=159  Identities=13%  Similarity=0.071  Sum_probs=95.0

Q ss_pred             HHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhcc-------------------CCCCEEEEecc--Cc---h
Q 048213          114 TFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENE-------------------KLFDRVIFVEE--SE---S  168 (532)
Q Consensus       114 ~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~-------------------~~F~~~~~~~~--~~---~  168 (532)
                      ..+++.+.+..+. ...+.++|+.|+||+++|..++...--.                   .|-|.......  +.   .
T Consensus        11 ~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~v   90 (319)
T PRK06090         11 VWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEKEGKSITV   90 (319)
T ss_pred             HHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCcCCCcCCH
Confidence            4556666665554 4578899999999999999987643211                   12222222211  11   1


Q ss_pred             hhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEEccCCCHH
Q 048213          169 GRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFWVGVLKED  241 (532)
Q Consensus       169 ~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~l~~L~~~  241 (532)
                      +.+..+.+.+.    .+++-++|+|++...  ...+.+...+-.-..++.+|++|.+ ..+..........+.+.+++.+
T Consensus        91 dqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~  170 (319)
T PRK06090         91 EQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTA  170 (319)
T ss_pred             HHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHH
Confidence            22333434442    245568999999865  3445544444332345666655555 4454443444458899999999


Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          242 EAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       242 ~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      ++.+.+......         ....++..++|.|+....+
T Consensus       171 ~~~~~L~~~~~~---------~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        171 QAMQWLKGQGIT---------VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             HHHHHHHHcCCc---------hHHHHHHHcCCCHHHHHHH
Confidence            999888653111         1356788999999866544

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.99  E-value=0.009  Score=59.29  Aligned_cols=160  Identities=11%  Similarity=0.052  Sum_probs=94.8

Q ss_pred             HHHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEeccC-----
Q 048213          113 STFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFVEES-----  166 (532)
Q Consensus       113 ~~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~~~~-----  166 (532)
                      ...+++.+.+..+. ...+.+.|+.|+||+++|..++...--.                    .|=|......+.     
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I   88 (334)
T PRK07993          9 PDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSL   88 (334)
T ss_pred             HHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccC
Confidence            34566777776554 4677899999999999999987754211                    111111111111     


Q ss_pred             chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEEccCCC
Q 048213          167 ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFWVGVLK  239 (532)
Q Consensus       167 ~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~l~~L~  239 (532)
                      ..+.+..+.+.+.    .+++-++|+|+++..  +..+.+...+-.-..++.+|.+|.+ ..+..........+.+.+++
T Consensus        89 ~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~  168 (334)
T PRK07993         89 GVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPP  168 (334)
T ss_pred             CHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCC
Confidence            1223344444443    256678999998755  3344443333222345666666655 44443333334578999999


Q ss_pred             HHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          240 EDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       240 ~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      .+++.+.+....+      ...+.+..++..++|.|...
T Consensus       169 ~~~~~~~L~~~~~------~~~~~a~~~~~la~G~~~~A  201 (334)
T PRK07993        169 EQYALTWLSREVT------MSQDALLAALRLSAGAPGAA  201 (334)
T ss_pred             HHHHHHHHHHccC------CCHHHHHHHHHHcCCCHHHH
Confidence            9999988865422      11334678899999999643

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=96.94  E-value=0.00068  Score=60.90  Aligned_cols=66  Identities=27%  Similarity=0.335  Sum_probs=39.7

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc---------CchhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE---------SESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~---------~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      +..-+.++|..|+|||.||.++.+....+ .+...+....         ........+.+.+.  +-=||||||+-..
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~-g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~--~~dlLilDDlG~~  120 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRK-GYSVLFITASDLLDELKQSRSDGSYEELLKRLK--RVDLLILDDLGYE  120 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH--TSSCEEEETCTSS
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccC-CcceeEeecCceeccccccccccchhhhcCccc--cccEeccccccee
Confidence            34679999999999999999998875543 3444431111         11112233445555  3358899999754

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.94  E-value=0.031  Score=58.52  Aligned_cols=148  Identities=17%  Similarity=0.185  Sum_probs=88.2

Q ss_pred             cccccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-------
Q 048213          102 NKDYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-------  161 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-------  161 (532)
                      ...-..+-|-++.+.+|.+...             -...+-|..+|++|.|||++|+++++.....  |=.+-       
T Consensus       430 ~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~n--FlsvkgpEL~sk  507 (693)
T KOG0730|consen  430 NVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMN--FLSVKGPELFSK  507 (693)
T ss_pred             CCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCC--eeeccCHHHHHH
Confidence            3344556666666666654443             2467889999999999999999999976543  43331       


Q ss_pred             EeccCchhhHHHHHHHHhccCcEEEEEcCCCCccc-------------ccccccccCCCC--CCeEEEEeecChHHh-hh
Q 048213          162 FVEESESGRARSLCNRLKKEKMILVILDNIWENLD-------------FHAVGIPHGDDH--KGCKVLLTARSLDVL-SR  225 (532)
Q Consensus       162 ~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~~l~~~~~~~~--~gs~ilvTtr~~~v~-~~  225 (532)
                      |...+ +..+..++++-.+--.++|.||.++...-             +..+...+....  ++--||-.|..++.. ..
T Consensus       508 ~vGeS-Er~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~A  586 (693)
T KOG0730|consen  508 YVGES-ERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPA  586 (693)
T ss_pred             hcCch-HHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHH
Confidence            22222 23445555555545679999999975411             111212221111  233344444444332 22


Q ss_pred             cCC---CCceEEccCCCHHHHHHHHHHHhC
Q 048213          226 KMD---SQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       226 ~~~---~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      .+.   -...+.++.-+.+.-.++|..++-
T Consensus       587 LlRPGRlD~iiyVplPD~~aR~~Ilk~~~k  616 (693)
T KOG0730|consen  587 LLRPGRLDRIIYVPLPDLEARLEILKQCAK  616 (693)
T ss_pred             HcCCcccceeEeecCccHHHHHHHHHHHHh
Confidence            333   335778888888888899999886

>PRK08116 hypothetical protein; Validated

Probab=96.91  E-value=0.0014  Score=63.01  Aligned_cols=90  Identities=18%  Similarity=0.092  Sum_probs=49.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc------------hhhHHHHHHHHhccCcEEEEEcCCCCc-
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE------------SGRARSLCNRLKKEKMILVILDNIWEN-  194 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~------------~~~~~~l~~~l~~~k~~LlVlDdv~~~-  194 (532)
                      ..+.++|..|+|||.||.++++....+ .....+......            ......+.+.+.+ - =||||||+... 
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~-~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~~-~-dlLviDDlg~e~  191 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEK-GVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLVN-A-DLLILDDLGAER  191 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhcC-C-CEEEEecccCCC
Confidence            458899999999999999999987544 233322111100            0111233344442 2 38999999532 


Q ss_pred             -ccccc--cccccCC-CCCCeEEEEeecCh
Q 048213          195 -LDFHA--VGIPHGD-DHKGCKVLLTARSL  220 (532)
Q Consensus       195 -~~~~~--l~~~~~~-~~~gs~ilvTtr~~  220 (532)
                       .+|..  +..-+.. -.+|..+|+||...
T Consensus       192 ~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        192 DTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence             33432  1111110 12455688888643

>PRK06696 uridine kinase; Validated

Probab=96.89  E-value=0.0014  Score=61.47  Aligned_cols=43  Identities=23%  Similarity=0.201  Sum_probs=35.1

Q ss_pred             cchHHHHHHHHHhc---CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          110 SRMSTFNDILNALK---SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       110 gR~~~~~~i~~~l~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|.+.+++|.+.+.   .+...+|+|.|.+|+||||+|+.+.....
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~   47 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIK   47 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46667777777775   45678999999999999999999988654

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.89  E-value=0.041  Score=54.64  Aligned_cols=157  Identities=18%  Similarity=0.153  Sum_probs=90.5

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhcc---------------------CCCCEEEEecc--------
Q 048213          115 FNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENE---------------------KLFDRVIFVEE--------  165 (532)
Q Consensus       115 ~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------~~F~~~~~~~~--------  165 (532)
                      .+++... ...-...+.++|+.|+|||++|..++...--.                     .|-|...+...        
T Consensus        10 ~~~l~~~-~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~~~   88 (342)
T PRK06964         10 WNRLQAL-RARLPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEAPG   88 (342)
T ss_pred             HHHHHHh-cCCcceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccccc
Confidence            4444542 33445678899999999999999988643211                     11122211111        


Q ss_pred             -----------------------CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEe
Q 048213          166 -----------------------SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLT  216 (532)
Q Consensus       166 -----------------------~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvT  216 (532)
                                             -..+.+..+.+.+.    .+++-++|+|+++..  ..++.+...+-.-.+++.+|.+
T Consensus        89 ~~~~~~~~~~~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~  168 (342)
T PRK06964         89 AADEAKEADADEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLV  168 (342)
T ss_pred             cccccccchhhcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEE
Confidence                                   01122334444443    245568889999865  3455554444333455655555


Q ss_pred             ecC-hHHhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          217 ARS-LDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       217 tr~-~~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      |.+ ..+..........+.+.+++.++..+.+... + .   +.    ...++..++|.|+....+
T Consensus       169 t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~-~-~---~~----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        169 SARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ-G-V---AD----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             ECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc-C-C---Ch----HHHHHHHcCCCHHHHHHH
Confidence            544 4444433333468899999999999888764 1 1   11    223577889999754433

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.89  E-value=0.0085  Score=61.90  Aligned_cols=124  Identities=19%  Similarity=0.274  Sum_probs=79.8

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-------EeccCchhhHHHHHHHHhccCcEEEEEcCCCCcc---
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-------FVEESESGRARSLCNRLKKEKMILVILDNIWENL---  195 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-------~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---  195 (532)
                      ...-|.++|++|+|||-||++|+|.....  |-.+-       +..+ .+..+..++++-...-.|.|.+|.++...   
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEag~N--FisVKGPELlNkYVGE-SErAVR~vFqRAR~saPCVIFFDEiDaL~p~R  620 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEAGAN--FISVKGPELLNKYVGE-SERAVRQVFQRARASAPCVIFFDEIDALVPRR  620 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhccCc--eEeecCHHHHHHHhhh-HHHHHHHHHHHhhcCCCeEEEecchhhcCccc
Confidence            35668899999999999999999987654  53332       1111 12234556666665689999999997541   


Q ss_pred             ----c------ccccccccCC--CCCCeEEEEeecChHHh-hhcCCC---CceEEccCCCHHHHHHHHHHHhC
Q 048213          196 ----D------FHAVGIPHGD--DHKGCKVLLTARSLDVL-SRKMDS---QQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       196 ----~------~~~l~~~~~~--~~~gs~ilvTtr~~~v~-~~~~~~---~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                          .      .+.+...+..  ...|.-||-.|...++. ......   .....++.-+.+|-.++++...-
T Consensus       621 ~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tk  693 (802)
T KOG0733|consen  621 SDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITK  693 (802)
T ss_pred             CCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHhc
Confidence                1      2223223322  23566778777766654 112222   34677888888999999988776

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.87  E-value=0.0021  Score=65.11  Aligned_cols=83  Identities=24%  Similarity=0.209  Sum_probs=56.7

Q ss_pred             hHHHHHHHHHhcCC---------CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-EeccCch---hhHHHHHHHH
Q 048213          112 MSTFNDILNALKSP---------DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-FVEESES---GRARSLCNRL  178 (532)
Q Consensus       112 ~~~~~~i~~~l~~~---------~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-~~~~~~~---~~~~~l~~~l  178 (532)
                      .+++++|++.|.+.         =++-|.++|++|.|||-||++++-...+-..|-..- |++.-..   ..+..++..-
T Consensus       313 K~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VGvGArRVRdLF~aA  392 (752)
T KOG0734|consen  313 KQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVGVGARRVRDLFAAA  392 (752)
T ss_pred             HHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhcccHHHHHHHHHHH
Confidence            56778888888743         256789999999999999999999877762221111 3333222   2344555555


Q ss_pred             hccCcEEEEEcCCCCc
Q 048213          179 KKEKMILVILDNIWEN  194 (532)
Q Consensus       179 ~~~k~~LlVlDdv~~~  194 (532)
                      +..-.|.|.+|.++..
T Consensus       393 k~~APcIIFIDEiDav  408 (752)
T KOG0734|consen  393 KARAPCIIFIDEIDAV  408 (752)
T ss_pred             HhcCCeEEEEechhhh
Confidence            5457899999999754

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.86  E-value=0.003  Score=64.74  Aligned_cols=51  Identities=22%  Similarity=0.237  Sum_probs=41.5

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCC
Q 048213          106 EAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFD  158 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~  158 (532)
                      ..++||++.++.+...+..+  .-|.|.|++|+|||++|+.+.........|.
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~   70 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQNARAFE   70 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHhcccCcce
Confidence            47899999999999888766  4678999999999999999998654333444

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.86  E-value=0.00027  Score=66.33  Aligned_cols=147  Identities=18%  Similarity=0.132  Sum_probs=79.4

Q ss_pred             hHHhhhhcccccCCc---hhhhccccccEEEeccccccC-cccc-cccccccEEeecccccccc-------ccCCcceEE
Q 048213          371 RVVIDLTYMNLLSLP---SSLGLLTNLQTLCLYYCKLQD-TSVL-GELKILEILRLRVNELTRA-------GSSQLKHLS  438 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp---~~~~~l~~L~~L~l~~~~l~~-~~~i-~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~  438 (532)
                      .+.+|+.+|.++...   .-+.+|++|++|+++.|.+.. +... -.+.+|++|-|.|+.+.--       .+|.++.|+
T Consensus        73 v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelH  152 (418)
T KOG2982|consen   73 VKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELH  152 (418)
T ss_pred             hhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhhhh
Confidence            367788888876543   234678888888888887765 3333 3566888888888755432       566667777


Q ss_pred             eccccc-cCCCCCcccccC-CCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEE
Q 048213          439 VRGLRA-SAPNPTESEVAL-PKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL  516 (532)
Q Consensus       439 l~~~~~-~~~~~~~~~~~l-~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L  516 (532)
                      ++.|++ +....-...... +.+++|.+.+|... .|.++.... -.++|+..+-+..|+ +++.....-...++.+-.|
T Consensus       153 mS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~-~w~~~~~l~-r~Fpnv~sv~v~e~P-lK~~s~ek~se~~p~~~~L  229 (418)
T KOG2982|consen  153 MSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQ-LWLNKNKLS-RIFPNVNSVFVCEGP-LKTESSEKGSEPFPSLSCL  229 (418)
T ss_pred             hccchhhhhccccccccccchhhhhhhcCCcHHH-HHHHHHhHH-hhcccchheeeecCc-ccchhhcccCCCCCcchhh
Confidence            776633 011111112222 24555555555221 222220000 123777777777776 4444222111445555555


Q ss_pred             Eeec
Q 048213          517 EICE  520 (532)
Q Consensus       517 ~l~~  520 (532)
                      +|+.
T Consensus       230 nL~~  233 (418)
T KOG2982|consen  230 NLGA  233 (418)
T ss_pred             hhcc
Confidence            5543

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.84  E-value=0.0033  Score=66.45  Aligned_cols=92  Identities=20%  Similarity=0.245  Sum_probs=66.3

Q ss_pred             ccccccccccchHHHHHHHHHhc---------CCC---ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE------E
Q 048213          101 SNKDYEAFESRMSTFNDILNALK---------SPD---VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------F  162 (532)
Q Consensus       101 ~~~~~~~~~gR~~~~~~i~~~l~---------~~~---~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~------~  162 (532)
                      |.+.-..+-|-++.+.+|.+.+.         ..+   ..-|.++|++|.|||-+|++|+-.....  |=.+-      .
T Consensus       667 PnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~--FlSVKGPELLNM  744 (953)
T KOG0736|consen  667 PNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLN--FLSVKGPELLNM  744 (953)
T ss_pred             CccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceee--EEeecCHHHHHH
Confidence            34445677889999999998775         222   4568899999999999999999875543  32221      1


Q ss_pred             eccCchhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          163 VEESESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       163 ~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      .....++....++++-++.+.|.|.+|.+++.
T Consensus       745 YVGqSE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  745 YVGQSEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             HhcchHHHHHHHHHHhhccCCeEEEecccccc
Confidence            12233455677778777789999999999864

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.81  E-value=0.022  Score=57.11  Aligned_cols=151  Identities=15%  Similarity=0.139  Sum_probs=83.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhc-cCcEEEEEcCCCCccc----------
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKK-EKMILVILDNIWENLD----------  196 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~----------  196 (532)
                      |--.++||+|.|||++..++++...    ||..-..-.+.....+ +++-|.. ..+-+||+.|++-.-+          
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L~----ydIydLeLt~v~~n~d-Lr~LL~~t~~kSIivIEDIDcs~~l~~~~~~~~~  310 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYLN----YDIYDLELTEVKLDSD-LRHLLLATPNKSILLIEDIDCSFDLRERRKKKKE  310 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhcC----CceEEeeeccccCcHH-HHHHHHhCCCCcEEEEeecccccccccccccccc
Confidence            5568999999999999999999765    5555433322222222 4444432 3567888999874311          


Q ss_pred             -cc-------------ccccccCCCCCCeEEE-EeecChHHh-hhcCCCC---ceEEccCCCHHHHHHHHHHHhCCCCCC
Q 048213          197 -FH-------------AVGIPHGDDHKGCKVL-LTARSLDVL-SRKMDSQ---QDFWVGVLKEDEAWSLFKKMAGDYIEG  257 (532)
Q Consensus       197 -~~-------------~l~~~~~~~~~gs~il-vTtr~~~v~-~~~~~~~---~~~~l~~L~~~~~~~Lf~~~~~~~~~~  257 (532)
                       .+             .+...+...+ +-||| .||....-+ +..+...   ..+.+.--+.+....|+..+.+...+ 
T Consensus       311 ~~~~~~~~VTlSGLLNfiDGlwSscg-~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~~-  388 (457)
T KOG0743|consen  311 NFEGDLSRVTLSGLLNFLDGLWSSCG-DERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEED-  388 (457)
T ss_pred             cccCCcceeehHHhhhhhccccccCC-CceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCCC-
Confidence             11             1111111111 23555 566655433 1122222   35778888899999999998874332 


Q ss_pred             cchHHHHHHHHHHcCCchHHHHHHHHHH-ccC
Q 048213          258 SEFKWVAKDVAKKCAGLPVSIVTVARAL-RNK  288 (532)
Q Consensus       258 ~~~~~~~~~i~~~c~glPLai~~~~~~l-~~~  288 (532)
                         ..+..+|.+.-.|.-++=..++..| .++
T Consensus       389 ---h~L~~eie~l~~~~~~tPA~V~e~lm~~~  417 (457)
T KOG0743|consen  389 ---HRLFDEIERLIEETEVTPAQVAEELMKNK  417 (457)
T ss_pred             ---cchhHHHHHHhhcCccCHHHHHHHHhhcc
Confidence               2344455554455444434444444 344

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.81  E-value=0.016  Score=55.60  Aligned_cols=37  Identities=35%  Similarity=0.253  Sum_probs=27.3

Q ss_pred             HHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          113 STFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       113 ~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++++..++..+  .-|.+.|++|+|||++|+.+++..
T Consensus         9 ~l~~~~l~~l~~g--~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640         9 RVTSRALRYLKSG--YPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             HHHHHHHHHHhcC--CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            3455555555544  456689999999999999998743

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.77  E-value=0.0037  Score=69.86  Aligned_cols=89  Identities=18%  Similarity=0.231  Sum_probs=55.1

Q ss_pred             cccccchHHHHHHHHHhc---------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE----Eecc-C-----
Q 048213          106 EAFESRMSTFNDILNALK---------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI----FVEE-S-----  166 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~---------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~----~~~~-~-----  166 (532)
                      ..++|-+..++.+.+.+.         .....++.++|+.|+|||.||+.++........+-..+    +... +     
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~~~l~  645 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRLK  645 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhhcccc
Confidence            457899999999888874         12345789999999999999999887643211110111    0000 0     


Q ss_pred             -------chhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          167 -------ESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       167 -------~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                             ..+....+.+.+......+|+||++...
T Consensus       646 g~~~gyvg~~~~g~L~~~v~~~p~svvllDEieka  680 (852)
T TIGR03345       646 GSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKA  680 (852)
T ss_pred             CCCCCcccccccchHHHHHHhCCCcEEEEechhhc
Confidence                   0001123555666556789999999643

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.76  E-value=0.0071  Score=65.38  Aligned_cols=146  Identities=13%  Similarity=0.107  Sum_probs=89.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC-----CCCEEE-----------EeccCch
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-----LFDRVI-----------FVEESES  168 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-----~F~~~~-----------~~~~~~~  168 (532)
                      ....+||++++.++++.|....-.--.++|.+|+|||++|.-++.+.-..+     .....+           -.....+
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGakyRGeFE  248 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGAKYRGEFE  248 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccccccCcHH
Confidence            456889999999999999843333345789999999998877776532211     011111           1112334


Q ss_pred             hhHHHHHHHHhccCcEEEEEcCCCCcc--------cccc---cccccCCCCCCeEEEEeecChHH--h---hhcCCCCce
Q 048213          169 GRARSLCNRLKKEKMILVILDNIWENL--------DFHA---VGIPHGDDHKGCKVLLTARSLDV--L---SRKMDSQQD  232 (532)
Q Consensus       169 ~~~~~l~~~l~~~k~~LlVlDdv~~~~--------~~~~---l~~~~~~~~~gs~ilvTtr~~~v--~---~~~~~~~~~  232 (532)
                      +....+.+.+.+.++..|++|.++..-        ..++   +++++ ..+.--.|-.||-++.-  .   .........
T Consensus       249 eRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaL-ARGeL~~IGATT~~EYRk~iEKD~AL~RRFQ~  327 (786)
T COG0542         249 ERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPAL-ARGELRCIGATTLDEYRKYIEKDAALERRFQK  327 (786)
T ss_pred             HHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHH-hcCCeEEEEeccHHHHHHHhhhchHHHhcCce
Confidence            455666666665568999999987531        1222   23332 22333346677766542  1   012233467


Q ss_pred             EEccCCCHHHHHHHHHHHh
Q 048213          233 FWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       233 ~~l~~L~~~~~~~Lf~~~~  251 (532)
                      +.+...+.+++...++...
T Consensus       328 V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         328 VLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             eeCCCCCHHHHHHHHHHHH
Confidence            8899999999999887644

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.74  E-value=0.0039  Score=59.41  Aligned_cols=66  Identities=21%  Similarity=0.179  Sum_probs=43.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc----------hhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE----------SGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~----------~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      ...-+.++|.+|+|||.||.++.+... +..+...++...+.          ......+.+.+.  +-=||||||+-..
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l~--~~dlLIiDDlG~~  179 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL-KAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRELK--KVDLLIIDDIGYE  179 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHHhh--cCCEEEEecccCc
Confidence            567899999999999999999999987 55566555222211          112223333333  2348999999754

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.73  E-value=0.0095  Score=65.95  Aligned_cols=88  Identities=19%  Similarity=0.250  Sum_probs=52.9

Q ss_pred             ccccchHHHHHHHHHhcC---------CCceEEEEEccCCCchHHHHHHHHHHhhcc-CCCCEEEEec-----------c
Q 048213          107 AFESRMSTFNDILNALKS---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENE-KLFDRVIFVE-----------E  165 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~~~~-----------~  165 (532)
                      .++|-+..++.+.+.+..         ....++.++|+.|+|||.||+.++...... -.|+..-+..           .
T Consensus       455 ~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~~  534 (731)
T TIGR02639       455 KIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAPP  534 (731)
T ss_pred             ceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCCC
Confidence            467777778887777651         123467899999999999999998865311 0011000000           0


Q ss_pred             C--chhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          166 S--ESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       166 ~--~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      .  ..+....+.+.+......+++||+++..
T Consensus       535 gyvg~~~~~~l~~~~~~~p~~VvllDEieka  565 (731)
T TIGR02639       535 GYVGFEQGGLLTEAVRKHPHCVLLLDEIEKA  565 (731)
T ss_pred             CCcccchhhHHHHHHHhCCCeEEEEechhhc
Confidence            0  0011234555555445679999999754

>PRK09183 transposase/IS protein; Provisional

Probab=96.70  E-value=0.0012  Score=63.29  Aligned_cols=27  Identities=22%  Similarity=0.238  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+.|+|++|+|||+||..+......
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~  128 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVR  128 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            356889999999999999999876443

>PRK06526 transposase; Provisional

Probab=96.70  E-value=0.00081  Score=63.97  Aligned_cols=27  Identities=26%  Similarity=0.197  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+.++|++|+|||+||..+......
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~  124 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQ  124 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHH
Confidence            457899999999999999999876543

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.69  E-value=0.0024  Score=62.58  Aligned_cols=107  Identities=16%  Similarity=0.158  Sum_probs=58.4

Q ss_pred             cchHHHHHHHHHhcC----CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc---------hhhHHHHHH
Q 048213          110 SRMSTFNDILNALKS----PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE---------SGRARSLCN  176 (532)
Q Consensus       110 gR~~~~~~i~~~l~~----~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~---------~~~~~~l~~  176 (532)
                      +|........+++..    ...+-+.|+|..|+|||.||.++++....+ .+...+......         ........+
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~-g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~  213 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKK-GVSSTLLHFPEFIRELKNSISDGSVKEKID  213 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHc-CCCEEEEEHHHHHHHHHHHHhcCcHHHHHH
Confidence            444444444555541    245679999999999999999999987633 344443211110         001122233


Q ss_pred             HHhccCcEEEEEcCCCCc--ccccc--ccccc-CCC-CCCeEEEEeecC
Q 048213          177 RLKKEKMILVILDNIWEN--LDFHA--VGIPH-GDD-HKGCKVLLTARS  219 (532)
Q Consensus       177 ~l~~~k~~LlVlDdv~~~--~~~~~--l~~~~-~~~-~~gs~ilvTtr~  219 (532)
                      .+.  +-=||||||+...  ..|..  +...+ ... ..+-.+|+||.-
T Consensus       214 ~l~--~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        214 AVK--EAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             Hhc--CCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            333  4458999999654  34543  32222 111 133446677653

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=96.69  E-value=0.00099  Score=57.22  Aligned_cols=104  Identities=12%  Similarity=0.042  Sum_probs=58.0

Q ss_pred             ccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhcc-CCCCEEEEeccCchhhHHHHHHHHhccCcEE
Q 048213          109 ESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAENE-KLFDRVIFVEESESGRARSLCNRLKKEKMIL  185 (532)
Q Consensus       109 ~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~L  185 (532)
                      +|+...++++.+.+.  ...-..|.|.|..|+||+++|+.++...... ..|...     +.......+.+.   .+.--
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~-----~~~~~~~~~l~~---a~~gt   72 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI-----DCASLPAELLEQ---AKGGT   72 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC-----CHHCTCHHHHHH---CTTSE
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe-----chhhCcHHHHHH---cCCCE
Confidence            466666777776665  2334667899999999999999998865432 223221     111111222222   24556


Q ss_pred             EEEcCCCCcc--cccccccccC-CCCCCeEEEEeecCh
Q 048213          186 VILDNIWENL--DFHAVGIPHG-DDHKGCKVLLTARSL  220 (532)
Q Consensus       186 lVlDdv~~~~--~~~~l~~~~~-~~~~gs~ilvTtr~~  220 (532)
                      |+++|+....  ....+...+. ......|+|.||...
T Consensus        73 L~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~~  110 (138)
T PF14532_consen   73 LYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQD  110 (138)
T ss_dssp             EEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC-
T ss_pred             EEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCCC
Confidence            8899998663  2222322222 124577999998854

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.68  E-value=0.019  Score=52.62  Aligned_cols=101  Identities=13%  Similarity=0.143  Sum_probs=66.7

Q ss_pred             cccccccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHH
Q 048213          102 NKDYEAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNR  177 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~  177 (532)
                      +.+...++|-+...+.+++=-.    .....-|.+||--|.||++|++++.+....+  .-..+-...+.-.....+.+.
T Consensus        56 ~i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~--glrLVEV~k~dl~~Lp~l~~~  133 (287)
T COG2607          56 PIDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADE--GLRLVEVDKEDLATLPDLVEL  133 (287)
T ss_pred             CcCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhc--CCeEEEEcHHHHhhHHHHHHH
Confidence            3445678888887777765322    3455678999999999999999999886654  222222222233345566666


Q ss_pred             Hhc-cCcEEEEEcCCCCc---cccccccccc
Q 048213          178 LKK-EKMILVILDNIWEN---LDFHAVGIPH  204 (532)
Q Consensus       178 l~~-~k~~LlVlDdv~~~---~~~~~l~~~~  204 (532)
                      |+. ..||.|..||..-+   +.++.++..+
T Consensus       134 Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~L  164 (287)
T COG2607         134 LRARPEKFILFCDDLSFEEGDDAYKALKSAL  164 (287)
T ss_pred             HhcCCceEEEEecCCCCCCCchHHHHHHHHh
Confidence            653 57899999998744   3455555554

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=96.67  E-value=0.038  Score=58.51  Aligned_cols=125  Identities=22%  Similarity=0.241  Sum_probs=75.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-------EeccCchhhHHHHHHHHhccCcEEEEEcCCCCccccc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-------FVEESESGRARSLCNRLKKEKMILVILDNIWENLDFH  198 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-------~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~  198 (532)
                      ..+.+.++|++|.|||.||+++++.....  |-...       |...+ ...+..++..-.....+.|.+|+++....+.
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~~--fi~v~~~~l~sk~vGes-ek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r  351 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRSR--FISVKGSELLSKWVGES-EKNIRELFEKARKLAPSIIFIDEIDSLASGR  351 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCCe--EEEeeCHHHhccccchH-HHHHHHHHHHHHcCCCcEEEEEchhhhhccC
Confidence            45689999999999999999999955433  43333       11111 2233344443343578999999997542211


Q ss_pred             -------------ccccccC--CCCCCeEEEEeecChHHhhh-cC---CCCceEEccCCCHHHHHHHHHHHhCC
Q 048213          199 -------------AVGIPHG--DDHKGCKVLLTARSLDVLSR-KM---DSQQDFWVGVLKEDEAWSLFKKMAGD  253 (532)
Q Consensus       199 -------------~l~~~~~--~~~~gs~ilvTtr~~~v~~~-~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~  253 (532)
                                   .+...+.  ....+..||-||........ ..   .-...+.+.+-+.++..+.|..+...
T Consensus       352 ~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~  425 (494)
T COG0464         352 GPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRD  425 (494)
T ss_pred             CCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcc
Confidence                         1222222  12234445556655444321 11   22357888999999999999998863

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=96.67  E-value=0.0067  Score=58.91  Aligned_cols=54  Identities=20%  Similarity=0.322  Sum_probs=39.4

Q ss_pred             cccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHH-HhhccCCCCEEE
Q 048213          108 FESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAI-KAENEKLFDRVI  161 (532)
Q Consensus       108 ~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~-~~~~~~~F~~~~  161 (532)
                      +-+|..+-.--+++|.++++..|.+.|.+|.|||.||.++.= ..-.++.|+..+
T Consensus       226 i~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~Kii  280 (436)
T COG1875         226 IRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKII  280 (436)
T ss_pred             cCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEE
Confidence            445666666667888899999999999999999998876542 233344566555

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.65  E-value=0.0025  Score=60.01  Aligned_cols=65  Identities=31%  Similarity=0.235  Sum_probs=47.3

Q ss_pred             HHHHHhhHHhhhhcccccCCchhh-hccccccEEEeccccccC---cccccccccccEEeecccccccc
Q 048213          365 MEVARARVVIDLTYMNLLSLPSSL-GLLTNLQTLCLYYCKLQD---TSVLGELKILEILRLRVNELTRA  429 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~lp~~~-~~l~~L~~L~l~~~~l~~---~~~i~~l~~L~~L~l~~~~l~~~  429 (532)
                      ++.+...++++++.|++.+.-.+. -.+.||++|-+.+..+..   -+.+..+|.++.|.++.|++..+
T Consensus        93 le~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS~N~~rq~  161 (418)
T KOG2982|consen   93 LEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTELHMSDNSLRQL  161 (418)
T ss_pred             HhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhhhhhccchhhhh
Confidence            445555588999999886532222 467899999999998876   35677888899998888854443

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.62  E-value=0.0057  Score=54.00  Aligned_cols=25  Identities=20%  Similarity=0.222  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...+.|.|++|+|||||+++++.+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            3678999999999999999999987

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=96.59  E-value=0.05  Score=54.75  Aligned_cols=181  Identities=14%  Similarity=0.101  Sum_probs=101.7

Q ss_pred             cccccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhhcc-CCCCEEEEecc-------------
Q 048213          104 DYEAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENE-KLFDRVIFVEE-------------  165 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~~~~~-------------  165 (532)
                      .+....||+.++..+.+++.    .+....+.|.|-+|.|||.+...++.+.... ..|..+.....             
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHH
Confidence            35678999999999999887    3456789999999999999999888865432 11221111111             


Q ss_pred             -----------CchhhHHHHHHHHhccC-cEEEEEcCCCCccc--ccccc--cccCCCCCCeEEEEe---------ecCh
Q 048213          166 -----------SESGRARSLCNRLKKEK-MILVILDNIWENLD--FHAVG--IPHGDDHKGCKVLLT---------ARSL  220 (532)
Q Consensus       166 -----------~~~~~~~~l~~~l~~~k-~~LlVlDdv~~~~~--~~~l~--~~~~~~~~gs~ilvT---------tr~~  220 (532)
                                 ...+....+.++..+.+ -+|+|+|..+....  -..+-  ..|+ .-+++++|+-         -|.-
T Consensus       228 ~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp-~lp~sr~iLiGiANslDlTdR~L  306 (529)
T KOG2227|consen  228 SSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWP-KLPNSRIILIGIANSLDLTDRFL  306 (529)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcc-cCCcceeeeeeehhhhhHHHHHh
Confidence                       11222344555555434 78999999875421  01111  1122 2234554432         2211


Q ss_pred             HHhhh-cCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchH----HHHHHHHHHcCCchHHHHHHHHHH
Q 048213          221 DVLSR-KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFK----WVAKDVAKKCAGLPVSIVTVARAL  285 (532)
Q Consensus       221 ~v~~~-~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~----~~~~~i~~~c~glPLai~~~~~~l  285 (532)
                      .-... ..-....+...|-+.++-.++|..............    -.|++++...|-+--|+.+.-+.+
T Consensus       307 prL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~ai  376 (529)
T KOG2227|consen  307 PRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRAI  376 (529)
T ss_pred             hhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            11110 112234677889999999999998876333333222    233444444444555555554443

>PRK12377 putative replication protein; Provisional

Probab=96.57  E-value=0.0055  Score=57.93  Aligned_cols=29  Identities=14%  Similarity=0.098  Sum_probs=25.0

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      +...+.++|..|+|||.||.++++....+
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~~~  128 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLLAK  128 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            34689999999999999999999987644

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.53  E-value=0.014  Score=63.36  Aligned_cols=124  Identities=21%  Similarity=0.220  Sum_probs=70.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eec---cCchhhHHHHHHHHhccCcEEEEEcCCCCccc-----
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVE---ESESGRARSLCNRLKKEKMILVILDNIWENLD-----  196 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~---~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-----  196 (532)
                      +-|.++|++|+|||++|+.+++...+.  |-..-   +..   .........+.+.......++|++|+++....     
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~--f~~is~~~~~~~~~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~  263 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVP--FFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAG  263 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCC--EEEEehHHhHHhhhcccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCC
Confidence            458999999999999999998876543  32111   000   01111223333333334678999999975410     


Q ss_pred             -----------ccccccccCC--CCCCeEEEEeecChHHhh-hcC---CCCceEEccCCCHHHHHHHHHHHhCC
Q 048213          197 -----------FHAVGIPHGD--DHKGCKVLLTARSLDVLS-RKM---DSQQDFWVGVLKEDEAWSLFKKMAGD  253 (532)
Q Consensus       197 -----------~~~l~~~~~~--~~~gs~ilvTtr~~~v~~-~~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~  253 (532)
                                 ...+...+..  ...+.-+|.||....... ...   .....+.+...+.++-.+++..+...
T Consensus       264 ~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~  337 (644)
T PRK10733        264 LGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR  337 (644)
T ss_pred             CCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhc
Confidence                       1111111111  123455666777665432 111   22357788888888888888887653

>PRK06547 hypothetical protein; Provisional

Probab=96.53  E-value=0.0038  Score=55.64  Aligned_cols=36  Identities=28%  Similarity=0.159  Sum_probs=29.2

Q ss_pred             HHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          117 DILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       117 ~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+...+......+|+|.|++|+||||+|..+.+...
T Consensus         5 ~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~~   40 (172)
T PRK06547          5 LIAARLCGGGMITVLIDGRSGSGKTTLAGALAARTG   40 (172)
T ss_pred             HHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            344445567788999999999999999999988643

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.51  E-value=0.095  Score=49.22  Aligned_cols=215  Identities=15%  Similarity=0.107  Sum_probs=114.6

Q ss_pred             ccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE----Ee-------------------
Q 048213          107 AFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI----FV-------------------  163 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~----~~-------------------  163 (532)
                      .+.++++....+......++.+-..++|++|.||-|.+..+.+....-+--...+    |.                   
T Consensus        14 ~l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlE   93 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLE   93 (351)
T ss_pred             hcccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEE
Confidence            4566777777777765567789999999999999998888777543211111111    00                   


Q ss_pred             -ccCch-----hhHHHHHHHHhc--------cCcE-EEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH--Hhh
Q 048213          164 -EESES-----GRARSLCNRLKK--------EKMI-LVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD--VLS  224 (532)
Q Consensus       164 -~~~~~-----~~~~~l~~~l~~--------~k~~-LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~--v~~  224 (532)
                       ..+..     ..++.+.+...+        .+.| ++|+-.+++.  +.-.+++.....-.+.+|+|+...+-.  +.+
T Consensus        94 itPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlIl~cns~SriIep  173 (351)
T KOG2035|consen   94 ITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLILVCNSTSRIIEP  173 (351)
T ss_pred             eChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCceEEEEecCcccchhH
Confidence             00110     112222222221        2444 5666666543  222233322222245677776443322  211


Q ss_pred             hcCCCCceEEccCCCHHHHHHHHHHHhCCC-CCCcchHHHHHHHHHHcCCch-HHHHHHHHHHc-------c-C--ChHH
Q 048213          225 RKMDSQQDFWVGVLKEDEAWSLFKKMAGDY-IEGSEFKWVAKDVAKKCAGLP-VSIVTVARALR-------N-K--RLFD  292 (532)
Q Consensus       225 ~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~-~~~~~~~~~~~~i~~~c~glP-Lai~~~~~~l~-------~-~--~~~~  292 (532)
                       .....-.+++...+++|-...+.+.+-.. -..+  .+++.+|+++++|.- -||-++-..-.       + .  +..+
T Consensus       174 -IrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~~~~n~~~~a~~~~i~~~d  250 (351)
T KOG2035|consen  174 -IRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLMLEAVRVNNEPFTANSQVIPKPD  250 (351)
T ss_pred             -HhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHHHHHHhccccccccCCCCCCcc
Confidence             11122367899999999999998876522 1122  788999999998864 34433322111       1 1  4668


Q ss_pred             HHHHHHHhcCCCCCCCCCchhHHHHHHHhhcCCC
Q 048213          293 WKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKL  326 (532)
Q Consensus       293 w~~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L  326 (532)
                      |.-++.+.......+.  ....+..+-..-|+-|
T Consensus       251 We~~i~e~a~~i~~eQ--s~~~L~~vR~~LYeLL  282 (351)
T KOG2035|consen  251 WEIYIQEIARVILKEQ--SPAKLLEVRGRLYELL  282 (351)
T ss_pred             HHHHHHHHHHHHHhcc--CHHHHHHHHHHHHHHH
Confidence            9888877653221111  1334444444445433

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.50  E-value=0.04  Score=53.10  Aligned_cols=147  Identities=19%  Similarity=0.118  Sum_probs=86.0

Q ss_pred             ccccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHh-hccCCCCEEE------------------
Q 048213          105 YEAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKA-ENEKLFDRVI------------------  161 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~-~~~~~F~~~~------------------  161 (532)
                      ...++|-.++...+-.++.    .++..-|.|+|+.|+|||+|...+..+. +..++|=.+-                  
T Consensus        23 ~~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rq  102 (408)
T KOG2228|consen   23 HINLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQ  102 (408)
T ss_pred             CcceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHH
Confidence            3467788888888887776    4566788999999999999988877762 2222332111                  


Q ss_pred             ---------EeccCchhhHHHHHHHHhc-----cCcEEEEEcCCCCccc-------ccccccccCCCCCCeEEEEeecCh
Q 048213          162 ---------FVEESESGRARSLCNRLKK-----EKMILVILDNIWENLD-------FHAVGIPHGDDHKGCKVLLTARSL  220 (532)
Q Consensus       162 ---------~~~~~~~~~~~~l~~~l~~-----~k~~LlVlDdv~~~~~-------~~~l~~~~~~~~~gs~ilvTtr~~  220 (532)
                               ....+..+....+...|+.     +..+..|+|.++--..       ++-+...-....+-|-|.+|||-.
T Consensus       103 l~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld  182 (408)
T KOG2228|consen  103 LALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLD  182 (408)
T ss_pred             HHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeecccc
Confidence                     1111223334455555542     3447888888764311       122222222234567778999965


Q ss_pred             HHh------hhcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          221 DVL------SRKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       221 ~v~------~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      ..-      +.......++-+..++-++...++++-.
T Consensus       183 ~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  183 ILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             HHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            432      1112222356666777777777777655

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=96.49  E-value=0.0035  Score=65.22  Aligned_cols=47  Identities=17%  Similarity=0.207  Sum_probs=40.7

Q ss_pred             ccccchHHHHHHHHHhc------CCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          107 AFESRMSTFNDILNALK------SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .++|.++.+++|++.|.      +..-+++.++|++|+||||||+.+++-.+.
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~  129 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMER  129 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHh
Confidence            57899999999999983      556689999999999999999999886543

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=96.47  E-value=0.012  Score=54.06  Aligned_cols=89  Identities=24%  Similarity=0.265  Sum_probs=58.7

Q ss_pred             cccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eecc--
Q 048213          104 DYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEE--  165 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~--  165 (532)
                      .+..+-|.+-.+++|.+...             -+.++-|.++|++|.|||-||++|+++....  |-.+.   |.+.  
T Consensus       153 sy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~--firvvgsefvqkyl  230 (408)
T KOG0727|consen  153 SYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAA--FIRVVGSEFVQKYL  230 (408)
T ss_pred             cccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchh--eeeeccHHHHHHHh
Confidence            34556777777777776653             2467889999999999999999999987654  54443   1111  


Q ss_pred             -CchhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          166 -SESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       166 -~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                       ........+++.-+++-...|.+|.++..
T Consensus       231 gegprmvrdvfrlakenapsiifideidai  260 (408)
T KOG0727|consen  231 GEGPRMVRDVFRLAKENAPSIIFIDEIDAI  260 (408)
T ss_pred             ccCcHHHHHHHHHHhccCCcEEEeehhhhH
Confidence             11223344444444556788999998743

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=96.46  E-value=0.00063  Score=65.29  Aligned_cols=132  Identities=17%  Similarity=0.138  Sum_probs=83.0

Q ss_pred             hhccccccEEEeccccccC-c-----ccccccccccEEeecccccccc----------ccCCcceEEeccccccCCC---
Q 048213          388 LGLLTNLQTLCLYYCKLQD-T-----SVLGELKILEILRLRVNELTRA----------GSSQLKHLSVRGLRASAPN---  448 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~-~-----~~i~~l~~L~~L~l~~~~l~~~----------~l~~Lr~L~l~~~~~~~~~---  448 (532)
                      +..-++||++...+|.+.+ +     ..+...+.|+.+.+..|.|..-          .+++|+.|+|.+|.+ ...   
T Consensus       153 ~~~~~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtf-t~egs~  231 (382)
T KOG1909|consen  153 AASKPKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTF-TLEGSV  231 (382)
T ss_pred             cCCCcceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchh-hhHHHH
Confidence            3445678888888887766 1     2456667888888887765543          678888888888866 221   


Q ss_pred             -CCcccccCCCCCEEecCCccccccccc-ccccccccCCCccEEEeccCCCCCc-----cchhhhhhcCCCccEEEeecC
Q 048213          449 -PTESEVALPKLETVCLSSINIERIWQN-QVAAMSCGIQNLKRLILFNCWNLTC-----LFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       449 -~~~~~~~l~~L~~L~L~~~~l~~lp~~-~~~~~~~~L~~L~~L~L~~c~~l~~-----l~p~~~~~~L~~L~~L~l~~c  521 (532)
                       ....+..+++|+.|+++.|.++.-... +.....-..++|++|.|.+|. ++.     + ...+ ...+.|..|+|++|
T Consensus       232 ~LakaL~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNe-It~da~~~l-a~~~-~ek~dL~kLnLngN  308 (382)
T KOG1909|consen  232 ALAKALSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNE-ITRDAALAL-AACM-AEKPDLEKLNLNGN  308 (382)
T ss_pred             HHHHHhcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcch-hHHHHHHHH-HHHH-hcchhhHHhcCCcc
Confidence             123456778888888888876632111 000001124788888888755 321     1 2223 45788888888887


Q ss_pred             Cc
Q 048213          522 PV  523 (532)
Q Consensus       522 ~~  523 (532)
                      ..
T Consensus       309 ~l  310 (382)
T KOG1909|consen  309 RL  310 (382)
T ss_pred             cc
Confidence            63

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.42  E-value=0.0052  Score=58.52  Aligned_cols=29  Identities=21%  Similarity=0.342  Sum_probs=25.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      .-..++|+|.+|.||||||..+++....+
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~   96 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKA   96 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhc
Confidence            34789999999999999999999987654

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.41  E-value=0.07  Score=52.79  Aligned_cols=142  Identities=16%  Similarity=0.100  Sum_probs=76.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc---------------------CCCCEEEEeccC------------chhhHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE---------------------KLFDRVIFVEES------------ESGRARS  173 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------~~F~~~~~~~~~------------~~~~~~~  173 (532)
                      ...+.++|+.|+||||+|..++...--.                     .|-|.......+            ..+.+..
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR~  100 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVRE  100 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHHH
Confidence            4568899999999999999998763210                     112222222211            1122333


Q ss_pred             HHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHHHHHHH
Q 048213          174 LCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSL  246 (532)
Q Consensus       174 l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~L  246 (532)
                      +.+.+.    .+++-++|+|++...+  .-+.+...+..-..++.+|++|.+.. +..........+.+.+++.+++.+.
T Consensus       101 l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~  180 (325)
T PRK08699        101 IIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAY  180 (325)
T ss_pred             HHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHH
Confidence            444443    1344455668877542  22222222211123455666776654 4332233345788999999999888


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHHcCCchHH
Q 048213          247 FKKMAGDYIEGSEFKWVAKDVAKKCAGLPVS  277 (532)
Q Consensus       247 f~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  277 (532)
                      +... + .   .. ..   ..+..++|-|+.
T Consensus       181 L~~~-~-~---~~-~~---~~l~~~~g~p~~  202 (325)
T PRK08699        181 LRER-G-V---AE-PE---ERLAFHSGAPLF  202 (325)
T ss_pred             HHhc-C-C---Cc-HH---HHHHHhCCChhh
Confidence            8653 1 1   11 11   123568898864

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.38  E-value=0.036  Score=53.23  Aligned_cols=165  Identities=13%  Similarity=0.092  Sum_probs=84.8

Q ss_pred             HHHHHHHHHhc---CCCceEEEEEccCCCchHHHHHHHHHHhhccC-----CCCEEE-----------------------
Q 048213          113 STFNDILNALK---SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-----LFDRVI-----------------------  161 (532)
Q Consensus       113 ~~~~~i~~~l~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-----~F~~~~-----------------------  161 (532)
                      +.++++.+.+.   ....+-+.|||.+|+|||++++.+.+......     .++...                       
T Consensus        44 ~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP  123 (302)
T PF05621_consen   44 EALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAP  123 (302)
T ss_pred             HHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcc
Confidence            33445445444   44567899999999999999999987654331     122222                       


Q ss_pred             E-eccCchhhHHHHHHHHhccCcEEEEEcCCCCcc---------cccccccccCCCCCCeEEEEeecChHHhhh----cC
Q 048213          162 F-VEESESGRARSLCNRLKKEKMILVILDNIWENL---------DFHAVGIPHGDDHKGCKVLLTARSLDVLSR----KM  227 (532)
Q Consensus       162 ~-~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---------~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~----~~  227 (532)
                      + ...+.........+.+..-+--+||+|++.+.-         ..+.+ ..+...-.-+-|.|-|+.-.-+-.    ..
T Consensus       124 ~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~L-K~L~NeL~ipiV~vGt~~A~~al~~D~QLa  202 (302)
T PF05621_consen  124 YRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNAL-KFLGNELQIPIVGVGTREAYRALRTDPQLA  202 (302)
T ss_pred             cCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHH-HHHhhccCCCeEEeccHHHHHHhccCHHHH
Confidence            0 011112222333344443344589999998741         11111 112112223445566654333210    00


Q ss_pred             CCCceEEccCCC-HHHHHHHHHHHhC----CCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          228 DSQQDFWVGVLK-EDEAWSLFKKMAG----DYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       228 ~~~~~~~l~~L~-~~~~~~Lf~~~~~----~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      .....+.+..-. .++...|+.....    .....-...++++.|...++|+.=-+
T Consensus       203 ~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l  258 (302)
T PF05621_consen  203 SRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGEL  258 (302)
T ss_pred             hccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHH
Confidence            112344444433 3455566554332    12222334788999999999986433

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=96.38  E-value=0.0041  Score=57.77  Aligned_cols=26  Identities=31%  Similarity=0.616  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|.|-||+||||++..++.....
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~la~   26 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAALAE   26 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHHHH
Confidence            57899999999999999888765543

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK07667 uridine kinase; Provisional

Probab=96.38  E-value=0.0049  Score=56.28  Aligned_cols=38  Identities=26%  Similarity=0.360  Sum_probs=29.3

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          115 FNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       115 ~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+.|.+.+.  .+...+|+|.|.+|+||||+|..+.....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~   42 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMK   42 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345555554  34557999999999999999999988654

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=96.38  E-value=0.0044  Score=60.27  Aligned_cols=26  Identities=31%  Similarity=0.496  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|+|-||+||||+|..++.-...
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~La~   27 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAALAE   27 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            57899999999999999988776543

>PRK13236 nitrogenase reductase; Reviewed

Probab=96.37  E-value=0.0048  Score=60.42  Aligned_cols=30  Identities=23%  Similarity=0.520  Sum_probs=25.1

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +.+.+++++.|-||+||||+|..++.-...
T Consensus         3 ~~~~~~~~~~GKGGVGKTt~a~NLA~~La~   32 (296)
T PRK13236          3 DENIRQIAFYGKGGIGKSTTSQNTLAAMAE   32 (296)
T ss_pred             CcCceEEEEECCCcCCHHHHHHHHHHHHHH
Confidence            567899999999999999999887765444

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=96.36  E-value=0.044  Score=50.92  Aligned_cols=160  Identities=16%  Similarity=0.118  Sum_probs=85.5

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-----------------Eec---cCchhhHH----HHHHHHh
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-----------------FVE---ESESGRAR----SLCNRLK  179 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-----------------~~~---~~~~~~~~----~l~~~l~  179 (532)
                      ..+-.++.++|.-|+|||.+.+++.........-...+                 +..   ........    .+....+
T Consensus        48 ~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~  127 (269)
T COG3267          48 ADGQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVK  127 (269)
T ss_pred             hcCCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHH
Confidence            45557999999999999999995554333222222122                 000   01111222    3333444


Q ss_pred             ccCc-EEEEEcCCCCc--ccccccc--cccCCCCC-CeEEEEeecCh-------HHhhhcCCCCce-EEccCCCHHHHHH
Q 048213          180 KEKM-ILVILDNIWEN--LDFHAVG--IPHGDDHK-GCKVLLTARSL-------DVLSRKMDSQQD-FWVGVLKEDEAWS  245 (532)
Q Consensus       180 ~~k~-~LlVlDdv~~~--~~~~~l~--~~~~~~~~-gs~ilvTtr~~-------~v~~~~~~~~~~-~~l~~L~~~~~~~  245 (532)
                      +++| ..+++|+....  +..+.++  ..+-.... --+|+..-.-+       .+.........+ |.+.|++.++...
T Consensus       128 ~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~t~~  207 (269)
T COG3267         128 KGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAETGL  207 (269)
T ss_pred             hCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChHHHHH
Confidence            5778 99999998755  2222221  11111110 11122211110       011111111234 8999999998888


Q ss_pred             HHHHHhCCC--CCCcchHHHHHHHHHHcCCchHHHHHHHH
Q 048213          246 LFKKMAGDY--IEGSEFKWVAKDVAKKCAGLPVSIVTVAR  283 (532)
Q Consensus       246 Lf~~~~~~~--~~~~~~~~~~~~i~~~c~glPLai~~~~~  283 (532)
                      .+.......  ...--..+....|.....|.|.+|..++.
T Consensus       208 yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         208 YLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence            777765421  11222356678899999999999977764

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.36  E-value=0.0057  Score=57.53  Aligned_cols=29  Identities=24%  Similarity=0.264  Sum_probs=25.1

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++..+++|.|+.|+|||||++.+......
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~   59 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQ   59 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            56789999999999999999998876543

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.31  E-value=0.026  Score=59.44  Aligned_cols=151  Identities=13%  Similarity=0.013  Sum_probs=77.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-Eec-cCchhhHHHHHHHHh-------ccCcEEEEEcCCCCc----
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-FVE-ESESGRARSLCNRLK-------KEKMILVILDNIWEN----  194 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-~~~-~~~~~~~~~l~~~l~-------~~k~~LlVlDdv~~~----  194 (532)
                      .-|.|.|+.|+|||+||+++++..... +.-.+. ++. .......+.+++.+.       .-..-+|||||++-.    
T Consensus       432 ~~Ill~G~~GsGKT~L~kal~~~~~k~-~~~hv~~v~Cs~l~~~~~e~iQk~l~~vfse~~~~~PSiIvLDdld~l~~~s  510 (952)
T KOG0735|consen  432 GNILLNGPKGSGKTNLVKALFDYYSKD-LIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWYAPSIIVLDDLDCLASAS  510 (952)
T ss_pred             ccEEEeCCCCCCHhHHHHHHHHHhccc-cceEEEEEechhccchhHHHHHHHHHHHHHHHHhhCCcEEEEcchhhhhccC
Confidence            468899999999999999999977622 211111 111 111122333333332       136789999999732    


Q ss_pred             ----ccccc-----------cccccCCCCCCeEEEEeecChHHhhhcCCC----CceEEccCCCHHHHHHHHHHHhCCCC
Q 048213          195 ----LDFHA-----------VGIPHGDDHKGCKVLLTARSLDVLSRKMDS----QQDFWVGVLKEDEAWSLFKKMAGDYI  255 (532)
Q Consensus       195 ----~~~~~-----------l~~~~~~~~~gs~ilvTtr~~~v~~~~~~~----~~~~~l~~L~~~~~~~Lf~~~~~~~~  255 (532)
                          .+|..           +...+...++.-++|.|.............    ..+..+..+...+-.++++.......
T Consensus       511 ~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~  590 (952)
T KOG0735|consen  511 SNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNL  590 (952)
T ss_pred             cccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHHHHHHHHHhhh
Confidence                12221           111222222223456666654433211111    23567888887777777665443221


Q ss_pred             CCcchHHHHHHHHHHcCCc-hHHHHH
Q 048213          256 EGSEFKWVAKDVAKKCAGL-PVSIVT  280 (532)
Q Consensus       256 ~~~~~~~~~~~i~~~c~gl-PLai~~  280 (532)
                      . ....+...-+..+|+|. |.-+.+
T Consensus       591 ~-~~~~~dLd~ls~~TEGy~~~DL~i  615 (952)
T KOG0735|consen  591 S-DITMDDLDFLSVKTEGYLATDLVI  615 (952)
T ss_pred             h-hhhhHHHHHHHHhcCCccchhHHH
Confidence            1 11122223377788775 444433

>TIGR01287 nifH nitrogenase iron protein

Probab=96.29  E-value=0.0044  Score=60.08  Aligned_cols=27  Identities=33%  Similarity=0.594  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      +.|+|+|-||+||||+|..++.....+
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~   27 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEM   27 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHC
Confidence            478999999999999999887765543

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.28  E-value=0.0091  Score=53.99  Aligned_cols=33  Identities=27%  Similarity=0.361  Sum_probs=26.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      .+++.|+|+.|+|||||+..+......+  |...+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~--~~~~v   34 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDK--FGRVV   34 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTT--EEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccc--cccce
Confidence            4789999999999999999999875433  54433

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=96.28  E-value=0.077  Score=49.18  Aligned_cols=89  Identities=16%  Similarity=0.238  Sum_probs=58.1

Q ss_pred             cccccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eec-
Q 048213          102 NKDYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVE-  164 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~-  164 (532)
                      ...+..+-|-+..++++++.+.             -..++-|..+|++|.|||-+|++.+......  |-..+   ..+ 
T Consensus       167 tE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aT--FLKLAgPQLVQM  244 (424)
T KOG0652|consen  167 TEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNAT--FLKLAGPQLVQM  244 (424)
T ss_pred             cccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccch--HHHhcchHHHhh
Confidence            4446678888999999998875             1245778999999999999999988754332  32222   111 


Q ss_pred             --cCchhhHHHHHHHHhccCcEEEEEcCCC
Q 048213          165 --ESESGRARSLCNRLKKEKMILVILDNIW  192 (532)
Q Consensus       165 --~~~~~~~~~l~~~l~~~k~~LlVlDdv~  192 (532)
                        .+...+....+..-+++....|.+|.++
T Consensus       245 fIGdGAkLVRDAFaLAKEkaP~IIFIDElD  274 (424)
T KOG0652|consen  245 FIGDGAKLVRDAFALAKEKAPTIIFIDELD  274 (424)
T ss_pred             hhcchHHHHHHHHHHhhccCCeEEEEechh
Confidence              1122223333333345678899999986

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.26  E-value=0.0036  Score=57.24  Aligned_cols=25  Identities=40%  Similarity=0.464  Sum_probs=22.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ||+|.|++|+||||+|+.+......
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~   25 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNK   25 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCc
Confidence            6999999999999999999887653

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.24  E-value=0.0039  Score=52.49  Aligned_cols=22  Identities=50%  Similarity=0.616  Sum_probs=20.1

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |+|.|..|+||||+|+.+....
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999998873

...

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.19  E-value=0.024  Score=56.29  Aligned_cols=131  Identities=18%  Similarity=0.115  Sum_probs=74.5

Q ss_pred             cccchHHHHHHHHHhc-CCCceE-EEEEccCCCchHHHHHHHHHHhhccC--------------------CCCEEEEecc
Q 048213          108 FESRMSTFNDILNALK-SPDVNM-LGIYGMGGIRKTTPAKEVAIKAENEK--------------------LFDRVIFVEE  165 (532)
Q Consensus       108 ~~gR~~~~~~i~~~l~-~~~~~v-v~I~G~gGiGKTtLA~~v~~~~~~~~--------------------~F~~~~~~~~  165 (532)
                      ++|-+....++..+.. .++..- +.++|+.|+||||+|..+++..--..                    |.+..-+...
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s   82 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPS   82 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEeccc
Confidence            4566777778887777 444554 99999999999999999998754221                    1222222222


Q ss_pred             Cch------hhHHHHHHHHhc----cCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChH-HhhhcCCCCce
Q 048213          166 SES------GRARSLCNRLKK----EKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQD  232 (532)
Q Consensus       166 ~~~------~~~~~l~~~l~~----~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~  232 (532)
                      +..      +.+..+.+....    ++.-++++|+++...  .-+.+...+..-...+.+|++|.... +..........
T Consensus        83 ~~~~~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~SRc~~  162 (325)
T COG0470          83 DLRKIDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSRCQR  162 (325)
T ss_pred             ccCCCcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhhccee
Confidence            211      223333333321    466799999998652  33444333333355677777777443 32212222235


Q ss_pred             EEccCC
Q 048213          233 FWVGVL  238 (532)
Q Consensus       233 ~~l~~L  238 (532)
                      +.+.+.
T Consensus       163 i~f~~~  168 (325)
T COG0470         163 IRFKPP  168 (325)
T ss_pred             eecCCc
Confidence            566653

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=96.17  E-value=0.012  Score=64.73  Aligned_cols=88  Identities=19%  Similarity=0.208  Sum_probs=53.8

Q ss_pred             ccccchHHHHHHHHHhcC---------CCceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEecc-Cch-------
Q 048213          107 AFESRMSTFNDILNALKS---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEE-SES-------  168 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~-~~~-------  168 (532)
                      .++|-++.++.|.+.+..         .....+.++|+.|+|||.+|+.++......- .|++.-+... ...       
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~~  538 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPP  538 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCCC
Confidence            467888888888887761         1245788999999999999999988663210 0111101000 000       


Q ss_pred             -----hhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          169 -----GRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       169 -----~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                           +....+.+.+......+++||++...
T Consensus       539 gyvg~~~~g~L~~~v~~~p~sVlllDEieka  569 (758)
T PRK11034        539 GYVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_pred             CcccccccchHHHHHHhCCCcEEEeccHhhh
Confidence                 01123445555445579999999865

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.16  E-value=0.017  Score=64.97  Aligned_cols=46  Identities=20%  Similarity=0.216  Sum_probs=37.5

Q ss_pred             cccccchHHHHHHHHHhcC------C---CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          106 EAFESRMSTFNDILNALKS------P---DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~------~---~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|.+..++.+.+.+..      .   ...++.++|+.|+|||++|+.+....
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l  619 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL  619 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4588999999999888862      1   24578899999999999999998764

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.15  E-value=0.013  Score=56.21  Aligned_cols=26  Identities=31%  Similarity=0.290  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +.|.|+|.+|+||||+|+.+......
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~   27 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEE   27 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHh
Confidence            57899999999999999999886544

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.15  E-value=0.04  Score=57.22  Aligned_cols=168  Identities=16%  Similarity=0.117  Sum_probs=100.9

Q ss_pred             cccccchHHHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhccC-------------------CCCEEE-Eec
Q 048213          106 EAFESRMSTFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENEK-------------------LFDRVI-FVE  164 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-------------------~F~~~~-~~~  164 (532)
                      ..++|-+.....|...+..+. ..-....|+-|+||||+|+.++...--..                   .|-..+ ++.
T Consensus        16 ~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~DviEiDa   95 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDVIEIDA   95 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcccchhhhh
Confidence            456899999999999888554 34456789999999999999887432211                   011111 111


Q ss_pred             c--CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEE-EEeecChHHhhhcCCCCceEEc
Q 048213          165 E--SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKV-LLTARSLDVLSRKMDSQQDFWV  235 (532)
Q Consensus       165 ~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~i-lvTtr~~~v~~~~~~~~~~~~l  235 (532)
                      .  ..-+.++.|.+...    .++.=..|+|.|+..  ..|+++...+-.-...... +.||-...+..........|.+
T Consensus        96 ASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSRcq~f~f  175 (515)
T COG2812          96 ASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRFDF  175 (515)
T ss_pred             hhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhccccccc
Confidence            1  12223444554443    245558999999855  5577665555333344444 4555555565545555678999


Q ss_pred             cCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          236 GVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       236 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      ..++.++-...+...+.... ..-.++...-|++...|.
T Consensus       176 kri~~~~I~~~L~~i~~~E~-I~~e~~aL~~ia~~a~Gs  213 (515)
T COG2812         176 KRLDLEEIAKHLAAILDKEG-INIEEDALSLIARAAEGS  213 (515)
T ss_pred             cCCCHHHHHHHHHHHHHhcC-CccCHHHHHHHHHHcCCC
Confidence            99999988887777665211 112234455555555553

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=96.14  E-value=0.0062  Score=59.01  Aligned_cols=25  Identities=32%  Similarity=0.618  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++|+|+|-||+||||+|..++.-..
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~La   26 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAALS   26 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5788889999999999988876554

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=96.14  E-value=0.0064  Score=58.93  Aligned_cols=26  Identities=31%  Similarity=0.547  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|+|-||+||||+|..++.-...
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~La~   27 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAGLAE   27 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHHHHH
Confidence            57889999999999999888765543

>PTZ00301 uridine kinase; Provisional

Probab=96.13  E-value=0.005  Score=56.73  Aligned_cols=25  Identities=20%  Similarity=0.416  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|+|.|.+|+||||||+.+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            4789999999999999999887654

>PRK04132 replication factor C small subunit; Provisional

Probab=96.12  E-value=0.093  Score=58.08  Aligned_cols=144  Identities=10%  Similarity=-0.009  Sum_probs=83.1

Q ss_pred             cCCCchHHHHHHHHHHhhccC-CCCEEEEeccCc--hhhHHHH-HHHHh----c-cCcEEEEEcCCCCcc--cccccccc
Q 048213          135 MGGIRKTTPAKEVAIKAENEK-LFDRVIFVEESE--SGRARSL-CNRLK----K-EKMILVILDNIWENL--DFHAVGIP  203 (532)
Q Consensus       135 ~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~~~--~~~~~~l-~~~l~----~-~k~~LlVlDdv~~~~--~~~~l~~~  203 (532)
                      |.++||||+|..++++.-..+ .++..-++..+.  .+.+..+ .+...    . .+.-++|+|+++...  ..+.+...
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD~Lt~~AQnALLk~  653 (846)
T PRK04132        574 PTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRT  653 (846)
T ss_pred             CCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcCCCCCEEEEEECcccCCHHHHHHHHHH
Confidence            788999999999998863211 012221222221  1222222 22221    1 134799999998763  45555444


Q ss_pred             cCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHH
Q 048213          204 HGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIV  279 (532)
Q Consensus       204 ~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  279 (532)
                      +-.-...+++|.+|.+.. +..........+.+.+++.++-...+...+.... ..-.++....|+..|+|-+....
T Consensus       654 lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Eg-i~i~~e~L~~Ia~~s~GDlR~AI  729 (846)
T PRK04132        654 MEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG-LELTEEGLQAILYIAEGDMRRAI  729 (846)
T ss_pred             hhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHcCCCHHHHH
Confidence            432234566666665543 3222233345899999999998888877654211 11125678899999999874443

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=96.12  E-value=0.019  Score=52.51  Aligned_cols=98  Identities=17%  Similarity=0.122  Sum_probs=51.9

Q ss_pred             HHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHH-----------h------
Q 048213          117 DILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRL-----------K------  179 (532)
Q Consensus       117 ~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l-----------~------  179 (532)
                      +.+..+..++-+++.|.|++|.||||++..+.......+ +...+...  .......+.+..           .      
T Consensus         8 ~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~ap--T~~Aa~~L~~~~~~~a~Ti~~~l~~~~~~~   84 (196)
T PF13604_consen    8 EAVRAILTSGDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAP--TNKAAKELREKTGIEAQTIHSFLYRIPNGD   84 (196)
T ss_dssp             HHHHHHHHCTCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEES--SHHHHHHHHHHHTS-EEEHHHHTTEECCEE
T ss_pred             HHHHHHHhcCCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECC--cHHHHHHHHHhhCcchhhHHHHHhcCCccc
Confidence            334444344457899999999999999999887665543 44333111  111222233332           1      


Q ss_pred             ------ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecC
Q 048213          180 ------KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARS  219 (532)
Q Consensus       180 ------~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~  219 (532)
                            -.+.-+||+|++...+  ++..+.....  ..|+++|+.--.
T Consensus        85 ~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~--~~~~klilvGD~  130 (196)
T PF13604_consen   85 DEGRPELPKKDVLIVDEASMVDSRQLARLLRLAK--KSGAKLILVGDP  130 (196)
T ss_dssp             CCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS---T-T-EEEEEE-T
T ss_pred             ccccccCCcccEEEEecccccCHHHHHHHHHHHH--hcCCEEEEECCc
Confidence                  0133589999998653  4544433332  246777765443

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.12  E-value=0.005  Score=52.82  Aligned_cols=28  Identities=29%  Similarity=0.247  Sum_probs=24.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ..-|+|.||+|+||||+++.+.+..+.+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~   32 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREK   32 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhc
Confidence            3568999999999999999999877655

>PRK08233 hypothetical protein; Provisional

Probab=96.11  E-value=0.0051  Score=55.45  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|+|.|.+|+||||||..++...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4789999999999999999998764

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.10  E-value=0.059  Score=51.00  Aligned_cols=166  Identities=20%  Similarity=0.205  Sum_probs=87.8

Q ss_pred             cccccchHHHHHHHHHhc------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc-----Cch
Q 048213          106 EAFESRMSTFNDILNALK------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE-----SES  168 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~-----~~~  168 (532)
                      ..+.|-+...+.+.+...            ....+-|.++|++|.||+-||++|+....- ..|...-.+-.     ..+
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnS-TFFSvSSSDLvSKWmGESE  211 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANS-TFFSVSSSDLVSKWMGESE  211 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCC-ceEEeehHHHHHHHhccHH
Confidence            345666666666666543            124688999999999999999999986552 22222211100     112


Q ss_pred             hhHHHHHHHHhccCcEEEEEcCCCCcc---------ccccccccc-------CCCCCCeEEEEeecChHHhhhcCCC--C
Q 048213          169 GRARSLCNRLKKEKMILVILDNIWENL---------DFHAVGIPH-------GDDHKGCKVLLTARSLDVLSRKMDS--Q  230 (532)
Q Consensus       169 ~~~~~l~~~l~~~k~~LlVlDdv~~~~---------~~~~l~~~~-------~~~~~gs~ilvTtr~~~v~~~~~~~--~  230 (532)
                      .+...+++.-.+.|.-+|.+|.|+...         .-..++..|       .....|.-|+-.|...-++......  .
T Consensus       212 kLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw~LDsAIRRRFe  291 (439)
T KOG0739|consen  212 KLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPWVLDSAIRRRFE  291 (439)
T ss_pred             HHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCCCchhHHHHHHHHhh
Confidence            234556665566799999999997431         111221111       1223455555566655444211111  1


Q ss_pred             ceEEccCCCHHHHHH-HHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          231 QDFWVGVLKEDEAWS-LFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       231 ~~~~l~~L~~~~~~~-Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      .-+.+ ||++..|.. .|.-+.+. .+..-.+.-.+++.++..|.
T Consensus       292 kRIYI-PLPe~~AR~~MF~lhlG~-tp~~LT~~d~~eL~~kTeGy  334 (439)
T KOG0739|consen  292 KRIYI-PLPEAHARARMFKLHLGD-TPHVLTEQDFKELARKTEGY  334 (439)
T ss_pred             cceec-cCCcHHHhhhhheeccCC-CccccchhhHHHHHhhcCCC
Confidence            11222 455555554 34444442 33333344456666666654

>PRK06921 hypothetical protein; Provisional

Probab=96.09  E-value=0.015  Score=55.77  Aligned_cols=65  Identities=22%  Similarity=0.253  Sum_probs=39.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhh-------HHHHHHHHhccCcEEEEEcCCC
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGR-------ARSLCNRLKKEKMILVILDNIW  192 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~-------~~~l~~~l~~~k~~LlVlDdv~  192 (532)
                      ....+.++|..|+|||.||.++++....+..+....+........       .....+.+.  +-=||||||+.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~~~~~~~~~~~~--~~dlLiIDDl~  187 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDFDLLEAKLNRMK--KVEVLFIDDLF  187 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHHHHHHHHHHHhc--CCCEEEEeccc
Confidence            457899999999999999999999765432344433222111010       111222222  34599999993

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.09  E-value=0.0058  Score=56.57  Aligned_cols=27  Identities=30%  Similarity=0.289  Sum_probs=24.1

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+..+|+|.|.+|+||||||..++...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456899999999999999999998865

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.06  E-value=0.0057  Score=45.37  Aligned_cols=23  Identities=35%  Similarity=0.424  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +++|.|..|+||||+|+.+.+..
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998874

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.01  E-value=0.035  Score=56.53  Aligned_cols=28  Identities=25%  Similarity=0.324  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+|.++|+.|+||||+|..++.....
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~  126 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQR  126 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4689999999999999999998876543

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.00  E-value=0.0063  Score=52.38  Aligned_cols=23  Identities=30%  Similarity=0.353  Sum_probs=20.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +|.++|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            57899999999999999998654

...

>PRK07952 DNA replication protein DnaC; Validated

Probab=95.99  E-value=0.024  Score=53.51  Aligned_cols=28  Identities=14%  Similarity=0.063  Sum_probs=24.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ...+.++|.+|+|||+||.++++....+
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~  126 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLR  126 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4578999999999999999999976543

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=95.99  E-value=0.055  Score=57.05  Aligned_cols=166  Identities=20%  Similarity=0.200  Sum_probs=88.2

Q ss_pred             cccccchHHHH---HHHHHhcCCC---------ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eecc---Cc
Q 048213          106 EAFESRMSTFN---DILNALKSPD---------VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEE---SE  167 (532)
Q Consensus       106 ~~~~gR~~~~~---~i~~~l~~~~---------~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~---~~  167 (532)
                      ....|.++.++   ++++.|.+..         ++-|.++|++|.|||.||++++....+-  |-...   |.+.   -.
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--Ff~iSGS~FVemfVGvG  227 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--FFSISGSDFVEMFVGVG  227 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC--ceeccchhhhhhhcCCC
Confidence            34556665554   4555555332         4668999999999999999999988776  32221   1111   11


Q ss_pred             hhhHHHHHHHHhccCcEEEEEcCCCCcc----------------cccccccccCCCC--CCeEEEEeecChHHh-hhcCC
Q 048213          168 SGRARSLCNRLKKEKMILVILDNIWENL----------------DFHAVGIPHGDDH--KGCKVLLTARSLDVL-SRKMD  228 (532)
Q Consensus       168 ~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~~~~~~--~gs~ilvTtr~~~v~-~~~~~  228 (532)
                      ......+...-+..-.+.+++|.++...                .++++.......+  .|-.|+..|...+|. .....
T Consensus       228 AsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaaTNRpdVlD~ALlR  307 (596)
T COG0465         228 ASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAATNRPDVLDPALLR  307 (596)
T ss_pred             cHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEecCCCcccchHhhcC
Confidence            2233344433333457999999987541                1222322222222  344455555555554 11222


Q ss_pred             ---CCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          229 ---SQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       229 ---~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                         -...+.++..+-..-.+.+.-++....-.+. .+ ...|++.+-|.-
T Consensus       308 pgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~-Vd-l~~iAr~tpGfs  355 (596)
T COG0465         308 PGRFDRQILVELPDIKGREQILKVHAKNKPLAED-VD-LKKIARGTPGFS  355 (596)
T ss_pred             CCCcceeeecCCcchhhHHHHHHHHhhcCCCCCc-CC-HHHHhhhCCCcc
Confidence               2246666666666666777655542221111 11 122666666653

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=95.97  E-value=0.019  Score=52.32  Aligned_cols=28  Identities=21%  Similarity=0.358  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ++++.++|+.|+||||.+..++.....+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~   28 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLK   28 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhc
Confidence            4789999999999998887777766544

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.97  E-value=0.016  Score=61.25  Aligned_cols=64  Identities=22%  Similarity=0.248  Sum_probs=42.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---EeccCchhhHHHHHHHHhc-------cCcEEEEEcCCCCc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEESESGRARSLCNRLKK-------EKMILVILDNIWEN  194 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~~~~~~~~~l~~~l~~-------~k~~LlVlDdv~~~  194 (532)
                      -+++.++|++|+||||||.-++++.-    |...-   .+..+......+|...++.       ++...||+|.++..
T Consensus       326 kKilLL~GppGlGKTTLAHViAkqaG----YsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  326 KKILLLCGPPGLGKTTLAHVIAKQAG----YSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGA  399 (877)
T ss_pred             cceEEeecCCCCChhHHHHHHHHhcC----ceEEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccCC
Confidence            47899999999999999999998754    32221   2222333333444444432       46677999999865

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.96  E-value=0.042  Score=54.79  Aligned_cols=37  Identities=27%  Similarity=0.304  Sum_probs=25.8

Q ss_pred             HHHHHHHhcCC----CceEEEEEccCCCchH-HHHHHHHHHh
Q 048213          115 FNDILNALKSP----DVNMLGIYGMGGIRKT-TPAKEVAIKA  151 (532)
Q Consensus       115 ~~~i~~~l~~~----~~~vv~I~G~gGiGKT-tLA~~v~~~~  151 (532)
                      ...+..++.++    +-++|.++|+.|+||| |||+..+.-.
T Consensus       187 l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~  228 (407)
T COG1419         187 LRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYV  228 (407)
T ss_pred             HHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHH
Confidence            34444444433    3699999999999999 5777666544

>PRK10865 protein disaggregation chaperone; Provisional

Probab=95.95  E-value=0.022  Score=64.04  Aligned_cols=45  Identities=18%  Similarity=0.193  Sum_probs=35.6

Q ss_pred             ccccchHHHHHHHHHhcC---------CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          107 AFESRMSTFNDILNALKS---------PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++|.+..++.+...+..         .+..++.++|+.|+|||++|+.+++..
T Consensus       569 ~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        569 RVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             eEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            578988888888877751         112478899999999999999998754

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=95.95  E-value=0.023  Score=55.69  Aligned_cols=145  Identities=14%  Similarity=0.137  Sum_probs=81.0

Q ss_pred             ccccccchHHHHHHHHHhcCCC---ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-------------Eec--cC
Q 048213          105 YEAFESRMSTFNDILNALKSPD---VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-------------FVE--ES  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~---~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-------------~~~--~~  166 (532)
                      .+.|.+|+..+..+...+.+..   +..|-|+|-+|.|||.+.+.+++......-|-..+             ...  .+
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~IL~~~~~~d   84 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEKILNKSQLAD   84 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHHHHHHhccCC
Confidence            4567799999999999888543   24458899999999999999999874332221111             000  11


Q ss_pred             ch------------hhHHHHHH--HHh-ccCcEEEEEcCCCCccccccccccc----C--CCCCCeEEEEeecCh--HHh
Q 048213          167 ES------------GRARSLCN--RLK-KEKMILVILDNIWENLDFHAVGIPH----G--DDHKGCKVLLTARSL--DVL  223 (532)
Q Consensus       167 ~~------------~~~~~l~~--~l~-~~k~~LlVlDdv~~~~~~~~l~~~~----~--~~~~gs~ilvTtr~~--~v~  223 (532)
                      .+            +....+.+  ... .++.++||||+++...+.+++.-+.    .  -..+ .-+|+++-..  ...
T Consensus        85 ~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~-~i~iils~~~~e~~y  163 (438)
T KOG2543|consen   85 KDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEP-TIVIILSAPSCEKQY  163 (438)
T ss_pred             CchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCC-ceEEEEeccccHHHh
Confidence            10            01111222  111 1468999999998776555431110    0  0112 2234443322  222


Q ss_pred             hhcCCCCc--eEEccCCCHHHHHHHHHHH
Q 048213          224 SRKMDSQQ--DFWVGVLKEDEAWSLFKKM  250 (532)
Q Consensus       224 ~~~~~~~~--~~~l~~L~~~~~~~Lf~~~  250 (532)
                      ...++...  ++....-+.++...++.+.
T Consensus       164 ~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  164 LINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             hcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence            21234433  4556677788888887663

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.95  E-value=0.025  Score=63.46  Aligned_cols=46  Identities=17%  Similarity=0.202  Sum_probs=36.1

Q ss_pred             cccccchHHHHHHHHHhcC-------C--CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          106 EAFESRMSTFNDILNALKS-------P--DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~-------~--~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|-+..++.+.+.+..       .  +..++.++|+.|+|||+||+.+++..
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            4578988888888887751       1  23457789999999999999998754

>TIGR00235 udk uridine kinase

Probab=95.94  E-value=0.0067  Score=56.08  Aligned_cols=27  Identities=30%  Similarity=0.298  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+|+|+|++|+||||||+.+.....
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            457999999999999999999987643

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd01131 PilT Pilus retraction ATPase PilT

Probab=95.93  E-value=0.02  Score=52.46  Aligned_cols=90  Identities=11%  Similarity=0.077  Sum_probs=53.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-----------------Eec--c--CchhhHHHHHHHHhccCcEEE
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-----------------FVE--E--SESGRARSLCNRLKKEKMILV  186 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-----------------~~~--~--~~~~~~~~l~~~l~~~k~~Ll  186 (532)
                      .++.|+|+.|+||||++..+.......  ....+                 ...  .  ......+.+...+.. ..=.+
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~--~~~~i~t~e~~~E~~~~~~~~~i~q~~vg~~~~~~~~~i~~aLr~-~pd~i   78 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKN--KTHHILTIEDPIEFVHESKRSLINQREVGLDTLSFENALKAALRQ-DPDVI   78 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhc--CCcEEEEEcCCccccccCccceeeecccCCCccCHHHHHHHHhcC-CcCEE
Confidence            478999999999999999877654321  11111                 000  0  112234455555654 45589


Q ss_pred             EEcCCCCcccccccccccCCCCCCeEEEEeecChHHh
Q 048213          187 ILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVL  223 (532)
Q Consensus       187 VlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~  223 (532)
                      ++|++.+.+.+..+...   ...|..++.|+...++.
T Consensus        79 i~gEird~e~~~~~l~~---a~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          79 LVGEMRDLETIRLALTA---AETGHLVMSTLHTNSAA  112 (198)
T ss_pred             EEcCCCCHHHHHHHHHH---HHcCCEEEEEecCCcHH
Confidence            99999877655443222   23455677787766553

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK14737 gmk guanylate kinase; Provisional

Probab=95.93  E-value=0.016  Score=52.47  Aligned_cols=26  Identities=15%  Similarity=0.119  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|.|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            45789999999999999999998764

>PRK06762 hypothetical protein; Provisional

Probab=95.91  E-value=0.0072  Score=53.65  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+|.|.|++|+||||+|+.+.+..
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            689999999999999999998765

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=95.91  E-value=0.0094  Score=57.56  Aligned_cols=24  Identities=33%  Similarity=0.722  Sum_probs=20.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|++.|-||+||||+|..++....
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~~La   25 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSVAFA   25 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHHHHH
Confidence            578889999999999988776544

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=95.86  E-value=0.023  Score=50.28  Aligned_cols=27  Identities=19%  Similarity=0.110  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .-..+.++|++|.||||+.+.+|...+
T Consensus        27 ~Gef~fl~GpSGAGKSTllkLi~~~e~   53 (223)
T COG2884          27 KGEFVFLTGPSGAGKSTLLKLIYGEER   53 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhhc
Confidence            346789999999999999999998755

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=95.86  E-value=0.01  Score=58.12  Aligned_cols=26  Identities=35%  Similarity=0.427  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +++.+.|-||+||||+|.+.+-....
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~   27 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALAR   27 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhh
Confidence            68899999999999999887765443

...

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=95.83  E-value=0.0081  Score=54.44  Aligned_cols=26  Identities=23%  Similarity=0.238  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +.++|+|+|++|+||||+|+.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999998754

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.83  E-value=0.0013  Score=58.49  Aligned_cols=30  Identities=13%  Similarity=0.144  Sum_probs=16.9

Q ss_pred             cccEEeecccccccc------ccCCcceEEeccccc
Q 048213          415 ILEILRLRVNELTRA------GSSQLKHLSVRGLRA  444 (532)
Q Consensus       415 ~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~  444 (532)
                      .++.++-+++.|...      .++.++.|.+.+|..
T Consensus       102 ~IeaVDAsds~I~~eGle~L~~l~~i~~l~l~~ck~  137 (221)
T KOG3864|consen  102 KIEAVDASDSSIMYEGLEHLRDLRSIKSLSLANCKY  137 (221)
T ss_pred             eEEEEecCCchHHHHHHHHHhccchhhhheeccccc
Confidence            356667666665554      344555555555533

>PHA02244 ATPase-like protein

Probab=95.82  E-value=0.043  Score=54.40  Aligned_cols=35  Identities=20%  Similarity=0.188  Sum_probs=25.6

Q ss_pred             HHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          116 NDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       116 ~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+..++..+  .-|.|+|+.|+|||+||++++....
T Consensus       110 ~ri~r~l~~~--~PVLL~GppGtGKTtLA~aLA~~lg  144 (383)
T PHA02244        110 ADIAKIVNAN--IPVFLKGGAGSGKNHIAEQIAEALD  144 (383)
T ss_pred             HHHHHHHhcC--CCEEEECCCCCCHHHHHHHHHHHhC
Confidence            3444444433  3467899999999999999998744

>smart00072 GuKc Guanylate kinase homologues

Probab=95.82  E-value=0.025  Score=51.15  Aligned_cols=25  Identities=20%  Similarity=0.181  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+.+.|+|++|+||+||+..+....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcC
Confidence            3689999999999999999998874

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>PRK03839 putative kinase; Provisional

Probab=95.82  E-value=0.0077  Score=54.30  Aligned_cols=25  Identities=36%  Similarity=0.404  Sum_probs=22.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .|.|.|++|+||||+|+.+++....
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~   26 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGY   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5889999999999999999987643

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.80  E-value=0.021  Score=54.56  Aligned_cols=27  Identities=26%  Similarity=0.253  Sum_probs=25.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      |+|.++||+|.|||+|.+++++...++
T Consensus       178 RliLlhGPPGTGKTSLCKaLaQkLSIR  204 (423)
T KOG0744|consen  178 RLILLHGPPGTGKTSLCKALAQKLSIR  204 (423)
T ss_pred             eEEEEeCCCCCChhHHHHHHHHhheee
Confidence            789999999999999999999987766

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=95.78  E-value=0.012  Score=56.92  Aligned_cols=26  Identities=31%  Similarity=0.577  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|.|-||+||||++..++.....
T Consensus         3 ~iIav~~KGGVGKTT~~~nLA~~la~   28 (270)
T PRK13185          3 LVLAVYGKGGIGKSTTSSNLSAAFAK   28 (270)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68888899999999999888776543

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=95.77  E-value=0.011  Score=57.28  Aligned_cols=25  Identities=36%  Similarity=0.616  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++|+|.|-||+||||+|..++.-..
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~La   27 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAMA   27 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHH
Confidence            6888889999999999998776554

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=95.77  E-value=0.029  Score=46.51  Aligned_cols=46  Identities=17%  Similarity=0.182  Sum_probs=34.8

Q ss_pred             cccccchHHHHHHHHHhc-------CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          106 EAFESRMSTFNDILNALK-------SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|-.-..+.|++++.       ...+-|++.+|+.|+|||-+|+.+++..
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            356676666666666665       3456789999999999999998888763

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=95.75  E-value=0.012  Score=56.81  Aligned_cols=26  Identities=31%  Similarity=0.609  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|.|-||+||||+|..++.-...
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La~   27 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALAE   27 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHHh
Confidence            57888899999999999998776553

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=95.74  E-value=0.13  Score=47.48  Aligned_cols=153  Identities=16%  Similarity=0.197  Sum_probs=81.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHH-----------HHHHHHhccCcEEEEEcCCCCc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRAR-----------SLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~-----------~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      +++-+.++|++|.|||-||++|++...-.       |...+..+..+           .++-.-.+.-.-.|.+|.+++.
T Consensus       180 QPKGvlLygppgtGktLlaraVahht~c~-------firvsgselvqk~igegsrmvrelfvmarehapsiifmdeidsi  252 (404)
T KOG0728|consen  180 QPKGVLLYGPPGTGKTLLARAVAHHTDCT-------FIRVSGSELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSI  252 (404)
T ss_pred             CCcceEEecCCCCchhHHHHHHHhhcceE-------EEEechHHHHHHHhhhhHHHHHHHHHHHHhcCCceEeeeccccc
Confidence            56788999999999999999999875543       33333333322           2222222335678889988753


Q ss_pred             cc------------cc----ccccccC--CCCCCeEEEEeecChHHhh-hcCCC---CceEEccCCCHHHHHHHHHHHhC
Q 048213          195 LD------------FH----AVGIPHG--DDHKGCKVLLTARSLDVLS-RKMDS---QQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       195 ~~------------~~----~l~~~~~--~~~~gs~ilvTtr~~~v~~-~~~~~---~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      ..            ..    .+...+.  ...+.-+||..|...+++. ....+   ..-++..+-+++.-.+++.-+..
T Consensus       253 gs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsr  332 (404)
T KOG0728|consen  253 GSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSR  332 (404)
T ss_pred             ccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhh
Confidence            10            00    0111111  1234567887777666541 12222   23566667676666677665543


Q ss_pred             --CCCCCcchHHHHHHHHHHcCCchHHHHHHHHHH
Q 048213          253 --DYIEGSEFKWVAKDVAKKCAGLPVSIVTVARAL  285 (532)
Q Consensus       253 --~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  285 (532)
                        .....-++..+++++....|.--.++-+-|+..
T Consensus       333 kmnl~rgi~l~kiaekm~gasgaevk~vcteagm~  367 (404)
T KOG0728|consen  333 KMNLTRGINLRKIAEKMPGASGAEVKGVCTEAGMY  367 (404)
T ss_pred             hhchhcccCHHHHHHhCCCCccchhhhhhhhhhHH
Confidence              222233445555554433332233343444433

>PF13245 AAA_19: Part of AAA domain

Probab=95.73  E-value=0.043  Score=41.46  Aligned_cols=53  Identities=21%  Similarity=0.174  Sum_probs=29.9

Q ss_pred             CceEEEEEccCCCchHHHHH-HHHHHhhccCCCCEEEEeccCchhhHHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAK-EVAIKAENEKLFDRVIFVEESESGRARSLCNRL  178 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~-~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l  178 (532)
                      +.+++.|.|++|.|||+++. .+..-...+......+..........+.+.+++
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl   62 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL   62 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence            34678889999999995554 444433211112333333334444555666665

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=95.68  E-value=0.015  Score=56.99  Aligned_cols=27  Identities=26%  Similarity=0.500  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++|+|.|-||+||||++..+.....
T Consensus         3 ~~~~iai~~KGGvGKTt~~~nLa~~la   29 (295)
T PRK13234          3 KLRQIAFYGKGGIGKSTTSQNTLAALV   29 (295)
T ss_pred             cceEEEEECCCCccHHHHHHHHHHHHH
Confidence            357888899999999999988766544

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=95.68  E-value=0.011  Score=54.02  Aligned_cols=28  Identities=39%  Similarity=0.420  Sum_probs=24.6

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .+.+|||.|.+|+||||+|+.++.....
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~   34 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGV   34 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCc
Confidence            4579999999999999999999987653

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.68  E-value=0.018  Score=49.43  Aligned_cols=27  Identities=15%  Similarity=0.166  Sum_probs=23.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ++|.|+|..|+|||||++.+.+....+
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~   27 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRR   27 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHc
Confidence            489999999999999999999887644

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=95.67  E-value=0.021  Score=56.68  Aligned_cols=46  Identities=17%  Similarity=0.229  Sum_probs=36.4

Q ss_pred             cccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          106 EAFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|+...+.++++.+.  ...-.-|.|+|..|+||+++|+.++...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s   53 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhC
Confidence            357898888888887776  2333567899999999999999998643

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=95.66  E-value=0.024  Score=48.55  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++|+|+.|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999998864

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.66  E-value=0.049  Score=52.24  Aligned_cols=105  Identities=18%  Similarity=0.112  Sum_probs=61.8

Q ss_pred             HHHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHhhccC---CCCE-EE---------------------Ee---ccC
Q 048213          116 NDILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK---LFDR-VI---------------------FV---EES  166 (532)
Q Consensus       116 ~~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~---~F~~-~~---------------------~~---~~~  166 (532)
                      +.++..+. .+....++|+|+.|+|||||.+.++.......   .|+. .+                     ..   ..+
T Consensus        99 ~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~  178 (270)
T TIGR02858        99 DKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILSTGISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLD  178 (270)
T ss_pred             HHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccCCCCceEEECCEEeecchhHHHHHHHhcccccccccccccccc
Confidence            34444444 44567899999999999999999987543210   0111 11                     00   000


Q ss_pred             chhhHHHHHHHHhccCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHHh
Q 048213          167 ESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVL  223 (532)
Q Consensus       167 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~  223 (532)
                      .-.....+...+..-..-++++|.+-..+.+..+...+   ..|..+|+||....+.
T Consensus       179 ~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~---~~G~~vI~ttH~~~~~  232 (270)
T TIGR02858       179 GCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEAL---HAGVSIIATAHGRDVE  232 (270)
T ss_pred             cchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHH---hCCCEEEEEechhHHH
Confidence            00112223333332356789999988776666654443   2477899999976663

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.61  E-value=0.0021  Score=59.92  Aligned_cols=95  Identities=17%  Similarity=0.091  Sum_probs=74.7

Q ss_pred             HHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc-------ccCCcceEEe
Q 048213          367 VARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-------GSSQLKHLSV  439 (532)
Q Consensus       367 ~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~l  439 (532)
                      ++.+-+-|++-++.+..+.- +..|+.|..|.|+-|++..+..+..|++|+.|.|..|.|..+       ++++||.|-|
T Consensus        17 dl~~vkKLNcwg~~L~DIsi-c~kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   17 DLENVKKLNCWGCGLDDISI-CEKMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             HHHHhhhhcccCCCccHHHH-HHhcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhh
Confidence            44555667777787766532 467899999999999999999999999999999999988877       8899999999


Q ss_pred             ccccccCCCCCc-----ccccCCCCCEEe
Q 048213          440 RGLRASAPNPTE-----SEVALPKLETVC  463 (532)
Q Consensus       440 ~~~~~~~~~~~~-----~~~~l~~L~~L~  463 (532)
                      ..|.. ....+.     .+.-||+|+.||
T Consensus        96 ~ENPC-c~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   96 DENPC-CGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             ccCCc-ccccchhHHHHHHHHcccchhcc
Confidence            98876 333332     335578888775

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=95.57  E-value=0.46  Score=47.17  Aligned_cols=43  Identities=16%  Similarity=0.254  Sum_probs=33.2

Q ss_pred             hHHHHHHHHHhcC---CCceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          112 MSTFNDILNALKS---PDVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       112 ~~~~~~i~~~l~~---~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      +...+.|.+.+.+   ....+|+|.|.=|+|||++.+.+.+.....
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            3345556666653   567899999999999999999998876654

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=95.57  E-value=0.031  Score=49.04  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=20.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|+++|.+|+|||||+..+.+..
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999998654

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=95.57  E-value=0.016  Score=56.04  Aligned_cols=27  Identities=19%  Similarity=0.174  Sum_probs=22.5

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .....+|+|.|..|+||||+|+.+..-
T Consensus        59 ~~~p~IIGIaG~~GSGKSTlar~L~~l   85 (290)
T TIGR00554        59 AKIPYIISIAGSVAVGKSTTARILQAL   85 (290)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            345689999999999999999877543

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=95.55  E-value=0.05  Score=48.61  Aligned_cols=35  Identities=14%  Similarity=0.098  Sum_probs=25.6

Q ss_pred             HHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          116 NDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       116 ~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..+.+++.......|+++|.+|+|||||...+...
T Consensus         4 ~~~~~~~~~~~~~kv~~~G~~~~GKTsl~~~l~~~   38 (174)
T cd04153           4 SSLWSLFFPRKEYKVIIVGLDNAGKTTILYQFLLG   38 (174)
T ss_pred             hHHHHHhcCCCccEEEEECCCCCCHHHHHHHHccC
Confidence            34455554334567889999999999999998653

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.55  E-value=0.039  Score=53.53  Aligned_cols=36  Identities=19%  Similarity=0.194  Sum_probs=27.5

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhcc-CCCCEEE
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENE-KLFDRVI  161 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~  161 (532)
                      ..++++++|++|+||||++..++.....+ +.+...+
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~l  229 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVAL  229 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEE
Confidence            35699999999999999999988766544 2355444

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.54  E-value=0.037  Score=55.04  Aligned_cols=40  Identities=10%  Similarity=-0.056  Sum_probs=30.6

Q ss_pred             HHHHHHHHhcC-CCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          114 TFNDILNALKS-PDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       114 ~~~~i~~~l~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...++++.+.. +.-..+.|+|..|+|||||++.+++....
T Consensus       119 ~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~  159 (380)
T PRK12608        119 LSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAA  159 (380)
T ss_pred             hhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHh
Confidence            44567777762 44467799999999999999998886543

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.51  E-value=0.012  Score=50.64  Aligned_cols=26  Identities=35%  Similarity=0.391  Sum_probs=23.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      +|.|.|++|+||||+|+.++++...+
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~   27 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK   27 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc
Confidence            68999999999999999999987644

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=95.50  E-value=0.0075  Score=59.49  Aligned_cols=133  Identities=22%  Similarity=0.291  Sum_probs=74.2

Q ss_pred             cccccEEEeccccc-cC--c-ccccccccccEEeecccc-cccc-------ccCCcceEEeccccccCCCC--CcccccC
Q 048213          391 LTNLQTLCLYYCKL-QD--T-SVLGELKILEILRLRVNE-LTRA-------GSSQLKHLSVRGLRASAPNP--TESEVAL  456 (532)
Q Consensus       391 l~~L~~L~l~~~~l-~~--~-~~i~~l~~L~~L~l~~~~-l~~~-------~l~~Lr~L~l~~~~~~~~~~--~~~~~~l  456 (532)
                      +..|++|+.++|.- .+  + .-..+..+|++|.+++|+ ++..       .++.|+.|++..+.. +...  -..-.+.
T Consensus       293 c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~-~~d~tL~sls~~C  371 (483)
T KOG4341|consen  293 CHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGL-ITDGTLASLSRNC  371 (483)
T ss_pred             hhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccce-ehhhhHhhhccCC
Confidence            45566666666532 22  1 123455677777777764 2222       566777777777744 2211  1222456


Q ss_pred             CCCCEEecCCc-ccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCccc
Q 048213          457 PKLETVCLSSI-NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLK  525 (532)
Q Consensus       457 ~~L~~L~L~~~-~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~  525 (532)
                      +.|+.|.|+.| .|+....-.+....+.+..|..|.|++|+.+.+- ........++|+.+++-+|..+.
T Consensus       372 ~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~-~Le~l~~c~~Leri~l~~~q~vt  440 (483)
T KOG4341|consen  372 PRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDA-TLEHLSICRNLERIELIDCQDVT  440 (483)
T ss_pred             chhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHH-HHHHHhhCcccceeeeechhhhh
Confidence            77777777776 3332211112222255677788888888776654 33333567777777777775443

>TIGR02012 tigrfam_recA protein RecA

Probab=95.50  E-value=0.044  Score=53.71  Aligned_cols=26  Identities=31%  Similarity=0.318  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -+++-|+|++|+||||||.+++....
T Consensus        55 G~iteI~G~~GsGKTtLaL~~~~~~~   80 (321)
T TIGR02012        55 GRIIEIYGPESSGKTTLALHAIAEAQ   80 (321)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            47899999999999999998776544

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=95.50  E-value=0.028  Score=54.09  Aligned_cols=75  Identities=16%  Similarity=0.216  Sum_probs=44.0

Q ss_pred             HHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHh--------------cc
Q 048213          116 NDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLK--------------KE  181 (532)
Q Consensus       116 ~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~--------------~~  181 (532)
                      ..+++.+...+ +-+.++|+.|+|||++++.......... |-.... .-+.......+++.+.              .+
T Consensus        23 ~~ll~~l~~~~-~pvLl~G~~GtGKT~li~~~l~~l~~~~-~~~~~~-~~s~~Tts~~~q~~ie~~l~k~~~~~~gP~~~   99 (272)
T PF12775_consen   23 SYLLDLLLSNG-RPVLLVGPSGTGKTSLIQNFLSSLDSDK-YLVITI-NFSAQTTSNQLQKIIESKLEKRRGRVYGPPGG   99 (272)
T ss_dssp             HHHHHHHHHCT-EEEEEESSTTSSHHHHHHHHHHCSTTCC-EEEEEE-ES-TTHHHHHHHHCCCTTECECTTEEEEEESS
T ss_pred             HHHHHHHHHcC-CcEEEECCCCCchhHHHHhhhccCCccc-cceeEe-eccCCCCHHHHHHHHhhcEEcCCCCCCCCCCC
Confidence            34555555454 5668999999999999999886533222 212111 1122223334443332              26


Q ss_pred             CcEEEEEcCCCC
Q 048213          182 KMILVILDNIWE  193 (532)
Q Consensus       182 k~~LlVlDdv~~  193 (532)
                      |+.++.+||+.-
T Consensus       100 k~lv~fiDDlN~  111 (272)
T PF12775_consen  100 KKLVLFIDDLNM  111 (272)
T ss_dssp             SEEEEEEETTT-
T ss_pred             cEEEEEecccCC
Confidence            889999999964

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=95.50  E-value=0.032  Score=51.84  Aligned_cols=26  Identities=23%  Similarity=0.207  Sum_probs=22.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .-|+|+|++|+|||||+..+..+...
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~   31 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFP   31 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCc
Confidence            46889999999999999999876543

>PRK00625 shikimate kinase; Provisional

Probab=95.48  E-value=0.012  Score=52.48  Aligned_cols=24  Identities=21%  Similarity=0.177  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|.++||+|+||||+++.+.+...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999988754

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=95.47  E-value=0.01  Score=54.44  Aligned_cols=23  Identities=39%  Similarity=0.501  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +|+|.|+.|+||||+|+.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999987754

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=95.47  E-value=0.014  Score=52.16  Aligned_cols=26  Identities=19%  Similarity=0.162  Sum_probs=23.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...|.++|++|+||||+|+.++....
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999998764

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=95.47  E-value=0.039  Score=48.56  Aligned_cols=22  Identities=18%  Similarity=0.126  Sum_probs=19.7

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |+++|.+|+|||||+..+....
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999988754

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=95.47  E-value=0.034  Score=52.36  Aligned_cols=88  Identities=23%  Similarity=0.223  Sum_probs=57.9

Q ss_pred             ccccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEE------e
Q 048213          103 KDYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF------V  163 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~------~  163 (532)
                      ..+..+-|-+..+++|.+...             -..++-|.++|.+|.|||-||++|+|.....  |-.++-      .
T Consensus       182 Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSAT--FlRvvGseLiQky  259 (440)
T KOG0726|consen  182 ETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSAT--FLRVVGSELIQKY  259 (440)
T ss_pred             hhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchh--hhhhhhHHHHHHH
Confidence            335567788888888887764             1245778899999999999999999976654  533320      0


Q ss_pred             ccCchhhHHHHHHHHhccCcEEEEEcCCC
Q 048213          164 EESESGRARSLCNRLKKEKMILVILDNIW  192 (532)
Q Consensus       164 ~~~~~~~~~~l~~~l~~~k~~LlVlDdv~  192 (532)
                      ..+...+..++++.-...-.-.+.+|.++
T Consensus       260 lGdGpklvRqlF~vA~e~apSIvFiDEId  288 (440)
T KOG0726|consen  260 LGDGPKLVRELFRVAEEHAPSIVFIDEID  288 (440)
T ss_pred             hccchHHHHHHHHHHHhcCCceEEeehhh
Confidence            11222334445544444456778888876

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=95.46  E-value=0.018  Score=56.31  Aligned_cols=26  Identities=23%  Similarity=0.478  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|+|-||+||||+|..++.-...
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~~La~   26 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSHMMAE   26 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57888999999999999988775543

This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.

>PRK13768 GTPase; Provisional

Probab=95.45  E-value=0.019  Score=54.81  Aligned_cols=25  Identities=28%  Similarity=0.225  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++.|.|+||+||||++..+.....
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~   27 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLE   27 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHH
Confidence            5789999999999999988776543

>PRK04040 adenylate kinase; Provisional

Probab=95.45  E-value=0.014  Score=52.97  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|+|+|++|+||||+++.+....
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998876

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=95.44  E-value=0.018  Score=55.52  Aligned_cols=25  Identities=32%  Similarity=0.707  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +|+|.|-||+||||+|..++.....
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~~la~   26 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSVALAK   26 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHHH
Confidence            6888899999999999988776554

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=95.43  E-value=0.01  Score=55.33  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|+|.|..|+||||+|+.+.....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999987653

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=95.42  E-value=0.021  Score=55.92  Aligned_cols=27  Identities=33%  Similarity=0.433  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .+++.+.|.||+||||+|.+.+-....
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~   28 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAE   28 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHH
Confidence            478999999999999999986554443

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.42  E-value=0.011  Score=53.32  Aligned_cols=24  Identities=17%  Similarity=0.148  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|.|+|++|+||||+|+.++....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            578999999999999999988653

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=95.42  E-value=0.033  Score=55.32  Aligned_cols=45  Identities=18%  Similarity=0.207  Sum_probs=32.9

Q ss_pred             cccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          108 FESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       108 ~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++|+...+.++.+.+.  ...-.-|.|.|..|+||+++|+.+++...
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s~   47 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSK   47 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhcC
Confidence            3566666767666665  23335678999999999999999986543

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=95.41  E-value=0.011  Score=48.10  Aligned_cols=23  Identities=48%  Similarity=0.515  Sum_probs=19.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      |-|+|.+|+|||++|..++.+..
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999887654

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=95.41  E-value=0.067  Score=48.86  Aligned_cols=102  Identities=23%  Similarity=0.204  Sum_probs=62.5

Q ss_pred             HHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhcc-CCCC---EEEEeccCc----------------------hhhH
Q 048213          118 ILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENE-KLFD---RVIFVEESE----------------------SGRA  171 (532)
Q Consensus       118 i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~---~~~~~~~~~----------------------~~~~  171 (532)
                      +++.+-+.+..-..|.|++|+|||||.+.+++-.... +.|.   ..+.+..++                      --..
T Consensus       128 li~~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~  207 (308)
T COG3854         128 LIKDLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKA  207 (308)
T ss_pred             HHHHHHhcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHH
Confidence            5566666777778899999999999999998865533 1232   122111111                      0011


Q ss_pred             HHHHHHHhccCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHH
Q 048213          172 RSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDV  222 (532)
Q Consensus       172 ~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v  222 (532)
                      +-+.....+--.=.+|+|.+-..++..++...+   +.|.+++.|.....+
T Consensus       208 ~gmmmaIrsm~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaHG~~i  255 (308)
T COG3854         208 EGMMMAIRSMSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAHGNGI  255 (308)
T ss_pred             HHHHHHHHhcCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeeccccH
Confidence            222233333345689999999887766665553   568888877765444

>cd04155 Arl3 Arl3 subfamily

Probab=95.40  E-value=0.081  Score=46.98  Aligned_cols=26  Identities=27%  Similarity=0.284  Sum_probs=22.3

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .+...|+|+|.+|+|||||...+...
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcC
Confidence            34466999999999999999999875

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd04159 Arl10_like Arl10-like subfamily

Probab=95.40  E-value=0.034  Score=48.29  Aligned_cols=21  Identities=24%  Similarity=0.227  Sum_probs=19.3

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+|+|..|+|||||...+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            689999999999999999775

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=95.39  E-value=0.15  Score=53.79  Aligned_cols=26  Identities=27%  Similarity=0.211  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-..|+|+|+.|+|||||.+.+....
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~  372 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGEL  372 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhc
Confidence            34679999999999999999996543

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=95.39  E-value=0.013  Score=52.75  Aligned_cols=28  Identities=29%  Similarity=0.222  Sum_probs=24.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ..+|+|-||=|+||||||+.++++...+
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~~~   31 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLGFK   31 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhCCc
Confidence            4789999999999999999999987643

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=95.37  E-value=0.014  Score=52.59  Aligned_cols=25  Identities=16%  Similarity=0.182  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+++|+|+.|+||||+++.+.....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999987643

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.36  E-value=0.43  Score=46.98  Aligned_cols=47  Identities=21%  Similarity=0.147  Sum_probs=34.3

Q ss_pred             eEEccCCCHHHHHHHHHHHhCCCCCC--cchHHHHHHHHHHcCCchHHH
Q 048213          232 DFWVGVLKEDEAWSLFKKMAGDYIEG--SEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       232 ~~~l~~L~~~~~~~Lf~~~~~~~~~~--~~~~~~~~~i~~~c~glPLai  278 (532)
                      .+.+++++.+|+..++..+.-.....  ...+...+++.-..+|+|--+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            78999999999999999877522221  344556777777779999643

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=95.36  E-value=0.028  Score=51.52  Aligned_cols=26  Identities=31%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      .|+|+|-||+||||+|..+......+
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~   27 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSK   27 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhc
Confidence            58999999999999999866655443

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.35  E-value=0.55  Score=45.80  Aligned_cols=160  Identities=13%  Similarity=-0.013  Sum_probs=91.8

Q ss_pred             HHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHh--------hcc-CCCCEEEEeccCc---hhhHHHHHHHHh--
Q 048213          115 FNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKA--------ENE-KLFDRVIFVEESE---SGRARSLCNRLK--  179 (532)
Q Consensus       115 ~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~--------~~~-~~F~~~~~~~~~~---~~~~~~l~~~l~--  179 (532)
                      ++.+.+.+..+. ..+..++|..|.||+++|..+.+..        ... ..++...++....   .+.+..+.+.+.  
T Consensus         5 ~~~l~~~i~~~~l~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir~l~~~~~~~   84 (299)
T PRK07132          5 IKFLDNSATQNKISHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFLSAINKLYFS   84 (299)
T ss_pred             HHHHHHHHHhCCCCeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHHHHHHHhccC
Confidence            344455555544 4566799999999999999998765        111 1234444431111   123344444442  


Q ss_pred             ---ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecC-hHHhhhcCCCCceEEccCCCHHHHHHHHHHHhCC
Q 048213          180 ---KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARS-LDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGD  253 (532)
Q Consensus       180 ---~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~-~~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~  253 (532)
                         ++.+-++|+|++....  ..+.+...+..-..++.+|++|.+ ..+..........+.+.++++++..+.+... + 
T Consensus        85 ~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~~~-~-  162 (299)
T PRK07132         85 SFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLSK-N-  162 (299)
T ss_pred             CcccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHHHc-C-
Confidence               1467788899986553  244444444333455666655544 3443333444568999999999998777653 1 


Q ss_pred             CCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          254 YIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       254 ~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                       .    .++.+..++...+|.--|+..+
T Consensus       163 -~----~~~~a~~~a~~~~~~~~a~~~~  185 (299)
T PRK07132        163 -K----EKEYNWFYAYIFSNFEQAEKYI  185 (299)
T ss_pred             -C----ChhHHHHHHHHcCCHHHHHHHH
Confidence             1    1334566666667643455543

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.34  E-value=0.017  Score=51.81  Aligned_cols=28  Identities=29%  Similarity=0.258  Sum_probs=24.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+|.+.|+.|+||||+|+.+++....
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~   33 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKL   33 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4569999999999999999999987653

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=95.34  E-value=0.0098  Score=32.95  Aligned_cols=18  Identities=33%  Similarity=0.285  Sum_probs=11.5

Q ss_pred             CCCEEecCCccccccccc
Q 048213          458 KLETVCLSSINIERIWQN  475 (532)
Q Consensus       458 ~L~~L~L~~~~l~~lp~~  475 (532)
                      +|++|+|++|+++.+|++
T Consensus         1 ~L~~Ldls~n~l~~ip~~   18 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSS   18 (22)
T ss_dssp             TESEEEETSSEESEEGTT
T ss_pred             CccEEECCCCcCEeCChh
Confidence            356666666666666655

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=95.32  E-value=0.029  Score=59.52  Aligned_cols=46  Identities=24%  Similarity=0.352  Sum_probs=38.8

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -..++|.+..++.+...+......-+.|+|+.|+|||++|+.+++.
T Consensus        64 f~~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~  109 (531)
T TIGR02902        64 FDEIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEE  109 (531)
T ss_pred             HHHeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            3468899999999988777665667789999999999999999864

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>CHL00206 ycf2 Ycf2; Provisional

Probab=95.31  E-value=0.17  Score=59.88  Aligned_cols=29  Identities=14%  Similarity=0.039  Sum_probs=25.2

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+-|.++|++|.|||.||++++.+..+
T Consensus      1628 ~pPKGILLiGPPGTGKTlLAKALA~es~V 1656 (2281)
T CHL00206       1628 SPSRGILVIGSIGTGRSYLVKYLATNSYV 1656 (2281)
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHhcCC
Confidence            45678999999999999999999998654

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=95.31  E-value=0.013  Score=52.84  Aligned_cols=23  Identities=35%  Similarity=0.325  Sum_probs=20.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +|+|.|.+|+||||+|+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998763

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=95.31  E-value=0.021  Score=49.61  Aligned_cols=28  Identities=21%  Similarity=0.200  Sum_probs=23.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ..+|-|.|.+|+||||||+++.+.....
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~   29 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFAR   29 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            3588899999999999999999887654

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.30  E-value=0.051  Score=53.37  Aligned_cols=26  Identities=31%  Similarity=0.318  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -+++-|+|++|+||||||.+++....
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~~   80 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEAQ   80 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            47889999999999999999876543

RecA couples ATP hydrolysis to DNA strand exchange.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=95.30  E-value=0.041  Score=48.42  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~   23 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQG   23 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998764

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.30  E-value=0.055  Score=47.37  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++.|+|.+|+||||++..+.....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~   24 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIA   24 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHH
Confidence            368999999999999999987654

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.28  E-value=0.027  Score=50.41  Aligned_cols=27  Identities=37%  Similarity=0.373  Sum_probs=22.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      +.|.+.|.+|+||||+|++++...+.+
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHh
Confidence            567889999999999999999865543

>TIGR01817 nifA Nif-specific regulatory protein

Probab=95.28  E-value=0.084  Score=56.40  Aligned_cols=49  Identities=10%  Similarity=0.174  Sum_probs=39.0

Q ss_pred             cccccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          104 DYEAFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ....++|....+.++++.+.  ...-..|.|+|..|+|||++|+.+++...
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s~  244 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSP  244 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhCC
Confidence            34578999999988888776  23345677999999999999999987643

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.25  E-value=0.028  Score=54.13  Aligned_cols=28  Identities=29%  Similarity=0.379  Sum_probs=23.7

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+.+++.++|++|+||||++..++....
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~   97 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLK   97 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4468999999999999999998886654

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.25  E-value=0.039  Score=55.19  Aligned_cols=27  Identities=26%  Similarity=0.410  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++|+++|++|+||||++..++....
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~  266 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH  266 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH
Confidence            457999999999999999999887554

>cd04124 RabL2 RabL2 subfamily

Probab=95.25  E-value=0.051  Score=47.82  Aligned_cols=21  Identities=10%  Similarity=0.221  Sum_probs=18.4

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+++|.+|+|||||+..+.+.
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999887654

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=95.25  E-value=0.068  Score=54.95  Aligned_cols=26  Identities=23%  Similarity=0.339  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+++.++|++|+||||++..++....
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~  246 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYA  246 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            36899999999999999888876654

>PRK06217 hypothetical protein; Validated

Probab=95.23  E-value=0.015  Score=52.52  Aligned_cols=25  Identities=24%  Similarity=0.246  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..|.|.|++|+||||+|+.+.....
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3589999999999999999998754

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.22  E-value=0.065  Score=53.03  Aligned_cols=28  Identities=25%  Similarity=0.198  Sum_probs=24.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ...+.++|..|+|||.||.++++....+
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~  210 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDR  210 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            3789999999999999999999976544

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=95.21  E-value=0.016  Score=49.67  Aligned_cols=22  Identities=36%  Similarity=0.326  Sum_probs=20.4

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.++|++|+|||+||+.+++..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999999876

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=95.20  E-value=0.048  Score=51.95  Aligned_cols=91  Identities=22%  Similarity=0.257  Sum_probs=57.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---EeccCchhhHHHH---HHHHhccCcEEEEEcCCCCc-----
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEESESGRARSL---CNRLKKEKMILVILDNIWEN-----  194 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~~~~~~~~~l---~~~l~~~k~~LlVlDdv~~~-----  194 (532)
                      .+..++|||++|.|||-+|+.|+....+.  |=...   ....-..+.+..|   .++..+-..|.|.+||++..     
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~mg~n--fl~v~ss~lv~kyiGEsaRlIRemf~yA~~~~pciifmdeiDAigGRr~  242 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATMGVN--FLKVVSSALVDKYIGESARLIRDMFRYAREVIPCIIFMDEIDAIGGRRF  242 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhcCCc--eEEeeHhhhhhhhcccHHHHHHHHHHHHhhhCceEEeehhhhhhccEEe
Confidence            35789999999999999999999987664  43222   1111122223333   33444446699999999732     


Q ss_pred             ------------------ccccccccccCCCCCCeEEEEeecChHHh
Q 048213          195 ------------------LDFHAVGIPHGDDHKGCKVLLTARSLDVL  223 (532)
Q Consensus       195 ------------------~~~~~l~~~~~~~~~gs~ilvTtr~~~v~  223 (532)
                                        ++|+.+     +.....++|+||...+.+
T Consensus       243 se~Ts~dreiqrTLMeLlnqmdgf-----d~l~rVk~ImatNrpdtL  284 (388)
T KOG0651|consen  243 SEGTSSDREIQRTLMELLNQMDGF-----DTLHRVKTIMATNRPDTL  284 (388)
T ss_pred             ccccchhHHHHHHHHHHHHhhccc-----hhcccccEEEecCCcccc
Confidence                              123222     122456889999887764

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.20  E-value=0.02  Score=51.27  Aligned_cols=27  Identities=30%  Similarity=0.245  Sum_probs=23.8

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+|+|+|++|+||||+|+.++....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~   29 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLR   29 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            456999999999999999999998764

>cd04120 Rab12 Rab12 subfamily

Probab=95.18  E-value=0.052  Score=49.86  Aligned_cols=21  Identities=24%  Similarity=0.291  Sum_probs=18.7

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||+|+..+..+
T Consensus         3 vvvlG~~gVGKTSli~r~~~~   23 (202)
T cd04120           3 VIIIGSRGVGKTSLMRRFTDD   23 (202)
T ss_pred             EEEECcCCCCHHHHHHHHHhC
Confidence            679999999999999988764

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=95.17  E-value=0.036  Score=49.00  Aligned_cols=21  Identities=19%  Similarity=0.360  Sum_probs=19.0

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+|+|.+|+|||||...+.+.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            689999999999999998865

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd00154 Rab Rab family

Probab=95.16  E-value=0.065  Score=46.38  Aligned_cols=22  Identities=18%  Similarity=0.172  Sum_probs=19.7

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.++|.+|+|||||...+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            7899999999999999987754

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.16  E-value=0.071  Score=48.80  Aligned_cols=27  Identities=22%  Similarity=0.222  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .-.+.+|.||.|+||||||..+.-++.
T Consensus        29 ~GEvhaiMGPNGsGKSTLa~~i~G~p~   55 (251)
T COG0396          29 EGEVHAIMGPNGSGKSTLAYTIMGHPK   55 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            346889999999999999999988764

>PLN02165 adenylate isopentenyltransferase

Probab=95.16  E-value=0.024  Score=55.54  Aligned_cols=30  Identities=17%  Similarity=0.176  Sum_probs=25.2

Q ss_pred             hcCCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          122 LKSPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       122 l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +......+++|+|+.|+||||||..++...
T Consensus        38 ~~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         38 EQNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             ccCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            345556799999999999999999998764

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=95.15  E-value=0.018  Score=51.59  Aligned_cols=24  Identities=13%  Similarity=0.144  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++|.+.|++|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            689999999999999999998764

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=95.15  E-value=0.014  Score=30.08  Aligned_cols=16  Identities=25%  Similarity=0.235  Sum_probs=6.6

Q ss_pred             CCCEEecCCccccccc
Q 048213          458 KLETVCLSSINIERIW  473 (532)
Q Consensus       458 ~L~~L~L~~~~l~~lp  473 (532)
                      +|+.|+|++|.++.+|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4555555555555443

...

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=95.14  E-value=0.057  Score=55.14  Aligned_cols=46  Identities=15%  Similarity=0.012  Sum_probs=34.1

Q ss_pred             ccccchHHHHHHHHHhc-------CC---------CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          107 AFESRMSTFNDILNALK-------SP---------DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~-------~~---------~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++|.+..++.+...+.       ..         .-..+.++|++|+|||++|+.++....
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~  133 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD  133 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Confidence            47888888877754441       10         125689999999999999999987653

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=95.14  E-value=0.04  Score=46.53  Aligned_cols=27  Identities=19%  Similarity=0.007  Sum_probs=23.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      -.+|.+.|.-|+||||+++.+++....
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~lg~   48 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQGLGI   48 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            368999999999999999999987543

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>smart00175 RAB Rab subfamily of small GTPases

Probab=95.13  E-value=0.062  Score=47.15  Aligned_cols=22  Identities=14%  Similarity=0.179  Sum_probs=19.6

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |+++|.+|+|||||+..+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            7899999999999999998653

Rab GTPases are implicated in vesicle trafficking.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=95.13  E-value=0.023  Score=50.41  Aligned_cols=28  Identities=25%  Similarity=0.190  Sum_probs=24.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+++|+|..|+|||||+..+......
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhh
Confidence            4579999999999999999999977654

>PRK09354 recA recombinase A; Provisional

Probab=95.12  E-value=0.068  Score=52.94  Aligned_cols=26  Identities=31%  Similarity=0.305  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -+++-|+|++|+||||||.+++....
T Consensus        60 G~IteI~G~~GsGKTtLal~~~~~~~   85 (349)
T PRK09354         60 GRIVEIYGPESSGKTTLALHAIAEAQ   85 (349)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            47889999999999999999876544

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=95.12  E-value=0.054  Score=52.11  Aligned_cols=36  Identities=17%  Similarity=0.145  Sum_probs=29.3

Q ss_pred             HHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          118 ILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       118 i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..+++.+.+..++.|.|.+|+|||||...+.+....
T Consensus        95 ~r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l~~  130 (290)
T PRK10463         95 NRARFAARKQLVLNLVSSPGSGKTTLLTETLMRLKD  130 (290)
T ss_pred             HHHHHHhcCCeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            344444678899999999999999999999887543

>PRK13947 shikimate kinase; Provisional

Probab=95.12  E-value=0.018  Score=51.38  Aligned_cols=25  Identities=32%  Similarity=0.279  Sum_probs=22.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .|.|+|++|+||||+|+.+++....
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~   27 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSF   27 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4889999999999999999987543

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.09  E-value=0.02  Score=51.36  Aligned_cols=24  Identities=38%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|.|.|++|+||||+|+.+.+...
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~   25 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLG   25 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998843

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=95.08  E-value=0.044  Score=51.35  Aligned_cols=41  Identities=20%  Similarity=0.293  Sum_probs=30.5

Q ss_pred             HHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          114 TFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       114 ~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ...++++.+.  .++..+|+|.|++|+|||||..++......+
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~   56 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRER   56 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhc
Confidence            4555666665  4578899999999999999999988776543

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=95.07  E-value=0.018  Score=49.78  Aligned_cols=24  Identities=38%  Similarity=0.376  Sum_probs=21.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|.|.|+.|+||||+|+.+.....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999998653

>cd04113 Rab4 Rab4 subfamily

Probab=95.07  E-value=0.068  Score=46.86  Aligned_cols=22  Identities=18%  Similarity=0.169  Sum_probs=19.4

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.|+|.+|+|||||+..+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999999987643

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd04177 RSR1 RSR1 subgroup

Probab=95.06  E-value=0.047  Score=48.40  Aligned_cols=23  Identities=17%  Similarity=0.367  Sum_probs=19.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|+++|.+|+|||||...+.+..
T Consensus         3 ki~liG~~~~GKTsli~~~~~~~   25 (168)
T cd04177           3 KIVVLGAGGVGKSALTVQFVQNV   25 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999987543

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=95.05  E-value=0.055  Score=47.97  Aligned_cols=21  Identities=24%  Similarity=0.167  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+++|.+|+|||||+..+.+.
T Consensus         2 i~~~G~~~~GKTsl~~~l~~~   22 (167)
T cd04161           2 LLTVGLDNAGKTTLVSALQGE   22 (167)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999988764

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=95.05  E-value=0.054  Score=51.06  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.++.|+|.+|+|||++|.+++-.
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~   42 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVT   42 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999999754

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.05  E-value=0.059  Score=52.93  Aligned_cols=67  Identities=19%  Similarity=0.092  Sum_probs=40.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec-----cCchhhHHHHHHHHhccCcEEEEEcCCCC
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE-----ESESGRARSLCNRLKKEKMILVILDNIWE  193 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~-----~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  193 (532)
                      ..+-|..+|++|.|||-||++|+...... .|.......     ...+..+..+++.-.---.-.|.+|.+++
T Consensus       244 PWkgvLm~GPPGTGKTlLAKAvATEc~tT-FFNVSsstltSKwRGeSEKlvRlLFemARfyAPStIFiDEIDs  315 (491)
T KOG0738|consen  244 PWKGVLMVGPPGTGKTLLAKAVATECGTT-FFNVSSSTLTSKWRGESEKLVRLLFEMARFYAPSTIFIDEIDS  315 (491)
T ss_pred             ccceeeeeCCCCCcHHHHHHHHHHhhcCe-EEEechhhhhhhhccchHHHHHHHHHHHHHhCCceeehhhHHH
Confidence            56789999999999999999999987644 232222000     01112233333332222345788888864

>TIGR03263 guanyl_kin guanylate kinase

Probab=95.04  E-value=0.017  Score=51.92  Aligned_cols=23  Identities=26%  Similarity=0.320  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ++++|+|+.|+||||||+.++..
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            57999999999999999999884

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=95.04  E-value=0.017  Score=51.93  Aligned_cols=24  Identities=38%  Similarity=0.448  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|+|.|.+|+||||||..+.....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~   24 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLR   24 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999987654

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=95.03  E-value=0.018  Score=50.13  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=20.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++.+.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999998764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=95.03  E-value=0.049  Score=51.71  Aligned_cols=89  Identities=19%  Similarity=0.149  Sum_probs=56.7

Q ss_pred             cccccchHHHHHHHHHhc-------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE--------EeccCc---
Q 048213          106 EAFESRMSTFNDILNALK-------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI--------FVEESE---  167 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~--------~~~~~~---  167 (532)
                      ..++|-.-..+.|+..+.       ..++-+++.+|..|.||.-+|+.+++.......=...+        |...+.   
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~  161 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIED  161 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHH
Confidence            346676666677777765       24567999999999999999999988754321111111        222221   


Q ss_pred             --hhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          168 --SGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       168 --~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                        .++...++..++.-+|-|+|+|+++..
T Consensus       162 Yk~eL~~~v~~~v~~C~rslFIFDE~DKm  190 (344)
T KOG2170|consen  162 YKEELKNRVRGTVQACQRSLFIFDEVDKL  190 (344)
T ss_pred             HHHHHHHHHHHHHHhcCCceEEechhhhc
Confidence              123334444444568999999999865

>cd00876 Ras Ras family

Probab=95.02  E-value=0.059  Score=46.94  Aligned_cols=21  Identities=19%  Similarity=0.362  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+|+|++|+|||||...+...
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            689999999999999998754

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=95.02  E-value=0.13  Score=46.39  Aligned_cols=36  Identities=25%  Similarity=0.240  Sum_probs=27.0

Q ss_pred             HHHHHHHhcC-CCceEEEEEccCCCchHHHHHHHHHH
Q 048213          115 FNDILNALKS-PDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       115 ~~~i~~~l~~-~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..++..++.. .....|+++|.+|+|||||...+...
T Consensus         4 ~~~~~~~~~~~~~~~~i~ivG~~~~GKTsli~~l~~~   40 (184)
T smart00178        4 FYDILASLGLWNKHAKILFLGLDNAGKTTLLHMLKND   40 (184)
T ss_pred             HHHHHHHhccccccCEEEEECCCCCCHHHHHHHHhcC
Confidence            4456665532 44467889999999999999998764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>PRK14527 adenylate kinase; Provisional

Probab=94.99  E-value=0.025  Score=51.54  Aligned_cols=28  Identities=21%  Similarity=0.197  Sum_probs=24.0

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ....+|.|+|++|+||||+|+.+++...
T Consensus         4 ~~~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          4 TKNKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3457899999999999999999987654

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=94.99  E-value=0.017  Score=48.04  Aligned_cols=28  Identities=36%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhccCCCCE
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAENEKLFDR  159 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~~~~F~~  159 (532)
                      |.|+|.+|+||||+|+.++......  |..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~--f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLS--FKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT----EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCc--eeE
Confidence            5789999999999999999875543  643

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>cd04140 ARHI_like ARHI subfamily

Probab=94.98  E-value=0.058  Score=47.65  Aligned_cols=22  Identities=18%  Similarity=0.388  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .|+++|.+|+|||||...+...
T Consensus         3 kv~~vG~~~vGKTsli~~~~~~   24 (165)
T cd04140           3 RVVVFGAGGVGKSSLVLRFVKG   24 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988764

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>PRK14530 adenylate kinase; Provisional

Probab=94.96  E-value=0.022  Score=52.97  Aligned_cols=25  Identities=20%  Similarity=0.186  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.|.|+|++|+||||+|+.++....
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~   28 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFG   28 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999987654

>PRK13949 shikimate kinase; Provisional

Probab=94.96  E-value=0.023  Score=50.59  Aligned_cols=25  Identities=28%  Similarity=0.210  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.|.|+|+.|+||||+++.+++...
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3589999999999999999998764

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=94.95  E-value=0.03  Score=54.62  Aligned_cols=24  Identities=38%  Similarity=0.697  Sum_probs=20.5

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhc
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|.|-||+||||+|..++.....
T Consensus         3 ia~~gKGGVGKTTta~nLA~~La~   26 (290)
T CHL00072          3 LAVYGKGGIGKSTTSCNISIALAR   26 (290)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHH
Confidence            789999999999999988776543

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=94.93  E-value=0.02  Score=52.72  Aligned_cols=27  Identities=33%  Similarity=0.310  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .-.+++|+|.+|+|||||++.++--.+
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~~   58 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLEK   58 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcccC
Confidence            346899999999999999999986443

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=94.93  E-value=0.065  Score=47.29  Aligned_cols=22  Identities=23%  Similarity=0.172  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.|+|.+|+|||||...+.+.
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~   25 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADD   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998764

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.93  E-value=0.039  Score=54.39  Aligned_cols=28  Identities=25%  Similarity=0.316  Sum_probs=24.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +..+++++|++|+||||++..++.....
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~  140 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKA  140 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4689999999999999999998876553

>cd01868 Rab11_like Rab11-like

Probab=94.92  E-value=0.066  Score=47.16  Aligned_cols=22  Identities=14%  Similarity=0.217  Sum_probs=19.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|.+|+|||||..++...
T Consensus         5 ki~vvG~~~~GKSsli~~l~~~   26 (165)
T cd01868           5 KIVLIGDSGVGKSNLLSRFTRN   26 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999999754

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>cd01864 Rab19 Rab19 subfamily

Probab=94.91  E-value=0.07  Score=47.03  Aligned_cols=23  Identities=13%  Similarity=0.069  Sum_probs=19.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-|+|+|.+|+|||||+..+...
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~~   26 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKSG   26 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            46889999999999999988653

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=94.88  E-value=0.072  Score=46.53  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=19.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|+++|.+|+|||||+..+.+..
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~   25 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNH   25 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37889999999999999987643

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=94.88  E-value=0.13  Score=51.54  Aligned_cols=28  Identities=25%  Similarity=0.278  Sum_probs=23.8

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .+.||-.+|.-|+||||.|-.+++..+.
T Consensus        99 ~P~vImmvGLQGsGKTTt~~KLA~~lkk  126 (451)
T COG0541          99 PPTVILMVGLQGSGKTTTAGKLAKYLKK  126 (451)
T ss_pred             CCeEEEEEeccCCChHhHHHHHHHHHHH
Confidence            4688999999999999999888776554

>cd01862 Rab7 Rab7 subfamily

Probab=94.88  E-value=0.065  Score=47.47  Aligned_cols=22  Identities=27%  Similarity=0.285  Sum_probs=19.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~   23 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNK   23 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999998765

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=94.85  E-value=0.075  Score=46.47  Aligned_cols=22  Identities=14%  Similarity=0.152  Sum_probs=19.3

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.|+|.+|+|||+|+..+....
T Consensus         2 i~i~G~~~~GKTsl~~~~~~~~   23 (160)
T cd04156           2 VLLLGLDSAGKSTLLYKLKHAE   23 (160)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987653

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=94.84  E-value=0.059  Score=59.46  Aligned_cols=47  Identities=15%  Similarity=0.173  Sum_probs=37.1

Q ss_pred             cccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          106 EAFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++|+...+.++++.+.  ...-..|.|.|..|+|||++|+.+++...
T Consensus       376 ~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~  424 (686)
T PRK15429        376 GEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSG  424 (686)
T ss_pred             cceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcC
Confidence            368899888888876665  23345788999999999999999987543

>PRK00300 gmk guanylate kinase; Provisional

Probab=94.84  E-value=0.025  Score=52.06  Aligned_cols=26  Identities=19%  Similarity=0.188  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...+++|+|+.|+||||||+.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34789999999999999999998864

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=94.83  E-value=0.031  Score=51.64  Aligned_cols=32  Identities=19%  Similarity=0.170  Sum_probs=27.3

Q ss_pred             HhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          121 ALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       121 ~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+..+++++|+++|..|+|||||..++.+...
T Consensus        16 ~~~~~~~~~i~~~G~~gsGKTTli~~l~~~~~   47 (207)
T TIGR00073        16 RLDKHGLVVLNFMSSPGSGKTTLIEKLIDNLK   47 (207)
T ss_pred             HhhhcCcEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34467899999999999999999999987643

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.83  E-value=0.074  Score=53.84  Aligned_cols=25  Identities=28%  Similarity=0.226  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++.++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998754

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=94.78  E-value=0.081  Score=47.08  Aligned_cols=22  Identities=14%  Similarity=0.031  Sum_probs=19.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.++|.+|+|||+|+..+..+
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~   23 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKD   23 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3679999999999999998875

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=94.77  E-value=0.07  Score=56.54  Aligned_cols=48  Identities=10%  Similarity=0.140  Sum_probs=38.7

Q ss_pred             ccccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          105 YEAFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...++|+...+.++.+.+.  ...-..|.|+|..|+|||++|+.+++...
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~  235 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASP  235 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC
Confidence            4568899888888888776  33446788999999999999999988643

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=94.76  E-value=0.048  Score=53.51  Aligned_cols=48  Identities=21%  Similarity=0.212  Sum_probs=41.3

Q ss_pred             cccccchHHHHHHHHHhc------CCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          106 EAFESRMSTFNDILNALK------SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..|+|.++.+++|++.+.      +..-+++.++|+.|.||||||..+-+-.+.
T Consensus        61 ~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~  114 (358)
T PF08298_consen   61 DEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEE  114 (358)
T ss_pred             ccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhhe
Confidence            479999999999999887      345689999999999999999998776543

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=94.76  E-value=0.03  Score=51.36  Aligned_cols=28  Identities=21%  Similarity=0.154  Sum_probs=24.5

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .....+|+|+|++|+||||+|+.+....
T Consensus        21 ~~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         21 GHKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3556899999999999999999998865

>PLN02348 phosphoribulokinase

Probab=94.76  E-value=0.059  Score=53.92  Aligned_cols=37  Identities=16%  Similarity=0.213  Sum_probs=28.2

Q ss_pred             HHHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          116 NDILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       116 ~~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+..... .+...+|+|.|.+|+||||+|+.+.+...
T Consensus        37 ~~~~~~~~~~~~p~IIGIaG~SGSGKSTfA~~L~~~Lg   74 (395)
T PLN02348         37 SSVVVALAADDGTVVIGLAADSGCGKSTFMRRLTSVFG   74 (395)
T ss_pred             HHHHHhhccCCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34444333 35678999999999999999999988653

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=94.75  E-value=0.024  Score=51.43  Aligned_cols=24  Identities=13%  Similarity=0.227  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+++|+|+.|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997754

>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family

Probab=94.75  E-value=0.044  Score=51.43  Aligned_cols=26  Identities=35%  Similarity=0.609  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +.|+|+|-|||||||.+..+..-...
T Consensus         1 r~IAiYGKGGIGKST~~~Nlsaala~   26 (273)
T PF00142_consen    1 RKIAIYGKGGIGKSTTASNLSAALAE   26 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEcCCCcccChhhhHHHHHHHh
Confidence            46899999999999999888765444

Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=94.75  E-value=0.039  Score=51.49  Aligned_cols=31  Identities=23%  Similarity=0.235  Sum_probs=25.7

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCC
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKL  156 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~  156 (532)
                      ....|.++||+|+||||..+.++.+...++.
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~   48 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKT   48 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccC
Confidence            4567889999999999999999987766543

>cd04136 Rap_like Rap-like subfamily

Probab=94.73  E-value=0.064  Score=47.04  Aligned_cols=22  Identities=18%  Similarity=0.327  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|.+|+|||||+..+...
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999887754

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=94.72  E-value=0.027  Score=49.09  Aligned_cols=23  Identities=30%  Similarity=0.296  Sum_probs=20.6

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      |.|+|++|+||||+|+.+.....
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999987653

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=94.72  E-value=0.1  Score=45.98  Aligned_cols=21  Identities=24%  Similarity=0.229  Sum_probs=18.5

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+++|..|+|||||...+...
T Consensus         2 i~~vG~~~~GKstLi~~l~~~   22 (167)
T cd04160           2 VLILGLDNAGKTTFLEQLKTL   22 (167)
T ss_pred             EEEEecCCCCHHHHHHHHhhh
Confidence            689999999999999988653

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>PRK13975 thymidylate kinase; Provisional

Probab=94.69  E-value=0.029  Score=51.28  Aligned_cols=26  Identities=35%  Similarity=0.362  Sum_probs=23.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..|+|.|+.|+||||+|+.+++....
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            57999999999999999999987653

>PRK05439 pantothenate kinase; Provisional

Probab=94.68  E-value=0.045  Score=53.41  Aligned_cols=27  Identities=22%  Similarity=0.211  Sum_probs=23.3

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +..-+|+|.|.+|+||||+|+.+....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            556799999999999999999887643

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=94.68  E-value=0.12  Score=49.68  Aligned_cols=85  Identities=15%  Similarity=0.104  Sum_probs=47.9

Q ss_pred             hHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE----------------EeccCchhhHHHHH
Q 048213          112 MSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI----------------FVEESESGRARSLC  175 (532)
Q Consensus       112 ~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~----------------~~~~~~~~~~~~l~  175 (532)
                      ..+..+.+..+....-.++.|.|+.|+||||++..+.+..... ......                ............+.
T Consensus        65 ~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i~~~-~~~iitiEdp~E~~~~~~~q~~v~~~~~~~~~~~l~  143 (264)
T cd01129          65 KPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSELNTP-EKNIITVEDPVEYQIPGINQVQVNEKAGLTFARGLR  143 (264)
T ss_pred             CHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhhCCC-CCeEEEECCCceecCCCceEEEeCCcCCcCHHHHHH
Confidence            3333333333444445689999999999999999886643211 011111                01111122345556


Q ss_pred             HHHhccCcEEEEEcCCCCccccc
Q 048213          176 NRLKKEKMILVILDNIWENLDFH  198 (532)
Q Consensus       176 ~~l~~~k~~LlVlDdv~~~~~~~  198 (532)
                      ..|.. ..=.|+++++.+.+...
T Consensus       144 ~~lR~-~PD~i~vgEiR~~e~a~  165 (264)
T cd01129         144 AILRQ-DPDIIMVGEIRDAETAE  165 (264)
T ss_pred             HHhcc-CCCEEEeccCCCHHHHH
Confidence            66654 45678888888876544

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>cd04117 Rab15 Rab15 subfamily

Probab=94.67  E-value=0.088  Score=46.29  Aligned_cols=22  Identities=23%  Similarity=0.149  Sum_probs=18.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .|.++|.+|+|||||...+.+.
T Consensus         2 ki~vvG~~~~GKTsli~~~~~~   23 (161)
T cd04117           2 RLLLIGDSGVGKTCLLCRFTDN   23 (161)
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            3789999999999999887654

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=94.67  E-value=0.029  Score=45.30  Aligned_cols=22  Identities=36%  Similarity=0.212  Sum_probs=19.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVA  148 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~  148 (532)
                      -..++|+|+.|+|||||+..+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3689999999999999999975

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=94.66  E-value=0.031  Score=49.88  Aligned_cols=25  Identities=20%  Similarity=0.214  Sum_probs=22.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..|.|+|+.|+||||+|+.+.....
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHHcC
Confidence            5699999999999999999998643

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=94.66  E-value=0.033  Score=48.69  Aligned_cols=28  Identities=29%  Similarity=0.377  Sum_probs=25.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      .++++|+|+.|+|||||...+....+.+
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~   29 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKAR   29 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhC
Confidence            4789999999999999999998877765

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=94.66  E-value=0.023  Score=50.24  Aligned_cols=22  Identities=27%  Similarity=0.371  Sum_probs=19.5

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.|+|++|+||||+|+.+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999998764

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=94.66  E-value=0.032  Score=50.87  Aligned_cols=25  Identities=24%  Similarity=0.216  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|.|.|.+|+||||+|+.++...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998874

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=94.62  E-value=0.095  Score=56.96  Aligned_cols=46  Identities=17%  Similarity=0.220  Sum_probs=37.6

Q ss_pred             cccccchHHHHHHHHHhc---------CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          106 EAFESRMSTFNDILNALK---------SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~---------~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|-++.++.+.+.+.         +.+..+....|+.|+|||-||+.++...
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~L  545 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEAL  545 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHh
Confidence            457899999999888876         2345677889999999999999998765

>PRK04296 thymidine kinase; Provisional

Probab=94.61  E-value=0.09  Score=47.79  Aligned_cols=25  Identities=28%  Similarity=0.194  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++.|+|+.|.||||+|..++.+..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~   27 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYE   27 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHH
Confidence            4778999999999999998887654

>cd04110 Rab35 Rab35 subfamily

Probab=94.60  E-value=0.079  Score=48.55  Aligned_cols=23  Identities=26%  Similarity=0.170  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-|.|+|.+|+|||||+..+.+.
T Consensus         7 ~kivvvG~~~vGKTsli~~l~~~   29 (199)
T cd04110           7 FKLLIIGDSGVGKSSLLLRFADN   29 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999988754

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is

>cd04157 Arl6 Arl6 subfamily

Probab=94.59  E-value=0.071  Score=46.66  Aligned_cols=21  Identities=19%  Similarity=0.237  Sum_probs=18.7

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||+|...+...
T Consensus         2 i~~vG~~~~GKTsl~~~l~~~   22 (162)
T cd04157           2 ILVVGLDNSGKTTIINQLKPE   22 (162)
T ss_pred             EEEECCCCCCHHHHHHHHccc
Confidence            678999999999999988764

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=94.57  E-value=0.1  Score=45.54  Aligned_cols=22  Identities=27%  Similarity=0.354  Sum_probs=19.8

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |+|+|.+|+|||||...+....
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998764

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=94.56  E-value=0.032  Score=48.83  Aligned_cols=32  Identities=19%  Similarity=0.130  Sum_probs=25.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      +++|+|+.|+|||||+..+....+.+ .+...+
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~-G~~V~v   32 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR-GYRVAT   32 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEE
Confidence            57899999999999999999876543 244433

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>cd01861 Rab6 Rab6 subfamily

Probab=94.55  E-value=0.1  Score=45.56  Aligned_cols=22  Identities=18%  Similarity=0.137  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+++|.+|+|||||...+...
T Consensus         2 ki~liG~~~~GKSsli~~l~~~   23 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYD   23 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999998754

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=94.54  E-value=0.054  Score=51.55  Aligned_cols=41  Identities=22%  Similarity=0.377  Sum_probs=32.5

Q ss_pred             HHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhccCC
Q 048213          116 NDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKL  156 (532)
Q Consensus       116 ~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~  156 (532)
                      .+++..+.  .++..+|+|.|.+|+|||||.-.+-.....+++
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~   80 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGH   80 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCc
Confidence            45555555  677889999999999999999998887765543

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=94.54  E-value=0.11  Score=52.23  Aligned_cols=26  Identities=23%  Similarity=0.386  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -.++.++|+.|+||||++..++....
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~  162 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCV  162 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            47999999999999999999987654

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=94.51  E-value=0.11  Score=45.50  Aligned_cols=20  Identities=20%  Similarity=0.263  Sum_probs=17.8

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~  149 (532)
                      |+++|.+|+|||||...+..
T Consensus         3 v~~~G~~~~GKTsli~~l~~   22 (159)
T cd04150           3 ILMVGLDAAGKTTILYKLKL   22 (159)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            77899999999999999853

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>cd04123 Rab21 Rab21 subfamily

Probab=94.51  E-value=0.097  Score=45.69  Aligned_cols=23  Identities=17%  Similarity=0.179  Sum_probs=19.9

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|+|+|.+|+|||||...+.+..
T Consensus         2 ki~i~G~~~~GKStli~~l~~~~   24 (162)
T cd04123           2 KVVLLGEGRVGKTSLVLRYVENK   24 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37899999999999999888653

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=94.49  E-value=0.08  Score=54.40  Aligned_cols=28  Identities=25%  Similarity=0.274  Sum_probs=24.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+|.++|..|+||||+|..++.....
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~  121 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKK  121 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHH
Confidence            4679999999999999999999876654

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=94.49  E-value=0.095  Score=45.97  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+++|.+|+|||||+..+.+.
T Consensus         4 ki~i~G~~~~GKtsl~~~~~~~   25 (164)
T cd04145           4 KLVVVGGGGVGKSALTIQFIQS   25 (164)
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            4789999999999999987654

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=94.49  E-value=0.058  Score=53.53  Aligned_cols=46  Identities=17%  Similarity=0.178  Sum_probs=38.1

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          106 EAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|-++.+..++-.+.+....-+.|.|..|+|||||++.+..-.
T Consensus         4 ~~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         4 TAIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             cccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            4678999988888777777666778899999999999999997543

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=94.48  E-value=0.02  Score=53.39  Aligned_cols=108  Identities=19%  Similarity=0.163  Sum_probs=54.6

Q ss_pred             hhccccccEEEeccccccCc---------------ccccccccccEEeecccccccc----------ccCCcceEEeccc
Q 048213          388 LGLLTNLQTLCLYYCKLQDT---------------SVLGELKILEILRLRVNELTRA----------GSSQLKHLSVRGL  442 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~~---------------~~i~~l~~L~~L~l~~~~l~~~----------~l~~Lr~L~l~~~  442 (532)
                      |+.-++|.+|.+++|.+...               ..+.+-|.|++.....|.+..-          ....|+.+.+..|
T Consensus       116 is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrNRlengs~~~~a~~l~sh~~lk~vki~qN  195 (388)
T COG5238         116 ISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRNRLENGSKELSAALLESHENLKEVKIQQN  195 (388)
T ss_pred             HhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccchhccCcHHHHHHHHHhhcCceeEEeeec
Confidence            34445666666666644320               1123445566666555544432          1235666666666


Q ss_pred             cccCCCCC-----cccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          443 RASAPNPT-----ESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       443 ~~~~~~~~-----~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      .+ -++..     ..+..+++|+.|||..|-++...+..+....+.+++|+.|.+.+|-
T Consensus       196 gI-rpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL~lnDCl  253 (388)
T COG5238         196 GI-RPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLRELRLNDCL  253 (388)
T ss_pred             Cc-CcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhccccchh
Confidence            44 22211     1234456677777777755544444333333444556666666664

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=94.47  E-value=0.0041  Score=61.30  Aligned_cols=92  Identities=21%  Similarity=0.227  Sum_probs=47.2

Q ss_pred             ccCCcceEEeccccccCCCCCccc-ccCCCCCEEecCCc-ccccccccccccccccCCCccEEEeccCCCCCccchhhhh
Q 048213          430 GSSQLKHLSVRGLRASAPNPTESE-VALPKLETVCLSSI-NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSII  507 (532)
Q Consensus       430 ~l~~Lr~L~l~~~~~~~~~~~~~~-~~l~~L~~L~L~~~-~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~  507 (532)
                      .++++.+|.+.+|.........++ ...++|++|+|..| +|+..   .+....-..++|++|+++.|+.+..-.-..+.
T Consensus       162 ~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~---~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~  238 (483)
T KOG4341|consen  162 NCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDV---SLKYLAEGCRKLKYLNLSWCPQISGNGVQALQ  238 (483)
T ss_pred             hCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHH---HHHHHHHhhhhHHHhhhccCchhhcCcchHHh
Confidence            567777777777754122222233 24566777777665 44422   11100012367777777777665542122223


Q ss_pred             hcCCCccEEEeecCCcc
Q 048213          508 SSFVGLQCLEICECPVL  524 (532)
Q Consensus       508 ~~L~~L~~L~l~~c~~L  524 (532)
                      .++.+|+.+.+.||..+
T Consensus       239 rG~~~l~~~~~kGC~e~  255 (483)
T KOG4341|consen  239 RGCKELEKLSLKGCLEL  255 (483)
T ss_pred             ccchhhhhhhhcccccc
Confidence            45556666666666544

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=94.47  E-value=0.06  Score=44.49  Aligned_cols=24  Identities=38%  Similarity=0.419  Sum_probs=20.6

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhc
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +.+.|.||+||||++..++.....
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~   25 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAE   25 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH
Confidence            689999999999999998876543

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=94.46  E-value=0.045  Score=47.83  Aligned_cols=35  Identities=17%  Similarity=0.281  Sum_probs=28.6

Q ss_pred             HHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          114 TFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       114 ~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++++.+.+..   ++++++|..|+|||||...+....
T Consensus        25 g~~~l~~~l~~---k~~vl~G~SGvGKSSLiN~L~~~~   59 (161)
T PF03193_consen   25 GIEELKELLKG---KTSVLLGQSGVGKSSLINALLPEA   59 (161)
T ss_dssp             THHHHHHHHTT---SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CHHHHHHHhcC---CEEEEECCCCCCHHHHHHHHHhhc
Confidence            36666776644   799999999999999999998764

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=94.46  E-value=0.03  Score=48.70  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++.|+|.+|+||||+|+.+.....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            578999999999999999988653

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=94.46  E-value=0.053  Score=53.84  Aligned_cols=48  Identities=15%  Similarity=0.162  Sum_probs=40.9

Q ss_pred             cccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          104 DYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +-..++|-++.+..++..+.+....-|.|.|..|+||||+|+.+++-.
T Consensus        15 pf~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         15 PFTAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             CHHHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            346788999998888888878888888899999999999999997643

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=94.45  E-value=0.13  Score=45.24  Aligned_cols=20  Identities=15%  Similarity=0.089  Sum_probs=18.1

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~  149 (532)
                      |+++|.+|+|||+|+..+..
T Consensus         3 i~vvG~~~~GKtsl~~~l~~   22 (164)
T cd04101           3 CAVVGDPAVGKTAFVQMFHS   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            78999999999999998864

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>cd04112 Rab26 Rab26 subfamily

Probab=94.44  E-value=0.083  Score=48.00  Aligned_cols=21  Identities=19%  Similarity=0.145  Sum_probs=18.5

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+|+|.+|+|||||+..+...
T Consensus         3 i~vvG~~~vGKTSli~~~~~~   23 (191)
T cd04112           3 VMLLGDSGVGKTCLLVRFKDG   23 (191)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999887654

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=94.44  E-value=0.097  Score=48.33  Aligned_cols=26  Identities=31%  Similarity=0.336  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -.++.|+|++|+|||++|.+++....
T Consensus        12 g~i~~i~G~~GsGKT~l~~~~~~~~~   37 (209)
T TIGR02237        12 GTITQIYGPPGSGKTNICMILAVNAA   37 (209)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            47899999999999999999877654

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>cd01860 Rab5_related Rab5-related subfamily

Probab=94.44  E-value=0.11  Score=45.66  Aligned_cols=23  Identities=13%  Similarity=0.144  Sum_probs=20.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|+|+|.+|+|||||+..+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNE   25 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            37899999999999999988754

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=94.44  E-value=0.11  Score=46.60  Aligned_cols=23  Identities=9%  Similarity=0.189  Sum_probs=19.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      +-|+|+|.+|+|||||+..+...
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~   24 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEG   24 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998754

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=94.44  E-value=0.09  Score=47.91  Aligned_cols=25  Identities=28%  Similarity=0.286  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+|+|.|+.|+||||+++.+++...
T Consensus         1 ~~I~ieG~~GsGKtT~~~~L~~~l~   25 (200)
T cd01672           1 MFIVFEGIDGAGKTTLIELLAERLE   25 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3689999999999999999998764

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=94.43  E-value=0.063  Score=56.74  Aligned_cols=65  Identities=22%  Similarity=0.204  Sum_probs=45.6

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE------EeccCchhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI------FVEESESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~------~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      .-|.++|++|.|||-||.+++.....+  |-.+-      -.....++....++++-+..+.|.|.+|..++.
T Consensus       702 ~giLLyGppGcGKT~la~a~a~~~~~~--fisvKGPElL~KyIGaSEq~vR~lF~rA~~a~PCiLFFDEfdSi  772 (952)
T KOG0735|consen  702 TGILLYGPPGCGKTLLASAIASNSNLR--FISVKGPELLSKYIGASEQNVRDLFERAQSAKPCILFFDEFDSI  772 (952)
T ss_pred             cceEEECCCCCcHHHHHHHHHhhCCee--EEEecCHHHHHHHhcccHHHHHHHHHHhhccCCeEEEecccccc
Confidence            458899999999999999998875544  21111      001122345566777777789999999998754

>PRK13948 shikimate kinase; Provisional

Probab=94.42  E-value=0.041  Score=49.45  Aligned_cols=28  Identities=18%  Similarity=0.160  Sum_probs=24.2

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+.|.++|+.|+||||+++.+.+...
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3457899999999999999999988754

>PRK13946 shikimate kinase; Provisional

Probab=94.41  E-value=0.035  Score=50.16  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=22.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.|.++|+.|+||||+++.+++...
T Consensus        11 ~~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         11 RTVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            5799999999999999999998764

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=94.40  E-value=0.037  Score=45.81  Aligned_cols=24  Identities=17%  Similarity=0.202  Sum_probs=20.0

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhc
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      |.|+|..|+|||||.+.+......
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~~   25 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEFP   25 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS--
T ss_pred             EEEECcCCCCHHHHHHHHhcCCCc
Confidence            789999999999999999876543

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=94.40  E-value=0.053  Score=47.05  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=20.9

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++++.|.+|+||||++..+......
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~~~   25 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITALRA   25 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHHH
Confidence            4789999999999999998765543

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>cd04118 Rab24 Rab24 subfamily

Probab=94.39  E-value=0.081  Score=48.09  Aligned_cols=21  Identities=14%  Similarity=0.191  Sum_probs=19.1

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+|+|.+|+|||||...+.++
T Consensus         3 i~vvG~~~vGKSsLi~~~~~~   23 (193)
T cd04118           3 VVMLGKESVGKTSLVERYVHH   23 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999998765

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=94.39  E-value=0.11  Score=46.30  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=18.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|.+|+|||||+..+...
T Consensus         4 ki~vvG~~~vGKTsL~~~~~~~   25 (172)
T cd04141           4 KIVMLGAGGVGKSAVTMQFISH   25 (172)
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            4789999999999999887653

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=94.37  E-value=0.043  Score=52.78  Aligned_cols=27  Identities=37%  Similarity=0.637  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ++|+|.|-||+||||+|..++.....+
T Consensus         3 ~~iav~~KGGvGKTT~a~nLA~~La~~   29 (264)
T PRK13231          3 KKIAIYGKGGIGKSTTVSNMAAAYSND   29 (264)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcccCCC
Confidence            678889999999999999988866543

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=94.36  E-value=0.069  Score=47.39  Aligned_cols=44  Identities=14%  Similarity=0.099  Sum_probs=31.0

Q ss_pred             cccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          108 FESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       108 ~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++|....+.++++.+.  .....-|.|+|..|+||+.+|+.+++..
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            3577777777777665  2223566699999999999999998854

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>cd00879 Sar1 Sar1 subfamily

Probab=94.35  E-value=0.093  Score=47.52  Aligned_cols=24  Identities=17%  Similarity=0.076  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ...|+|+|++|+|||||...+...
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            455699999999999999998763

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=94.35  E-value=0.17  Score=45.58  Aligned_cols=32  Identities=16%  Similarity=0.148  Sum_probs=23.0

Q ss_pred             HHHHhcCCCceEEEEEccCCCchHHHHHHHHH
Q 048213          118 ILNALKSPDVNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       118 i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      +.+.+......-|+++|.+|+|||+|+..+..
T Consensus         8 ~~~~~~~~~~~kv~lvG~~~vGKTsli~~~~~   39 (182)
T PTZ00133          8 AFKSLFGKKEVRILMVGLDAAGKTTILYKLKL   39 (182)
T ss_pred             HHHHhcCCCccEEEEEcCCCCCHHHHHHHHhc
Confidence            34434333334588999999999999999864

>PLN02772 guanylate kinase

Probab=94.34  E-value=0.097  Score=52.43  Aligned_cols=26  Identities=19%  Similarity=0.112  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+++.|+|+.|+||+||++.+..+.
T Consensus       134 ~~k~iVlsGPSGvGKsTL~~~L~~~~  159 (398)
T PLN02772        134 AEKPIVISGPSGVGKGTLISMLMKEF  159 (398)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhhhc
Confidence            45789999999999999999998764

>cd04122 Rab14 Rab14 subfamily

Probab=94.34  E-value=0.11  Score=45.80  Aligned_cols=22  Identities=23%  Similarity=0.160  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|.+|+|||+|...+.+.
T Consensus         4 ki~iiG~~~vGKTsli~~~~~~   25 (166)
T cd04122           4 KYIIIGDMGVGKSCLLHQFTEK   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3679999999999999998754

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=94.32  E-value=0.034  Score=48.53  Aligned_cols=20  Identities=35%  Similarity=0.498  Sum_probs=18.7

Q ss_pred             EEEEEccCCCchHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVA  148 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~  148 (532)
                      .|+|.|.+|+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999987

>PLN02200 adenylate kinase family protein

Probab=94.31  E-value=0.043  Score=51.63  Aligned_cols=27  Identities=15%  Similarity=0.055  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+|.|.|++|+||||+|+.++....
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~g   68 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETFG   68 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346889999999999999999987653

>cd01866 Rab2 Rab2 subfamily

Probab=94.29  E-value=0.12  Score=45.85  Aligned_cols=23  Identities=22%  Similarity=0.088  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|+|+|.+|+|||||...+.+.
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~   27 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDK   27 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35889999999999999998764

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=94.27  E-value=0.11  Score=45.94  Aligned_cols=23  Identities=17%  Similarity=0.117  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|+++|.+|+|||||+..+.+.
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~   26 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSED   26 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            35789999999999999998765

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=94.26  E-value=0.091  Score=54.13  Aligned_cols=28  Identities=21%  Similarity=0.241  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .-..++|.|..|+|||||+..+.+....
T Consensus       140 ~GQR~gIfgg~G~GKs~L~~~ia~~~~a  167 (458)
T TIGR01041       140 RGQKLPIFSGSGLPHNELAAQIARQATV  167 (458)
T ss_pred             cCCEEEeeCCCCCCHHHHHHHHHHhhcc
Confidence            3467999999999999999999987654

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=94.25  E-value=0.19  Score=47.04  Aligned_cols=26  Identities=27%  Similarity=0.332  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -.++.|+|.+|+|||+||..++....
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~   44 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQ   44 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhh
Confidence            47999999999999999999876543

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=94.24  E-value=0.062  Score=56.46  Aligned_cols=48  Identities=19%  Similarity=0.223  Sum_probs=37.5

Q ss_pred             ccccccchHHHHHHHHHhcC-----CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          105 YEAFESRMSTFNDILNALKS-----PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~-----~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+.--.+-++++..||.+     ...+++.+.|++|+||||.++.+++...
T Consensus        18 ~~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~elg   70 (519)
T PF03215_consen   18 LDELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKELG   70 (519)
T ss_pred             HHHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            34455567778888888872     2357899999999999999999998743

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=94.24  E-value=0.067  Score=47.76  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=21.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++.++|++|+||||++..++.....
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~   26 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKK   26 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6789999999999999998876543

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=94.22  E-value=0.17  Score=45.52  Aligned_cols=23  Identities=26%  Similarity=0.222  Sum_probs=20.2

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      |+|+|..|+|||||...+.....
T Consensus         2 v~v~G~~~~GKStlln~l~~~~~   24 (189)
T cd00881           2 VGIAGHVDHGKTTLTERLLYVTG   24 (189)
T ss_pred             EEEEeCCCCCHHHHHHHHHHhcC
Confidence            78999999999999999977643

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

>PTZ00369 Ras-like protein; Provisional

Probab=94.21  E-value=0.09  Score=47.68  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|.+|+|||||+..+.+.
T Consensus         7 Ki~iiG~~~~GKTsLi~~~~~~   28 (189)
T PTZ00369          7 KLVVVGGGGVGKSALTIQFIQN   28 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4668999999999999988764

>PRK04182 cytidylate kinase; Provisional

Probab=94.20  E-value=0.043  Score=49.25  Aligned_cols=24  Identities=38%  Similarity=0.336  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|+|.|+.|+||||+|+.++....
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            789999999999999999988654

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=94.19  E-value=0.093  Score=51.07  Aligned_cols=58  Identities=17%  Similarity=0.100  Sum_probs=43.3

Q ss_pred             cccccccchHHHHH---HHHHhcCC--CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          104 DYEAFESRMSTFND---ILNALKSP--DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       104 ~~~~~~gR~~~~~~---i~~~l~~~--~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      ...+|+|-.+..+.   |+++..++  .-+.|.|+|++|.|||+||..+.+..-..-.|-...
T Consensus        37 ~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~is   99 (450)
T COG1224          37 IGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAIS   99 (450)
T ss_pred             cCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeec
Confidence            35678997665543   55555544  348999999999999999999999877666675543

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=94.18  E-value=0.11  Score=49.43  Aligned_cols=27  Identities=19%  Similarity=0.254  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .-..++|.|-.|+|||+|+..+.++..
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~   94 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAG   94 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhh
Confidence            346789999999999999999888754

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=94.17  E-value=0.043  Score=49.20  Aligned_cols=25  Identities=16%  Similarity=0.177  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+++|+|+.|+||||+++.++....
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~   28 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFS   28 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999998654

>PRK14738 gmk guanylate kinase; Provisional

Probab=94.17  E-value=0.044  Score=50.55  Aligned_cols=26  Identities=15%  Similarity=0.188  Sum_probs=22.4

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ...+.+.|+|++|+|||||+..+...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            34678999999999999999999754

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=94.16  E-value=0.084  Score=52.05  Aligned_cols=76  Identities=18%  Similarity=0.159  Sum_probs=46.2

Q ss_pred             cccccccchHHHHH---HHHHhcCCC--ceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc--CchhhHHHHHH
Q 048213          104 DYEAFESRMSTFND---ILNALKSPD--VNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE--SESGRARSLCN  176 (532)
Q Consensus       104 ~~~~~~gR~~~~~~---i~~~l~~~~--~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~--~~~~~~~~l~~  176 (532)
                      ...++||..+..+.   +++++.++.  -+.+.+.|++|.|||+||..+++....+-.|-.....+.  ..-...+.+.+
T Consensus        22 ~~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS~e~kKTE~L~q  101 (398)
T PF06068_consen   22 IADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYSSEVKKTEALTQ  101 (398)
T ss_dssp             EETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-BTTC-HHHHHHH
T ss_pred             ccccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeeecccCchHHHHH
Confidence            35689998766554   455555554  489999999999999999999998776644544431111  12223455666


Q ss_pred             HHh
Q 048213          177 RLK  179 (532)
Q Consensus       177 ~l~  179 (532)
                      .++
T Consensus       102 a~R  104 (398)
T PF06068_consen  102 AFR  104 (398)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            665

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.16  E-value=0.04  Score=49.95  Aligned_cols=27  Identities=22%  Similarity=0.148  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .-.|++|+|++|+|||||.+.+..-..
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE~   53 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLEE   53 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCcC
Confidence            347999999999999999999865433

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=94.13  E-value=0.17  Score=51.53  Aligned_cols=47  Identities=17%  Similarity=0.013  Sum_probs=34.6

Q ss_pred             cccccchHHHHHHHHHhc-------C---C--------CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          106 EAFESRMSTFNDILNALK-------S---P--------DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~-------~---~--------~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++|.++.++.+...+.       .   .        ....+.++|++|+|||++|+.++....
T Consensus        77 ~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~  141 (413)
T TIGR00382        77 EYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILN  141 (413)
T ss_pred             ceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcC
Confidence            346888888877765541       1   0        125789999999999999999987654

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>cd04114 Rab30 Rab30 subfamily

Probab=94.13  E-value=0.18  Score=44.50  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ...|+++|.+|+|||||..++...
T Consensus         7 ~~~v~v~G~~~~GKSsli~~l~~~   30 (169)
T cd04114           7 LFKIVLIGNAGVGKTCLVRRFTQG   30 (169)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhC
Confidence            467999999999999999998743

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=94.12  E-value=0.15  Score=44.63  Aligned_cols=21  Identities=14%  Similarity=0.235  Sum_probs=19.1

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+++|.+|+|||||...+...
T Consensus         3 v~~vG~~~~GKTsl~~~~~~~   23 (162)
T cd04106           3 VIVVGNGNVGKSSMIQRFVKG   23 (162)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999998764

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd04128 Spg1 Spg1p

Probab=94.12  E-value=0.11  Score=46.94  Aligned_cols=21  Identities=24%  Similarity=0.275  Sum_probs=18.5

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||+|+..+...
T Consensus         3 i~vlG~~~vGKTsLi~~~~~~   23 (182)
T cd04128           3 IGLLGDAQIGKTSLMVKYVEG   23 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999888664

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are

>cd04116 Rab9 Rab9 subfamily

Probab=94.12  E-value=0.14  Score=45.34  Aligned_cols=23  Identities=17%  Similarity=0.265  Sum_probs=19.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|.++|.+|+|||||+..+.+.
T Consensus         6 ~ki~vvG~~~~GKTsli~~~~~~   28 (170)
T cd04116           6 LKVILLGDGGVGKSSLMNRYVTN   28 (170)
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999988753

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=94.11  E-value=0.14  Score=47.50  Aligned_cols=98  Identities=17%  Similarity=0.169  Sum_probs=53.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh--hccC-----------CCCEEE--Ee-ccCc-------hhhHHHHHHHHh-ccC
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA--ENEK-----------LFDRVI--FV-EESE-------SGRARSLCNRLK-KEK  182 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~--~~~~-----------~F~~~~--~~-~~~~-------~~~~~~l~~~l~-~~k  182 (532)
                      .+++.|+|+.|.||||+.+.+....  ...+           .|+...  +. ..+.       ......+...+. ..+
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~~la~~G~~v~a~~~~~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l~~~~~  108 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVPADSATIGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKALRLATR  108 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHHHHHhCCCeeEcCCcEEeeeeeeeeeeCCccChhhccchHHHHHHHHHHHHHhCCC
Confidence            4899999999999999999987432  1111           112111  00 0111       111222322222 147


Q ss_pred             cEEEEEcCCCCcccc-------cccccccCCC-CCCeEEEEeecChHHhh
Q 048213          183 MILVILDNIWENLDF-------HAVGIPHGDD-HKGCKVLLTARSLDVLS  224 (532)
Q Consensus       183 ~~LlVlDdv~~~~~~-------~~l~~~~~~~-~~gs~ilvTtr~~~v~~  224 (532)
                      +-|+++|.....-+.       ..+...+... ..+..+|++|.....+.
T Consensus       109 ~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~~  158 (213)
T cd03281         109 RSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELFN  158 (213)
T ss_pred             CcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHHH
Confidence            799999998754221       1122222222 23457999999988764

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>cd01890 LepA LepA subfamily

Probab=94.11  E-value=0.18  Score=45.02  Aligned_cols=23  Identities=17%  Similarity=-0.006  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |-|+++|..|+|||||+.++.+.
T Consensus         1 rni~~vG~~~~GKssL~~~l~~~   23 (179)
T cd01890           1 RNFSIIAHIDHGKSTLADRLLEL   23 (179)
T ss_pred             CcEEEEeecCCCHHHHHHHHHHH
Confidence            46899999999999999998774

LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.

>PRK00698 tmk thymidylate kinase; Validated

Probab=94.09  E-value=0.14  Score=47.11  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=23.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|.|+.|+||||+++.+.+....
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~l~~   29 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKELLEQ   29 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999987644

>PLN02318 phosphoribulokinase/uridine kinase

Probab=94.08  E-value=0.11  Score=54.63  Aligned_cols=28  Identities=21%  Similarity=0.268  Sum_probs=24.3

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++..+|+|.|+.|+||||||+.+....
T Consensus        62 ~~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         62 NDGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             CCCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            3567899999999999999999998753

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=94.08  E-value=0.13  Score=47.10  Aligned_cols=21  Identities=24%  Similarity=0.173  Sum_probs=18.8

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+|+|.+|+|||||...+.+.
T Consensus         3 ivivG~~~vGKTsli~~l~~~   23 (201)
T cd04107           3 VLVIGDLGVGKTSIIKRYVHG   23 (201)
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            689999999999999988764

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd01865 Rab3 Rab3 subfamily

Probab=94.05  E-value=0.13  Score=45.34  Aligned_cols=23  Identities=26%  Similarity=0.107  Sum_probs=20.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|+|+|.+|+|||||...+.+..
T Consensus         3 ki~i~G~~~~GKSsli~~l~~~~   25 (165)
T cd01865           3 KLLIIGNSSVGKTSFLFRYADDS   25 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999987653

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=94.05  E-value=0.048  Score=48.37  Aligned_cols=23  Identities=35%  Similarity=0.309  Sum_probs=19.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      |.|.|..|+|||||++.+++..+
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~   24 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELK   24 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhh
Confidence            67999999999999999998764

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK08149 ATP synthase SpaL; Validated

Probab=94.04  E-value=0.1  Score=53.15  Aligned_cols=26  Identities=19%  Similarity=0.238  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-..++|+|..|+|||||+..+++..
T Consensus       150 ~Gq~i~I~G~sG~GKTTLl~~i~~~~  175 (428)
T PRK08149        150 VGQRMGIFASAGCGKTSLMNMLIEHS  175 (428)
T ss_pred             cCCEEEEECCCCCChhHHHHHHhcCC
Confidence            34689999999999999999988744

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=94.04  E-value=0.052  Score=52.19  Aligned_cols=28  Identities=21%  Similarity=0.252  Sum_probs=25.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccC
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEK  155 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~  155 (532)
                      ++++|+|.+|+|||||+..+......++
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G   29 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGRG   29 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCC
Confidence            5899999999999999999998877664

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=94.04  E-value=0.096  Score=48.83  Aligned_cols=23  Identities=39%  Similarity=0.255  Sum_probs=19.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|.++|.+|+|||||...+...
T Consensus        14 ~Ki~vvG~~gvGKTsli~~~~~~   36 (219)
T PLN03071         14 FKLVIVGDGGTGKTTFVKRHLTG   36 (219)
T ss_pred             eEEEEECcCCCCHHHHHHHHhhC
Confidence            45889999999999999987654

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.03  E-value=0.069  Score=53.88  Aligned_cols=48  Identities=19%  Similarity=0.164  Sum_probs=35.8

Q ss_pred             cccccchHHHHHHHHHhcC--------------CCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          106 EAFESRMSTFNDILNALKS--------------PDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~--------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..++|.++.++.+.-.+..              ...+-|.++|++|+|||++|+.++.....
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~   73 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANA   73 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3577877777776554442              12467899999999999999999987543

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=94.03  E-value=0.071  Score=52.78  Aligned_cols=47  Identities=15%  Similarity=0.241  Sum_probs=36.9

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -..++|.++.++.+.-.+.+.+..-+.+.|..|.||||+|+.+..-.
T Consensus         7 f~~i~Gq~~~~~~l~~~~~~~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          7 FSAIVGQEEMKQAMVLTAIDPGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             HHHhCCHHHHHHHHHHHHhccCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            45688999988887755544444568899999999999999997643

---

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	532
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-35
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-26
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-21
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	1e-11
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-08
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-07
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-09
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-05
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-04
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-09
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-04
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-09
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	2e-05
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-04
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-04
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-08
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	5e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	7e-04
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-06
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-08
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	7e-07
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-06
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-08
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-05
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-07
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	5e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-05
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-06
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-05
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-04
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	6e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	6e-04
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	2e-06
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	8e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-06
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	1e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	7e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	7e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-06
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-04
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	7e-06
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	9e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-05
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	7e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	7e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	1e-05
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	7e-05
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	4e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	8e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	2e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-05
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	9e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	6e-05
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	1e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	8e-05
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	6e-04
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	9e-05
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	1e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	3e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	4e-04
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	6e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	6e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	8e-04

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  138 bits (349), Expect = 2e-35
 Identities = 47/381 (12%), Positives = 111/381 (29%), Gaps = 60/381 (15%)

Query: 2   DVSKESEVDEPK---RREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPN 58
           ++  E   +       R E I  ++   R   +++    + F   +        +     
Sbjct: 34  NIFTEDHSELISKMSTRLERIANFLRIYRRQASELGPLIDFFNYNNQSHLADFLE----- 88

Query: 59  LKTHRRLSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDI 118
                     A  + + +  V  A +F R   +       +         E  +      
Sbjct: 89  -----DYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKK 143

Query: 119 LNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAEN--EKLFDRVIFV------------- 163
           L+ +   D   L ++G  G  K+  A +   K++      +D ++++             
Sbjct: 144 LDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDL 203

Query: 164 ---------------------EESESGRARSLCNRLKKEKMILVILDNIWENLDFHAVGI 202
                                  +     R +CN L      L + D++ +         
Sbjct: 204 FTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWA-- 261

Query: 203 PHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKW 262
                    + L+T R +++ +    + +   V  L+ DE +   +        G + + 
Sbjct: 262 ----QELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEED 317

Query: 263 VAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAY----KA 318
           V     +  +G P +++   ++   K          +L        + I P +Y     A
Sbjct: 318 VLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMA 377

Query: 319 IELSYVKLDGDELKNIFLLIG 339
           ++     L  DE ++      
Sbjct: 378 LQRCVEVLS-DEDRSALAFAV 397

>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 =  113 bits (283), Expect = 2e-26
 Identities = 89/532 (16%), Positives = 161/532 (30%), Gaps = 175/532 (32%)

Query: 3   VSKESEVDE---PKRREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNL 59
           +SKE E+D     K              +   +++   +KF+    R N   +K L   +
Sbjct: 46  LSKE-EIDHIIMSKDAVSGTLRLFWTLLSKQEEMV---QKFVEEVLRIN---YKFLMSPI 98

Query: 60  KTHRR----LSKEAERQKEAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTF 115
           KT +R    +++    Q++ + N  +   F +  YN+                 SR+  +
Sbjct: 99  KTEQRQPSMMTRMYIEQRDRLYNDNQ--VFAK--YNV-----------------SRLQPY 137

Query: 116 NDILNALKS--PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF----------- 162
             +  AL    P  N + I G+ G  KT  A +V +  + +   D  IF           
Sbjct: 138 LKLRQALLELRPAKN-VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPE 196

Query: 163 ------------VEESESGRARSLCN-------------RLKKEKMI---LVILDNIWEN 194
                       ++ + + R+    N             RL K K     L++L N+   
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNA 256

Query: 195 LDFHAVGIPHGDDHKGCKVLLTAR------SLDVLSRKMDSQQDFWVGVLKEDEAWSLFK 248
             ++A  +        CK+LLT R       L   +    S     +  L  DE  SL  
Sbjct: 257 KAWNAFNL-------SCKILLTTRFKQVTDFLSAATTTHISLDHHSMT-LTPDEVKSLLL 308

Query: 249 KMAGDYIEGSEFKWVAKDVAK----KCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPS 304
                       K++               P  +  +A ++R     D         W  
Sbjct: 309 ------------KYLDCRPQDLPREVLTTNPRRLSIIAESIR-----DGLA-----TW-- 344

Query: 305 STNFKDIQPTAY-KAIELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGLGLFQGIK 363
             N+K +        IE S   L+  E + +F           D        L +F    
Sbjct: 345 -DNWKHVNCDKLTTIIESSLNVLEPAEYRKMF-----------DR-------LSVF---- 381

Query: 364 RMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRV 423
                     I          P+          L L +  +  + V+  +  L    L V
Sbjct: 382 -----PPSAHI----------PT--------ILLSLIWFDVIKSDVMVVVNKLHKYSL-V 417

Query: 424 NELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQN 475
            +  +  +  +  + +  L+    N          L    +   NI + + +
Sbjct: 418 EKQPKESTISIPSIYLE-LKVKLEN-------EYALHRSIVDHYNIPKTFDS 461

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 97.6 bits (243), Expect = 1e-21
 Identities = 58/368 (15%), Positives = 116/368 (31%), Gaps = 58/368 (15%)

Query: 14  RREEEIEEYVEKCRASVNDVIDEAEKFIGVDARANKHCFKGLCPNLKTHRRLSKEAERQK 73
             +  +    E+   +       A   I +  + +   +      L       K+     
Sbjct: 30  ISDGFLTISEEEKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGY--KDLAALL 87

Query: 74  EAVVNVQEAGRFDRISYNIIPDDSLLLSNKDYEAFESRMSTFNDILNALKS------PDV 127
              + V  +         I      +L             T   ++NA++        + 
Sbjct: 88  HDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLSKLKGEP 147

Query: 128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLF--DRVIFV---------------------- 163
             + I+GM G  K+  A E        +      V +V                      
Sbjct: 148 GWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLD 207

Query: 164 -EESESGRA----RSLCNRLK-----KEKMILVILDNIWENLDFHAVGIPHGDDHKGCKV 213
            +ES S R         +RL+     K    L+ILD++W++    A           C++
Sbjct: 208 QDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD-------SQCQI 260

Query: 214 LLTARSLDVLSRKMDSQQDFWV-GVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCA 272
           LLT R   V    M  +    V   L +++   +         + ++    A  + K+C 
Sbjct: 261 LLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNM--KKADLPEQAHSIIKECK 318

Query: 273 GLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFKDIQPTAY----KAIELSYVKLDG 328
           G P+ +  +   LR+     W+  L+QL+       +      Y    +A+ +S   L  
Sbjct: 319 GSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLR- 376

Query: 329 DELKNIFL 336
           +++K+ + 
Sbjct: 377 EDIKDYYT 384

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score = 66.4 bits (162), Expect = 1e-11
 Identities = 52/271 (19%), Positives = 84/271 (30%), Gaps = 51/271 (18%)

Query: 108 FESRMSTFNDILNALKSPDV--NMLGIYGMGGIRKTTPAKEVAIKAEN-EKLF-DRVIFV 163
           F +R    + I   L   +     + IYGM G  K+  A E        E  F   V +V
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185

Query: 164 EESESGRAR------SLCNRLK--------------------------KEKMILVILDNI 191
              +  ++       +LC RL                           K    L+ILD++
Sbjct: 186 SIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV 245

Query: 192 WENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQDFWV-GVLKEDEAWSLFKKM 250
           W+     A           C++LLT R   V    M  +    V   L  ++   +    
Sbjct: 246 WDPWVLKAFDNQ-------CQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLF 298

Query: 251 AGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFKD 310
                E    +     + K+C G P+ +  +   LR+     W   L QL+       + 
Sbjct: 299 VNMKKEDLPAEA--HSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRK 355

Query: 311 ----IQPTAYKAIELSYVKLDGDELKNIFLL 337
                     +A+ +S   L  D       L
Sbjct: 356 SSSYDYEALDEAMSISVEMLREDIKDYYTDL 386

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 59.7 bits (145), Expect = 1e-09
 Identities = 42/228 (18%), Positives = 76/228 (33%), Gaps = 25/228 (10%)

Query: 304 SSTNFKDIQPTAYKAIEL-----SYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMG--- 355
           S      IQP A+K I L            + +K     +    +  +        G   
Sbjct: 185 SLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLE 244

Query: 356 ---LGLFQGIKRMEVARARVVIDLTYMNLL--SLPSSLGLLTNLQTLCLYYCKLQDTSVL 410
                  +G+  + +        L Y++     +      LTN+ +  L    ++     
Sbjct: 245 KFDKSALEGLCNLTIEE----FRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDF 300

Query: 411 GELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIE 470
                 + L L   +  +  + +LK L      ++      SEV LP LE + LS   + 
Sbjct: 301 SYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLS 360

Query: 471 RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
                  +    G  +LK L L     +      ++ S+F+GL+ LE 
Sbjct: 361 FK--GCCSQSDFGTTSLKYLDLSFN-GVI-----TMSSNFLGLEQLEH 400

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 55.0 bits (133), Expect = 4e-08
 Identities = 31/157 (19%), Positives = 54/157 (34%), Gaps = 22/157 (14%)

Query: 373 VIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR- 428
            +DL++  L  L   S      LQ L L  C++Q  +      L  L  L L  N +   
Sbjct: 32  NLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSL 91

Query: 429 -----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
                +G S L+ L      L +    P      L  L+ + ++   I+     ++    
Sbjct: 92  ALGAFSGLSSLQKLVAVETNLASLENFPIGH---LKTLKELNVAHNLIQSF---KLPEYF 145

Query: 482 CGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
             + NL+ L L +         S   +    L  + +
Sbjct: 146 SNLTNLEHLDLSS-----NKIQSIYCTDLRVLHQMPL 177

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 52.7 bits (127), Expect = 2e-07
 Identities = 29/156 (18%), Positives = 57/156 (36%), Gaps = 20/156 (12%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ---DTSVLGELKILEILRLRVNELTR- 428
            +DL++  ++++ S+   L  L+ L   +  L+   + SV   L+ L  L +        
Sbjct: 377 YLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 436

Query: 429 -----AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCG 483
                 G S L+ L + G         +    L  L  + LS   +E++           
Sbjct: 437 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT----AFNS 492

Query: 484 IQNLKRLIL-FNCWNLTCLFTSSIISSFVGLQCLEI 518
           + +L+ L +  N       F S     +  L  L++
Sbjct: 493 LSSLQVLNMSHN------NFFSLDTFPYKCLNSLQV 522

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 45.4 bits (108), Expect = 3e-05
 Identities = 33/148 (22%), Positives = 49/148 (33%), Gaps = 13/148 (8%)

Query: 382 LSLPSSLGLLTNLQTLCLYYCKLQ-----DTSVLGELKILEI-LRLRVNELTRA-----G 430
             LP     LTNL+ L L   K+Q     D  VL ++ +L + L L +N +         
Sbjct: 139 FKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFK 198

Query: 431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRL 490
             +L  L++R    S          L  LE   L           +    S  ++ L  L
Sbjct: 199 EIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKS-ALEGLCNL 257

Query: 491 -ILFNCWNLTCLFTSSIISSFVGLQCLE 517
            I          +   II  F  L  + 
Sbjct: 258 TIEEFRLAYLDYYLDDIIDLFNCLTNVS 285

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 29/172 (16%), Positives = 50/172 (29%), Gaps = 25/172 (14%)

Query: 372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ---DTSVLGELKILEILRLRVNELTR 428
           + +DL+   +  +         L  L L           + +  L  LE+ RL + E   
Sbjct: 180 LSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRN 239

Query: 429 AG--------------SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQ 474
            G              +  ++   +  L     +  +    L  + +  L S+ IER+  
Sbjct: 240 EGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKD 299

Query: 475 NQVAAM-------SCGIQNLKRLILFNCWNLT-CLFTSSIISSFVGLQCLEI 518
                        +C       L L +   LT          S V L  LE 
Sbjct: 300 FSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEF 351

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 58.8 bits (143), Expect = 2e-09
 Identities = 41/164 (25%), Positives = 61/164 (37%), Gaps = 27/164 (16%)

Query: 371 RVV-IDLTYMNL----LSLPSSLGLLTNLQTLCLYYCKLQDT-SVLGELKILEILRLRVN 424
           +V  IDL+   L     ++ SSL  LT L++L L    +  + S       L  L L  N
Sbjct: 51  KVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRN 110

Query: 425 ELTRAGS----------SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIE-RIW 473
            L+  G           S LK L+V       P      + L  LE + LS+ +I     
Sbjct: 111 SLS--GPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANV 168

Query: 474 QNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSI-ISSFVGLQCL 516
              V +  C    LK L +          +  + +S  V L+ L
Sbjct: 169 VGWVLSDGC--GELKHLAISG-----NKISGDVDVSRCVNLEFL 205

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 48.4 bits (116), Expect = 4e-06
 Identities = 25/161 (15%), Positives = 49/161 (30%), Gaps = 27/161 (16%)

Query: 372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ----DTSVLGELKILEILRLRVNELT 427
             + L+  ++    S      +L +L L    L       + LG    L+ L +  N L 
Sbjct: 80  ESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLD 139

Query: 428 RAGS-------SQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIE-RIWQNQV 477
             G        + L+ L +    +  +            +L+ + +S   I   +     
Sbjct: 140 FPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVD---- 195

Query: 478 AAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
                   NL+ L + +  N      S+ I        L+ 
Sbjct: 196 ---VSRCVNLEFLDVSSN-NF-----STGIPFLGDCSALQH 227

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 44.5 bits (106), Expect = 8e-05
 Identities = 14/61 (22%), Positives = 25/61 (40%), Gaps = 6/61 (9%)

Query: 372 VVIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQDT---SVLGELKILEILRLRVNEL 426
             +DL   N     +P   G  + L++L L             L +++ L++L L  NE 
Sbjct: 297 TGLDL-SGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEF 355

Query: 427 T 427
           +
Sbjct: 356 S 356

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.7 bits (104), Expect = 1e-04
 Identities = 28/160 (17%), Positives = 51/160 (31%), Gaps = 25/160 (15%)

Query: 372 VVIDLTYMNLLS--LPSSL---GLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNEL 426
            V+DL   N +S               L+ L +   K+     +     LE L +  N  
Sbjct: 154 EVLDL-SANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNF 212

Query: 427 TRAGS-------SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIE-RIWQNQVA 478
           +           S L+HL + G + S            +L+ + +SS      I      
Sbjct: 213 S--TGIPFLGDCSALQHLDISGNKLSGDFSRAI-STCTELKLLNISSNQFVGPIP----- 264

Query: 479 AMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
                +++L+ L L      T      +  +   L  L++
Sbjct: 265 --PLPLKSLQYLSLAEN-KFTGEIPDFLSGACDTLTGLDL 301

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.4 bits (103), Expect = 2e-04
 Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 12/76 (15%)

Query: 373 VIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTR 428
            + L + N L+  +PS L   TNL  + L   +L       +G L+ L IL+L  N  + 
Sbjct: 470 TLILDF-NDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFS- 527

Query: 429 AGS-----SQLKHLSV 439
            G+        + L  
Sbjct: 528 -GNIPAELGDCRSLIW 542

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 42.2 bits (100), Expect = 4e-04
 Identities = 28/152 (18%), Positives = 52/152 (34%), Gaps = 26/152 (17%)

Query: 372 VVIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQDT---SVLGELKILEILRLRVNEL 426
            ++++   N     +P     L +LQ L L   K        + G    L  L L  N  
Sbjct: 250 KLLNI-SSNQFVGPIPPLP--LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHF 306

Query: 427 TRAGS--------SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVA 478
              G+        S L+ L++     S   P ++ + +  L+ + LS           + 
Sbjct: 307 Y--GAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLT 364

Query: 479 AMSCGIQNLKRLILFNCWNLTCLFTSSIISSF 510
            +S    +L  L L +       F+  I+ + 
Sbjct: 365 NLS---ASLLTLDLSS-----NNFSGPILPNL 388

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 56.5 bits (137), Expect = 6e-09
 Identities = 38/174 (21%), Positives = 67/174 (38%), Gaps = 30/174 (17%)

Query: 372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT-SVLGELKILEILRLRVNELTRAG 430
           V ++L  + L   P     L++LQ + +    L +    + +   LE L L  N L    
Sbjct: 84  VALELRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALP 143

Query: 431 SS-----QLKHLSVRG---LRA-----SAPNPTESEVALPKLETVCLSSINIER----IW 473
           +S     +L+ LS+R    L       ++ + +     L  L+++ L    I      I 
Sbjct: 144 ASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASI- 202

Query: 474 QNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEI 527
                     +QNLK L + N   L+ L  +  I     L+ L++  C  L+  
Sbjct: 203 --------ANLQNLKSLKIRNS-PLSALGPA--IHHLPKLEELDLRGCTALRNY 245

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 49.6 bits (119), Expect = 1e-06
 Identities = 29/133 (21%), Positives = 48/133 (36%), Gaps = 34/133 (25%)

Query: 375 DLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRAGSSQ 433
            L +  + SLP+S+  L NL++L +    L      +  L  LE L LR       G + 
Sbjct: 189 RLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLR-------GCTA 241

Query: 434 LKHLSVRGLRASAPNPTESEVALPKLETVCLSSINI-----ERIWQNQVAAMSCGIQNLK 488
           L++            P         L+ + L   +        I +         +  L+
Sbjct: 242 LRNY-----------PPIFG-GRAPLKRLILKDCSNLLTLPLDIHR---------LTQLE 280

Query: 489 RLILFNCWNLTCL 501
           +L L  C NL+ L
Sbjct: 281 KLDLRGCVNLSRL 293

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 43.0 bits (102), Expect = 2e-04
 Identities = 24/156 (15%), Positives = 39/156 (25%), Gaps = 21/156 (13%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELT-------RAGSS 432
            L      L                            +I       L         A   
Sbjct: 24  ALRPYHDVLSQWQRHYNADRNRWHS--AWRQANSNNPQIETRTGRALKATADLLEDATQP 81

Query: 433 QLKHLSVRGLRASA-PNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLI 491
               L +R +     P+       L  L+ + + +  +  +              L+ L 
Sbjct: 82  GRVALELRSVPLPQFPDQAFR---LSHLQHMTIDAAGLMELPDTM-----QQFAGLETLT 133

Query: 492 LFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEI 527
           L     L  L   + I+S   L+ L I  CP L E+
Sbjct: 134 LARN-PLRAL--PASIASLNRLRELSIRACPELTEL 166

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 40.7 bits (96), Expect = 9e-04
 Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 4/52 (7%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSV---LGELKILEILRLRVNELTR 428
           NLL+LP  +  LT L+ L L  C    + +   + +L    I+ +  +   +
Sbjct: 265 NLLTLPLDIHRLTQLEKLDLRGCV-NLSRLPSLIAQLPANCIILVPPHLQAQ 315

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 57.6 bits (139), Expect = 6e-09
 Identities = 25/155 (16%), Positives = 48/155 (30%), Gaps = 14/155 (9%)

Query: 373 VIDLTYMNLLSLPSSLGL--LTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR-- 428
           +  + Y NL   P+S  L  +  L  L   + K++     G    L  L+L  N++    
Sbjct: 552 IFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIP 611

Query: 429 ----AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS-CG 483
               A + Q++ L     +        +  ++  + +V  S   I    +N   +M    
Sbjct: 612 EDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYK 671

Query: 484 IQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
             N   + L                 F     +  
Sbjct: 672 GINASTVTLSY-----NEIQKFPTELFATGSPIST 701

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 52.2 bits (125), Expect = 3e-07
 Identities = 26/184 (14%), Positives = 55/184 (29%), Gaps = 30/184 (16%)

Query: 373 VIDLTYMNLLSLPSSLG-LLTNLQTLCLYYCKLQ---DTSVLGELKILEILRLRVNELTR 428
            + L Y  +  +P         ++ L   + KL+   +      + ++  +    N++  
Sbjct: 599 DLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGS 658

Query: 429 ------AGSSQLKHLSVRGLRASAPN-----PTESEVALPKLETVCLSSINIERIWQNQV 477
                       K ++   +  S  N     PTE       + T+ LS+  +  I +N +
Sbjct: 659 EGRNISCSMDDYKGINASTVTLSY-NEIQKFPTELFATGSPISTIILSNNLMTSIPENSL 717

Query: 478 AAMSCGIQNLKRLILFNCWN--LTCLFTSSIISSFVGLQCL------------EICECPV 523
                  +N   L   +     LT L      ++   L  +            +      
Sbjct: 718 KPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQ 777

Query: 524 LKEI 527
           LK  
Sbjct: 778 LKAF 781

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 46.4 bits (110), Expect = 2e-05
 Identities = 19/169 (11%), Positives = 47/169 (27%), Gaps = 25/169 (14%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR-----AGSSQL 434
            +  +  ++  LT LQ +         T     +   +       +        +    L
Sbjct: 436 RITFISKAIQRLTKLQIIYFANSPF--TYDNIAVDWEDANSDYAKQYENEELSWSNLKDL 493

Query: 435 KHLSVRGLRASAPNPTESEVALPKLETVCLS-----SINIERIWQNQVAAMSCGIQNLKR 489
             + +         P +    LP+L+++ ++     S    +    ++A        ++ 
Sbjct: 494 TDVELYNCPNMTQLP-DFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQI 552

Query: 490 LILFNCWNLTCLFTSSIISSFVGLQCL-----------EICECPVLKEI 527
             +    NL     S+ +   V L  L                  L ++
Sbjct: 553 FYMGYN-NLEEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVKLTDL 600

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 44.1 bits (104), Expect = 1e-04
 Identities = 23/174 (13%), Positives = 50/174 (28%), Gaps = 31/174 (17%)

Query: 372 VVIDLTYMNLL-SLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEI---------LRL 421
             + L        +P ++G LT L+ L         +  L   + L           +R+
Sbjct: 326 TGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRM 385

Query: 422 RVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
              ++      +L    +     +     +    + K   + L    I  +  N++  +S
Sbjct: 386 HYKKMFLDYDQRLNLSDLLQDAINRNPEMKP---IKKDSRISLKDTQIGNL-TNRITFIS 441

Query: 482 CGIQNLKRL-----------------ILFNCWNLTCLFTSSIISSFVGLQCLEI 518
             IQ L +L                    +  +       +   S+  L+ L  
Sbjct: 442 KAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTD 495

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 42.6 bits (100), Expect = 3e-04
 Identities = 29/164 (17%), Positives = 54/164 (32%), Gaps = 26/164 (15%)

Query: 381 LLSLPSSLGLLTNLQTLCLYYCKLQ---DTSVLGELKILEILRLRVNELTR-----AGSS 432
           L     +      L T+ L + KL    D      L  L  + +  N  +        SS
Sbjct: 717 LKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSS 776

Query: 433 QLKHLSVRGLRASAPNPTESEVA-----LPKLETVCLSSINIERIWQNQVAAMSCGIQNL 487
           QLK   +R  R +  N    +        P L  + + S +I ++ +            L
Sbjct: 777 QLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVDEK-------LTPQL 829

Query: 488 KRLILFNCWNLT------CLFTSSIISSFVGLQCLEICECPVLK 525
             L + +  N++      C +  + +   +  +  +I  C  L 
Sbjct: 830 YILDIADNPNISIDVTSVCPYIEAGMYVLLYDKTQDIRGCDALG 873

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 56.5 bits (137), Expect = 1e-08
 Identities = 26/149 (17%), Positives = 53/149 (35%), Gaps = 19/149 (12%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----A 429
           +       +     +  L NL  +     +L D + L  L  L  + +  N++      A
Sbjct: 51  LQADR-LGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITPLA 109

Query: 430 GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKR 489
             + L  L++   + +  +P ++   L  L  + LSS  I  I           +  L  
Sbjct: 110 NLTNLTGLTLFNNQITDIDPLKN---LTNLNRLELSSNTISDI---------SALSGLTS 157

Query: 490 LILFNCWNLTCLFTSSIISSFVGLQCLEI 518
           L   +  N   +     +++   L+ L+I
Sbjct: 158 LQQLSFGN--QVTDLKPLANLTTLERLDI 184

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 49.6 bits (119), Expect = 2e-06
 Identities = 36/157 (22%), Positives = 63/157 (40%), Gaps = 18/157 (11%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQLK 435
           N ++    L  LT L+ L +   K+ D SVL +L  LE L    N+++        + L 
Sbjct: 165 NQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGILTNLD 224

Query: 436 HLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC 495
            LS+ G +        S   L  L  + L++        NQ++ ++  +  L +L     
Sbjct: 225 ELSLNGNQLKDIGTLAS---LTNLTDLDLAN--------NQISNLA-PLSGLTKLTELKL 272

Query: 496 WNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVIDQ 532
                +   S ++    L  LE+ E   L++I  I  
Sbjct: 273 GA-NQISNISPLAGLTALTNLELNENQ-LEDISPISN 307

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 48.0 bits (115), Expect = 5e-06
 Identities = 22/97 (22%), Positives = 38/97 (39%), Gaps = 7/97 (7%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQLK 435
           N L   S +  L NL  L LY+  + D S +  L  L+ L    N+++     A  + + 
Sbjct: 297 NQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDVSSLANLTNIN 356

Query: 436 HLSVRGLRASAPNPTESEVALPKLETVCLSSINIERI 472
            LS    + S   P  +   L ++  + L+       
Sbjct: 357 WLSAGHNQISDLTPLAN---LTRITQLGLNDQAWTNA 390

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 48.0 bits (115), Expect = 5e-06
 Identities = 27/143 (18%), Positives = 52/143 (36%), Gaps = 18/143 (12%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQLK 435
           N +S  S L  LT L  L L   +L+D S +  LK L  L L  N ++     +  ++L+
Sbjct: 275 NQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQ 334

Query: 436 HLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC 495
            L     + S  +   +   L  +  +      I  +           + NL R+     
Sbjct: 335 RLFFYNNKVSDVSSLAN---LTNINWLSAGHNQISDLT---------PLANLTRITQLGL 382

Query: 496 WNLTCLFTSSIISSFVGLQCLEI 518
            +    +T++ ++    +     
Sbjct: 383 ND--QAWTNAPVNYKANVSIPNT 403

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 41.1 bits (97), Expect = 7e-04
 Identities = 20/143 (13%), Positives = 45/143 (31%), Gaps = 17/143 (11%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQLK 435
             ++   +   L       L    + DT    +L  +  L+     +         + L 
Sbjct: 12  TPINQIFTDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLT 71

Query: 436 HLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC 495
            ++    + +   P ++   L KL  + +++  I  I           + NL  L     
Sbjct: 72  QINFSNNQLTDITPLKN---LTKLVDILMNNNQIADI---------TPLANLTNLTGLTL 119

Query: 496 WNLTCLFTSSIISSFVGLQCLEI 518
           +N   +     + +   L  LE+
Sbjct: 120 FN-NQITDIDPLKNLTNLNRLEL 141

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 55.4 bits (134), Expect = 3e-08
 Identities = 28/164 (17%), Positives = 50/164 (30%), Gaps = 29/164 (17%)

Query: 373 VIDLTYMNLLSL--PSSLGLLTNLQTLCLYYCKLQDT-SVLGELKILEILRLRVNELTR- 428
           +I + Y NL +    +SL  +  L  L   Y +L+      G    L  L L  N++T  
Sbjct: 309 IIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEI 368

Query: 429 -----AGSSQLKHLSVRGLRASAPN-----PTESEVA-LPKLETVCLSSINIERIWQNQV 477
                  + Q+++LS         N     P   +   +  +  +  S   I  +     
Sbjct: 369 PANFCGFTEQVENLSFAH------NKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNF 422

Query: 478 AAMS---CGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
             +        N+  + L N        +      F     L  
Sbjct: 423 DPLDPTPFKGINVSSINLSN-----NQISKFPKELFSTGSPLSS 461

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 48.1 bits (115), Expect = 5e-06
 Identities = 22/163 (13%), Positives = 42/163 (25%), Gaps = 26/163 (15%)

Query: 372 VVIDLTYMNLL-SLPSSLGLLTNLQTLCLYYCKL---QDTSVLGELKILEILRLR----- 422
             + L        +P ++G LT L+ L L        +       +        +     
Sbjct: 84  TGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRM 143

Query: 423 ------VNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQ 476
                 V+   R   S L    +            S +   K   +   S NI  + +  
Sbjct: 144 HYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRI-TLKDTQIGQLSNNITFVSKA- 201

Query: 477 VAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC 519
                  +  L++  + N       F +  I      +  E  
Sbjct: 202 ----VMRLTKLRQFYMGN-----SPFVAENICEAWENENSEYA 235

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 47.7 bits (114), Expect = 7e-06
 Identities = 20/155 (12%), Positives = 51/155 (32%), Gaps = 14/155 (9%)

Query: 372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILR-LRVNELTR 428
             I     N+  +  ++  LT L+   +              E +  E  +  +  +L  
Sbjct: 186 TQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKW 245

Query: 429 AGSSQLKHLSVRGLRASAPNPTESEVA-LPKLETVCLSSINIERIWQNQVA----AMSCG 483
                L  + V         P  + +  LP+++ + ++        Q +      A +  
Sbjct: 246 DNLKDLTDVEVYNCPNLTKLP--TFLKALPEMQLINVACNRGISGEQLKDDWQALADAPV 303

Query: 484 IQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
            + ++ + +    NL    T  + +S   ++ L +
Sbjct: 304 GEKIQIIYIGYN-NLK---TFPVETSLQKMKKLGM 334

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 53.9 bits (130), Expect = 8e-08
 Identities = 29/153 (18%), Positives = 53/153 (34%), Gaps = 15/153 (9%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ---DTSVLGELKILEILRLRVNELTR- 428
            +DL++   + + ++   L  LQ L   +  L+   + S    L+ L  L +        
Sbjct: 380 HLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKID 439

Query: 429 -----AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCG 483
                 G + L  L + G        +        L  + LS   +E+I       +   
Sbjct: 440 FDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQI----SWGVFDT 495

Query: 484 IQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL 516
           +  L+ L + +  NL  L  SS  +    L  L
Sbjct: 496 LHRLQLLNMSHN-NLLFL-DSSHYNQLYSLSTL 526

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 50.8 bits (122), Expect = 7e-07
 Identities = 27/154 (17%), Positives = 50/154 (32%), Gaps = 20/154 (12%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELT----- 427
            + +    L   P+    L  L++L L   K   +     L  L  L L  N L+     
Sbjct: 311 SLSIIRCQLKQFPTLD--LPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCC 368

Query: 428 ---RAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGI 484
                G++ L+HL +    A   +       L +L+ +      ++R+ +         +
Sbjct: 369 SYSDLGTNSLRHLDLSFNGAIIMSANFMG--LEELQHLDFQHSTLKRVTEFSA---FLSL 423

Query: 485 QNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
           + L  L +                 F+GL  L  
Sbjct: 424 EKLLYLDISYTN-----TKIDFDGIFLGLTSLNT 452

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 46.9 bits (112), Expect = 1e-05
 Identities = 29/155 (18%), Positives = 54/155 (34%), Gaps = 22/155 (14%)

Query: 373 VIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR- 428
            IDL++  L  L   S    + LQ L L  C+++  +      L  L  L L  N +   
Sbjct: 36  NIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSF 95

Query: 429 -----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
                +G + L++L      L +    P      L  L+ + ++   I      ++ A  
Sbjct: 96  SPGSFSGLTSLENLVAVETKLASLESFPIGQ---LITLKKLNVAHNFIHSC---KLPAYF 149

Query: 482 CGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL 516
             + NL  + L           +  ++    L+  
Sbjct: 150 SNLTNLVHVDLSY-----NYIQTITVNDLQFLREN 179

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 45.0 bits (107), Expect = 5e-05
 Identities = 27/140 (19%), Positives = 45/140 (32%), Gaps = 14/140 (10%)

Query: 373 VIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR- 428
            +DL+   + ++   +   L +L  L L    +Q         L  LE L     +L   
Sbjct: 60  WLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASL 119

Query: 429 -----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
                     LK L+V    + +       S   L  L  V LS   I+ I  N +  + 
Sbjct: 120 ESFPIGQLITLKKLNVAHNFIHSCKLPAYFSN--LTNLVHVDLSYNYIQTITVNDLQFLR 177

Query: 482 CGIQNLKRLILFNCWNLTCL 501
              Q    L +     +  +
Sbjct: 178 ENPQVNLSLDMSLN-PIDFI 196

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 44.6 bits (106), Expect = 7e-05
 Identities = 37/228 (16%), Positives = 72/228 (31%), Gaps = 27/228 (11%)

Query: 304 SSTNFKDIQPTAYKA-----IELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGM---- 354
           S      IQ  A++      + L       + +K     +    +  +            
Sbjct: 189 SLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLE 248

Query: 355 --GLGLFQGIKRMEVARARVVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQ---DTS 408
                + +G+  + +        LTY N  S        L N+  + L    ++   D  
Sbjct: 249 IFEPSIMEGLCDVTI----DEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVP 304

Query: 409 VLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSIN 468
              + + L I+R ++ +        LK L++   + S       +VALP L  + LS   
Sbjct: 305 KHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMNKGSIS---FKKVALPSLSYLDLSRNA 361

Query: 469 IERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL 516
           +        + +     +L+ L L        +  S+       LQ L
Sbjct: 362 LSFSGCCSYSDLGT--NSLRHLDLSFN-GAIIM--SANFMGLEELQHL 404

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 44.3 bits (105), Expect = 9e-05
 Identities = 22/155 (14%), Positives = 52/155 (33%), Gaps = 20/155 (12%)

Query: 372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR- 428
           +        L  +P    + ++ + + L +  L+   +        L+ L L   E+   
Sbjct: 14  ITYQCMDQKLSKVPD--DIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETI 71

Query: 429 -----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
                 G   L +L + G  +++ +P    S   L  LE +      +  +     +   
Sbjct: 72  EDKAWHGLHHLSNLILTGNPIQSFSP---GSFSGLTSLENLVAVETKLASL----ESFPI 124

Query: 482 CGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL 516
             +  LK+L + +   +      +  S+   L  +
Sbjct: 125 GQLITLKKLNVAHN-FIHSCKLPAYFSNLTNLVHV 158

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 52.5 bits (127), Expect = 1e-07
 Identities = 27/149 (18%), Positives = 56/149 (37%), Gaps = 17/149 (11%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----A 429
           + +    + S+   +  LTNL+ L L   ++ D S L  L  L  L +  N++T      
Sbjct: 49  LVVAGEKVASIQG-IEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDISALQ 107

Query: 430 GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKR 489
             + L+ L +     S  +P  +   L K+ ++ L + +               +  L  
Sbjct: 108 NLTNLRELYLNEDNISDISPLAN---LTKMYSLNLGANHNLSDLSP-----LSNMTGLNY 159

Query: 490 LILFNCWNLTCLFTSSIISSFVGLQCLEI 518
           L +     +  +   + I++   L  L +
Sbjct: 160 LTVTES-KVKDV---TPIANLTDLYSLSL 184

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 52.2 bits (126), Expect = 2e-07
 Identities = 30/146 (20%), Positives = 53/146 (36%), Gaps = 25/146 (17%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR-----AGSSQL 434
           N ++  S+L  LTNL+ L L    + D S L  L  +  L L  N         +  + L
Sbjct: 98  NKITDISALQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGL 157

Query: 435 KHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS--CGIQNLKRLIL 492
            +L+V   +     P  +   L  L ++ L+         NQ+  +S    + +L     
Sbjct: 158 NYLTVTESKVKDVTPIAN---LTDLYSLSLNY--------NQIEDISPLASLTSLHYFTA 206

Query: 493 FNCWNLTCLFTSSIISSFVGLQCLEI 518
           +    +T       I+    +  L  
Sbjct: 207 YVN-QIT------DITPVANMTRLNS 225

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 52.2 bits (126), Expect = 2e-07
 Identities = 31/181 (17%), Positives = 65/181 (35%), Gaps = 42/181 (23%)

Query: 375 DLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AG 430
           +L   + LS  S L  +T L  L +   K++D + +  L  L  L L  N++      A 
Sbjct: 138 NLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLAS 197

Query: 431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERI--------------WQNQ 476
            + L + +    + +   P  +   + +L ++ + +  I  +                NQ
Sbjct: 198 LTSLHYFTAYVNQITDITPVAN---MTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQ 254

Query: 477 VAAMSCGIQNLKRL--------------ILFNCWNLTCL------FTSSIISSFVGLQCL 516
           ++ ++  +++L +L              +L N   L  L        +  +    GL  L
Sbjct: 255 ISDIN-AVKDLTKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNL 313

Query: 517 E 517
            
Sbjct: 314 T 314

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 49.1 bits (118), Expect = 2e-06
 Identities = 25/144 (17%), Positives = 51/144 (35%), Gaps = 19/144 (13%)

Query: 378 YMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQ 433
               ++   +   L ++  L +   K+     +  L  LE L L  N++T     +   +
Sbjct: 30  QKASVTDVVTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISPLSNLVK 89

Query: 434 LKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILF 493
           L +L +   + +  +  ++   L  L  + L+  NI  I      +    +  +  L L 
Sbjct: 90  LTNLYIGTNKITDISALQN---LTNLRELYLNEDNISDI------SPLANLTKMYSLNLG 140

Query: 494 NCWNLTCLFTSSIISSFVGLQCLE 517
              NL      S +S    +  L 
Sbjct: 141 ANHNL------SDLSPLSNMTGLN 158

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 48.7 bits (117), Expect = 3e-06
 Identities = 24/151 (15%), Positives = 56/151 (37%), Gaps = 17/151 (11%)

Query: 386 SSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQLKHLSVRG 441
                L       L    + D     EL+ +  L +   ++         + L++L++ G
Sbjct: 16  FPDADLAEGIRAVLQKASVTDVVTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNG 75

Query: 442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCL 501
            + +  +P  +   L KL  + + +  I  I     +A+   + NL+ L L    N++  
Sbjct: 76  NQITDISPLSN---LVKLTNLYIGTNKITDI-----SALQ-NLTNLRELYLNED-NIS-- 123

Query: 502 FTSSIISSFVGLQCLEICECPVLKEIIVIDQ 532
              S +++   +  L +     L ++  +  
Sbjct: 124 -DISPLANLTKMYSLNLGANHNLSDLSPLSN 153

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 52.7 bits (127), Expect = 2e-07
 Identities = 33/159 (20%), Positives = 51/159 (32%), Gaps = 20/159 (12%)

Query: 373 VIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQDTS----VLGELKILEILRLRVNELT 427
            +DL++  L S    +   L NLQ L L   K+Q        +     L+ L L  N++ 
Sbjct: 125 TLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIK 184

Query: 428 R------AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAA 479
                      +L  L +    L  S       E+A   +  + LS+  +     +    
Sbjct: 185 EFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTT--SNTTF 242

Query: 480 MSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
           +     NL  L L                SF  L  LE 
Sbjct: 243 LGLKWTNLTMLDLSY-----NNLNVVGNDSFAWLPQLEY 276

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 51.5 bits (124), Expect = 5e-07
 Identities = 32/157 (20%), Positives = 60/157 (38%), Gaps = 26/157 (16%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTR-- 428
           V D +++ L  +P    L TN+  L L + +L+    +       L  L +  N +++  
Sbjct: 8   VADCSHLKLTQVPD--DLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLE 65

Query: 429 ----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSC 482
                    LK L+++   L   +     +      L  + L S +I++I  N       
Sbjct: 66  PELCQKLPMLKVLNLQHNELSQLSDK---TFAFCTNLTELHLMSNSIQKIKNNPFVKQK- 121

Query: 483 GIQNLKRLIL-FNCWNLTCLFTSSIISSFVGLQCLEI 518
              NL  L L  N        +S+ + + V L+ L+ 
Sbjct: 122 ---NLITLDLSHNG------LSSTKLGTQVQLENLQE 149

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 50.4 bits (121), Expect = 1e-06
 Identities = 29/140 (20%), Positives = 59/140 (42%), Gaps = 19/140 (13%)

Query: 373 VIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR- 428
           V++LT+  L  L  ++    + L +L + +  +   +  +  +L +L++L L+ NEL++ 
Sbjct: 29  VLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQL 88

Query: 429 -----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
                A  + L  L +    ++    NP         L T+ LS   +            
Sbjct: 89  SDKTFAFCTNLTELHLMSNSIQKIKNNPFVK---QKNLITLDLSHNGLSST----KLGTQ 141

Query: 482 CGIQNLKRLILFNCWNLTCL 501
             ++NL+ L+L N   +  L
Sbjct: 142 VQLENLQELLLSNN-KIQAL 160

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 49.6 bits (119), Expect = 2e-06
 Identities = 34/167 (20%), Positives = 53/167 (31%), Gaps = 32/167 (19%)

Query: 373 VIDLTYMNLLSL--PSSLGLLTNLQTLCLYYCKLQDTS--VLGELKILEILRLRVNELTR 428
           V+DL    +           L N+  + L Y K    +      +  L+ L LR   L  
Sbjct: 409 VLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKN 468

Query: 429 AGS--------SQLKHLSVRGLRASAPN-----PTESEVALPKLETVCLSSINIERIWQN 475
             S          L  L +        N       +    L KLE + L   N+ R+W++
Sbjct: 469 VDSSPSPFQPLRNLTILDLSN------NNIANINDDMLEGLEKLEILDLQHNNLARLWKH 522

Query: 476 QVAAMSC----GIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
                      G+ +L  L L +       F    +  F  L  L+I
Sbjct: 523 ANPGGPIYFLKGLSHLHILNLES-----NGFDEIPVEVFKDLFELKI 564

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 48.5 bits (116), Expect = 5e-06
 Identities = 48/242 (19%), Positives = 82/242 (33%), Gaps = 39/242 (16%)

Query: 304 SSTNFKDIQPTAYKA------IELSYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMGL- 356
           SS   K+  P  + A      + L+ V+L     + + L +  T   SI +L +    L 
Sbjct: 179 SSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANT---SIRNLSLSNSQLS 235

Query: 357 ----GLFQGIKRMEVARARVVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQ--DTSV 409
                 F G+K   +     ++DL+Y NL  +   S   L  L+   L Y  +Q   +  
Sbjct: 236 TTSNTTFLGLKWTNL----TMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHS 291

Query: 410 LGELKILEILRLRVNELTRAGS---------------SQLKHLSVRGLRASAPNPTESEV 454
           L  L  +  L L+ +   ++ S                 L+HL++               
Sbjct: 292 LHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKS-NMFT 350

Query: 455 ALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQ 514
            L  L+ + LS+             +S     L  L L     ++    S   S    L+
Sbjct: 351 GLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKN-KIS-KIESDAFSWLGHLE 408

Query: 515 CL 516
            L
Sbjct: 409 VL 410

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 47.3 bits (113), Expect = 1e-05
 Identities = 26/158 (16%), Positives = 50/158 (31%), Gaps = 21/158 (13%)

Query: 372 VVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTR 428
             +D+ +  +  L P     L  L+ L L + +L             L  L L  N + +
Sbjct: 52  TSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQK 111

Query: 429 ------AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAM 480
                      L  L +    L ++          L  L+ + LS+  I+ +   ++   
Sbjct: 112 IKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQ---LENLQELLLSNNKIQALKSEELDIF 168

Query: 481 SCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
           +    +LK+L L +               F  +  L  
Sbjct: 169 AN--SSLKKLELSS-----NQIKEFSPGCFHAIGRLFG 199

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 45.4 bits (108), Expect = 4e-05
 Identities = 33/161 (20%), Positives = 61/161 (37%), Gaps = 20/161 (12%)

Query: 373 VIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQDT---SVLGELKILEILRLRVNELTR 428
           +++LT   +  +   +   L +L+ L L   ++           L+ +  + L  N+  +
Sbjct: 385 ILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQ 444

Query: 429 ------AGSSQLKHLSVRGLRASAPNPTESEVA-LPKLETVCLSSINIERIWQNQVAAMS 481
                 A    L+ L +R +     + + S    L  L  + LS+ NI  I  + +    
Sbjct: 445 LTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDML---- 500

Query: 482 CGIQNLKRLILFNCWNLTCL----FTSSIISSFVGLQCLEI 518
            G++ L+ L L +  NL  L         I    GL  L I
Sbjct: 501 EGLEKLEILDLQHN-NLARLWKHANPGGPIYFLKGLSHLHI 540

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 41.5 bits (98), Expect = 6e-04
 Identities = 39/169 (23%), Positives = 62/169 (36%), Gaps = 30/169 (17%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR--------- 428
           N+ S PS    L NL  L L    +   +  +L  L+ LEIL L+ N L R         
Sbjct: 468 NVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGG 527

Query: 429 -----AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCG 483
                 G S L  L++             +  L +L+ + L   N+  +     A++   
Sbjct: 528 PIYFLKGLSHLHILNLESNGFDEIPVEVFK-DLFELKIIDLGLNNLNTL----PASVFNN 582

Query: 484 IQNLKRLIL-FNCWNLTCLFTSSIISSFVGLQCLEI------CECPVLK 525
             +LK L L  N   +T +       +F  L  L++      C C  + 
Sbjct: 583 QVSLKSLNLQKN--LITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIA 629

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 52.4 bits (126), Expect = 2e-07
 Identities = 31/157 (19%), Positives = 57/157 (36%), Gaps = 19/157 (12%)

Query: 373 VIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR- 428
            +DL++  L  L S S      LQ L L  C++Q  +      L  L  L L  N +   
Sbjct: 32  NLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSL 91

Query: 429 -----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
                +G S L+ L      L +    P      L  L+ + ++   I+     ++    
Sbjct: 92  ALGAFSGLSSLQKLVAVETNLASLENFPIGH---LKTLKELNVAHNLIQSF---KLPEYF 145

Query: 482 CGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
             + NL+ L L +   +  +   + +     +  L +
Sbjct: 146 SNLTNLEHLDLSSN-KIQSI-YCTDLRVLHQMPLLNL 180

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 49.7 bits (119), Expect = 2e-06
 Identities = 32/168 (19%), Positives = 59/168 (35%), Gaps = 27/168 (16%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ---DTSVLGELKILEILRLRVNELTR- 428
            +DL++  ++++ S+   L  L+ L   +  L+   + SV   L+ L  L +        
Sbjct: 377 YLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 436

Query: 429 -----AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCG 483
                 G S L+ L + G         +    L  L  + LS   +E++           
Sbjct: 437 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPT----AFNS 492

Query: 484 IQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI---------CECP 522
           + +L+ L + +  N      S     F  L  L+          C CP
Sbjct: 493 LSSLQVLNMAS--N---QLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP 535

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 47.0 bits (112), Expect = 1e-05
 Identities = 44/231 (19%), Positives = 78/231 (33%), Gaps = 31/231 (13%)

Query: 304 SSTNFKDIQPTAYKAIEL-----SYVKLDGDELKNIFLLIGYTAIASIDDLLMYGMG--- 355
           S      IQP A+K I L            + +K     +    +  +        G   
Sbjct: 185 SLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLE 244

Query: 356 ---LGLFQGIKRMEVARARVVIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQ---DT 407
                  +G+  + +        L Y++     +      LTN+ +  L    ++   D 
Sbjct: 245 KFDKSALEGLCNLTIEE----FRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDF 300

Query: 408 SVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSI 467
           S     + LE++  +  +        LK L+    +        SEV LP LE + LS  
Sbjct: 301 SYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAF---SEVDLPSLEFLDLSRN 357

Query: 468 NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
            +        +    G  +LK L L     +      ++ S+F+GL+ LE 
Sbjct: 358 GLSFK--GCCSQSDFGTTSLKYLDLSFN-GVI-----TMSSNFLGLEQLEH 400

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 41.2 bits (97), Expect = 7e-04
 Identities = 33/161 (20%), Positives = 56/161 (34%), Gaps = 19/161 (11%)

Query: 373 VIDLTYMNL--LSLPSSLGLLTNLQTLCLYYCKLQ-----DTSVLGELKILEI-LRLRVN 424
            +++ +  +    LP     LTNL+ L L   K+Q     D  VL ++ +L + L L +N
Sbjct: 128 ELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLN 187

Query: 425 ELTRAGSS-----QLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAA 479
            +           +L  L++R    S          L  LE   L         +  +  
Sbjct: 188 PMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRN--EGNLEK 245

Query: 480 MSCGI-QNLKRLILFNCWNLTCL--FTSSIISSFVGLQCLE 517
                 + L  L +   + L  L  +   II  F  L  + 
Sbjct: 246 FDKSALEGLCNLTIEE-FRLAYLDYYLDDIIDLFNCLTNVS 285

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 50.2 bits (120), Expect = 1e-06
 Identities = 27/163 (16%), Positives = 51/163 (31%), Gaps = 7/163 (4%)

Query: 375 DLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ---DTSVLGELKILEILRLRVNELTRAGS 431
           DL++  L+ +        NL+ L L +            G +  L+ L L    L ++  
Sbjct: 75  DLSHNKLVKISC--HPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSV 132

Query: 432 SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAA-MSCGIQNLKRL 490
             + HL++  +          +     L+     S++I      +    +   ++ +  L
Sbjct: 133 LPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANL 192

Query: 491 ILFN-CWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVIDQ 532
            L N    L     S  +S    LQ         L  I     
Sbjct: 193 ELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWN 235

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 50.4 bits (121), Expect = 1e-06
 Identities = 30/157 (19%), Positives = 49/157 (31%), Gaps = 17/157 (10%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR-- 428
            +DLT  +L  LPS L  L+ L+ L L   K +            L  L ++ N      
Sbjct: 282 ELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLEL 341

Query: 429 -----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
                     L+ L +    +  S     +    L  L+++ LS      +         
Sbjct: 342 GTGCLENLENLRELDLSHDDIETSDCCNLQLR-NLSHLQSLNLSYNEPLSLKTEAFK--- 397

Query: 482 CGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
                L+ L L     L      S   +   L+ L +
Sbjct: 398 -ECPQLELLDLAFT-RLKVKDAQSPFQNLHLLKVLNL 432

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 47.7 bits (114), Expect = 7e-06
 Identities = 32/157 (20%), Positives = 55/157 (35%), Gaps = 20/157 (12%)

Query: 373 VIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR- 428
            ++ ++  L ++  ++   L NL  L L  C++             L+ L L  N L   
Sbjct: 37  CLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFM 96

Query: 429 -----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
                +G   LKHL      + +    P  +      LE++ L S +I  I         
Sbjct: 97  AETALSGPKALKHLFFIQTGISSIDFIPLHN---QKTLESLYLGSNHISSI----KLPKG 149

Query: 482 CGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
              + LK L   N   +  L +   +SS      L +
Sbjct: 150 FPTEKLKVLDFQNN-AIHYL-SKEDMSSLQQATNLSL 184

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 46.5 bits (111), Expect = 2e-05
 Identities = 22/157 (14%), Positives = 42/157 (26%), Gaps = 26/157 (16%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR-- 428
             +   + L  +P    L  + + L   +  L     +    L  L  L L   ++    
Sbjct: 16  TYNCENLGLNEIPG--TLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIH 73

Query: 429 ----AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSC 482
                   +L  L +    L   A            L+ +      I  I    +     
Sbjct: 74  EDTFQSQHRLDTLVLTANPLIFMAETALSG---PKALKHLFFIQTGISSIDFIPLHNQK- 129

Query: 483 GIQNLKRLIL-FNCWNLTCLFTSSIISSFVGLQCLEI 518
               L+ L L  N        +S  +      + L++
Sbjct: 130 ---TLESLYLGSN------HISSIKLPKGFPTEKLKV 157

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 50.0 bits (120), Expect = 1e-06
 Identities = 22/163 (13%), Positives = 49/163 (30%), Gaps = 34/163 (20%)

Query: 375 DLTYMNLLSLPSSLG-----------------LLTNLQTLCLYYCKLQDTSVLGELKILE 417
             +  +L  LP                     L   L+ L +   +L+    L     L+
Sbjct: 97  VASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLK 156

Query: 418 ILRLRVNELTR--AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQN 475
           I+ +  N L +       L+ ++    +       ++   LP L  +   +        N
Sbjct: 157 IIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQN---LPFLTAIYADN--------N 205

Query: 476 QVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
            +  +     +L+ ++  N   L  L     + +   L  +  
Sbjct: 206 SLKKLPDLPLSLESIVAGNN-ILEEL---PELQNLPFLTTIYA 244

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 47.7 bits (114), Expect = 6e-06
 Identities = 28/186 (15%), Positives = 56/186 (30%), Gaps = 45/186 (24%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRAGS 431
            ++L  + L SLP       +L++L      L +   +   LK L +    +  L+    
Sbjct: 75  ELELNNLGLSSLPELPP---HLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPP 131

Query: 432 SQLKHLSVRGLR-ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRL 490
             L++L V   +    P           L+ + + +        N +  +     +L+ +
Sbjct: 132 L-LEYLGVSNNQLEKLPELQN----SSFLKIIDVDN--------NSLKKLPDLPPSLEFI 178

Query: 491 ILFNC--------WNLTCLFT--------SSIISSFVGLQCL-----------EICECPV 523
              N          NL  L            +    + L+ +           E+   P 
Sbjct: 179 AAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPF 238

Query: 524 LKEIIV 529
           L  I  
Sbjct: 239 LTTIYA 244

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 44.2 bits (105), Expect = 7e-05
 Identities = 21/116 (18%), Positives = 41/116 (35%), Gaps = 18/116 (15%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHLSV 439
           NL  +P     + +       + + +  +  G     E   + V+ L      Q   L +
Sbjct: 22  NLTEMPVEAENVKSKTEYYNAWSEWERNAPPG---NGEQREMAVSRLRDCLDRQAHELEL 78

Query: 440 RGLR-ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFN 494
             L  +S P         P LE++  S  ++  + +          Q+LK L++ N
Sbjct: 79  NNLGLSSLPE------LPPHLESLVASCNSLTELPEL--------PQSLKSLLVDN 120

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 43.4 bits (103), Expect = 1e-04
 Identities = 25/151 (16%), Positives = 44/151 (29%), Gaps = 24/151 (15%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR--AG 430
            I     +L  LP       +L+++      L++   L  L  L  +    N L      
Sbjct: 199 AIYADNNSLKKLPDLPL---SLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDL 255

Query: 431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRL 490
              L+ L+VR         T+       L  + +S      +        S    NL  L
Sbjct: 256 PPSLEALNVRDNYL-----TDLPELPQSLTFLDVSENIFSGL--------SELPPNLYYL 302

Query: 491 ILFNCWNLTCLFTSSIISSFVGLQCLEICEC 521
              +   +      S+      L+ L +   
Sbjct: 303 NASSN-EIR-----SLCDLPPSLEELNVSNN 327

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 50.2 bits (120), Expect = 1e-06
 Identities = 26/150 (17%), Positives = 55/150 (36%), Gaps = 11/150 (7%)

Query: 373 VIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELT--RA 429
            IDL   ++  +   +   L  LQTL L    L     +  +  +  + L  N+L     
Sbjct: 342 YIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTT---IHFIPSIPDIFLSGNKLVTLPK 398

Query: 430 GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKR 489
            +     + +   R    +     + +P L+ + L+         +Q  + +    +L++
Sbjct: 399 INLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSEN---PSLEQ 455

Query: 490 LILFNCWNLTCLFTSSI-ISSFVGLQCLEI 518
           L L     L   + + +    F GL  L++
Sbjct: 456 LFLGEN-MLQLAWETELCWDVFEGLSHLQV 484

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 41.7 bits (98), Expect = 5e-04
 Identities = 25/147 (17%), Positives = 49/147 (33%), Gaps = 16/147 (10%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----- 428
           I L+   L++LP        +         L     L  +  L+IL L  N  +      
Sbjct: 386 IFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQ 445

Query: 429 --AGSSQLKHLSVRGLRASAPNPTESEVA----LPKLETVCLSSINIERIWQNQVAAMSC 482
             + +  L+ L +          TE        L  L+ + L+   +  +       +  
Sbjct: 446 TPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPG----VFS 501

Query: 483 GIQNLKRLILFNCWNLTCLFTSSIISS 509
            +  L+ L L +   LT L  + + ++
Sbjct: 502 HLTALRGLSLNSN-RLTVLSHNDLPAN 527

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 41.7 bits (98), Expect = 5e-04
 Identities = 27/148 (18%), Positives = 46/148 (31%), Gaps = 30/148 (20%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTRAG 430
           +    + NL  +P  L      + L L +  ++    S    L+ L++L L         
Sbjct: 8   IAFYRFCNLTQVPQVL---NTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPL-- 62

Query: 431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRL 490
              +   + R L              P L  + L S  I  +          G+ +L  L
Sbjct: 63  --TIDKEAFRNL--------------PNLRILDLGSSKIYFL----HPDAFQGLFHLFEL 102

Query: 491 ILFNCWNLTCLFTSSIISSFVGLQCLEI 518
            L+ C  L+          F  L+ L  
Sbjct: 103 RLYFC-GLSDAVLKD--GYFRNLKALTR 127

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 41.7 bits (98), Expect = 6e-04
 Identities = 29/186 (15%), Positives = 56/186 (30%), Gaps = 22/186 (11%)

Query: 357 GLFQGIKRMEVARARVVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQDTSV----LG 411
             F+ +  + +      +DL    +  L       L +L  L LY+C L D  +      
Sbjct: 67  EAFRNLPNLRI------LDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFR 120

Query: 412 ELKILEILRLRVNELTR-------AGSSQLKHLSVRGLRASAPNPTE-SEVALPKLETVC 463
            LK L  L L  N++            + LK +     +       E   +    L    
Sbjct: 121 NLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFS 180

Query: 464 LSSINIERIWQNQVAAMSCGIQN--LKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC 521
           L++ ++               +N  L+ L +      T   T +  ++    Q   +   
Sbjct: 181 LAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGN-GWTVDITGNFSNAISKSQAFSLILA 239

Query: 522 PVLKEI 527
             +   
Sbjct: 240 HHIMGA 245

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 25/158 (15%), Positives = 60/158 (37%), Gaps = 15/158 (9%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSS 432
             +    N+ SL + +   TNL+ L L + ++ D S L +L  LE L +  N L     +
Sbjct: 45  NFNGDNSNIQSL-AGMQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRNRLKNL--N 101

Query: 433 QLKHLSVRGLRASAPNPTESEV--ALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRL 490
            +    +  L        +++    L  LE + + +  ++ I           +  L +L
Sbjct: 102 GIPSACLSRLFLDNNELRDTDSLIHLKNLEILSIRNNKLKSI---------VMLGFLSKL 152

Query: 491 ILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEII 528
            + +      +  +  ++    +  +++     + E +
Sbjct: 153 EVLDLHG-NEITNTGGLTRLKKVNWIDLTGQKCVNEPV 189

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 40.4 bits (95), Expect = 8e-04
 Identities = 26/158 (16%), Positives = 48/158 (30%), Gaps = 32/158 (20%)

Query: 378 YMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQ 433
               ++   S   L+ +Q        +Q  + +     L+ L L  N+++        ++
Sbjct: 27  GKQSVTDLVSQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSPLKDLTK 86

Query: 434 LKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRL--- 490
           L+ LSV   R    N          L  + L +  +              + +LK L   
Sbjct: 87  LEELSVNRNRLKNLNGIP----SACLSRLFLDNNELRDT---------DSLIHLKNLEIL 133

Query: 491 -----------ILFNCWNLTCLFTSS-IISSFVGLQCL 516
                      +L     L  L      I++  GL  L
Sbjct: 134 SIRNNKLKSIVMLGFLSKLEVLDLHGNEITNTGGLTRL 171

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 47.6 bits (114), Expect = 2e-06
 Identities = 22/150 (14%), Positives = 48/150 (32%), Gaps = 27/150 (18%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQ 433
           I L  +N+  L + +    N++ L +      + + +  L  LE LR+   ++T      
Sbjct: 49  ITLANINVTDL-TGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPN 107

Query: 434 LKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILF 493
           L                     L  L  + +S    +     ++  +      +  + L 
Sbjct: 108 LSG-------------------LTSLTLLDISHSAHDDSILTKINTLP----KVNSIDLS 144

Query: 494 NCWNLTCLFTSSIISSFVGLQCLEICECPV 523
               +T +     + +   L+ L I    V
Sbjct: 145 YNGAITDI---MPLKTLPELKSLNIQFDGV 171

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 42.3 bits (100), Expect = 1e-04
 Identities = 11/54 (20%), Positives = 22/54 (40%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELT 427
           IDL+Y   ++    L  L  L++L + +  + D   + +   L  L      + 
Sbjct: 141 IDLSYNGAITDIMPLKTLPELKSLNIQFDGVHDYRGIEDFPKLNQLYAFSQTIG 194

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 49.5 bits (118), Expect = 2e-06
 Identities = 30/156 (19%), Positives = 53/156 (33%), Gaps = 26/156 (16%)

Query: 362 IKRMEVARAR--VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEIL 419
           +++M         V+++    L +LP  L    ++ TL +    L  TS+      L  L
Sbjct: 31  VQKMRACLNNGNAVLNVGESGLTTLPDCLP--AHITTLVIPDNNL--TSLPALPPELRTL 86

Query: 420 RLRVNELTR--AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERI----- 472
            +  N+LT        L  LS+          T        L  + +    +  +     
Sbjct: 87  EVSGNQLTSLPVLPPGLLELSIFSNPL-----THLPALPSGLCKLWIFGNQLTSLPVLPP 141

Query: 473 -------WQNQVAAMSCGIQNLKRLILFNCWNLTCL 501
                    NQ+A++      L +L  +N   LT L
Sbjct: 142 GLQELSVSDNQLASLPALPSELCKLWAYNN-QLTSL 176

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 44.5 bits (105), Expect = 7e-05
 Identities = 29/147 (19%), Positives = 48/147 (32%), Gaps = 31/147 (21%)

Query: 372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD---------------TSVLGELKIL 416
             ++++   L SLP     L  L         L                 TS+      L
Sbjct: 84  RTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGL 143

Query: 417 EILRLRVNELTR--AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQ 474
           + L +  N+L    A  S+L  L     +      T   +    L+ + +S         
Sbjct: 144 QELSVSDNQLASLPALPSELCKLWAYNNQ-----LTSLPMLPSGLQELSVSD-------- 190

Query: 475 NQVAAMSCGIQNLKRLILFNCWNLTCL 501
           NQ+A++      L +L  +N   LT L
Sbjct: 191 NQLASLPTLPSELYKLWAYNN-RLTSL 216

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 48.4 bits (116), Expect = 3e-06
 Identities = 35/154 (22%), Positives = 57/154 (37%), Gaps = 24/154 (15%)

Query: 373 VIDLTYMNLLSLPSSLG-LLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA 429
           +  +T  +L    +SL     N++ L L    L     + L     LE+L L  N L   
Sbjct: 14  IEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYET 73

Query: 430 GS----SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGI- 484
                 S L+ L +        N  +  +  P +ET+  ++ NI R+        SC   
Sbjct: 74  LDLESLSTLRTLDLNN------NYVQELLVGPSIETLHAANNNISRV--------SCSRG 119

Query: 485 QNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
           Q  K + L N   +T L           +Q L++
Sbjct: 120 QGKKNIYLANN-KITML-RDLDEGCRSRVQYLDL 151

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 44.2 bits (105), Expect = 7e-05
 Identities = 25/146 (17%), Positives = 49/146 (33%), Gaps = 15/146 (10%)

Query: 375 DLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR-AGSS 432
           DL+   L  +  + L   T L+ L L    L +T  L  L  L  L L  N +       
Sbjct: 40  DLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGP 99

Query: 433 QLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRL 490
            ++ L      +   + +           + + L++  I  +        S     ++ L
Sbjct: 100 SIETLHAANNNISRVSCS------RGQGKKNIYLANNKITMLRDLDEGCRS----RVQYL 149

Query: 491 ILFNCWNLTCLFTSSIISSFVGLQCL 516
            L     +  +  + + +S   L+ L
Sbjct: 150 DLKLN-EIDTVNFAELAASSDTLEHL 174

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 49.0 bits (117), Expect = 3e-06
 Identities = 29/159 (18%), Positives = 54/159 (33%), Gaps = 28/159 (17%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTR-- 428
           V D    +  S+PS  GL   +++L L + K+       L     L++L L+ + +    
Sbjct: 9   VCDGRSRSFTSIPS--GLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIE 66

Query: 429 ----AGSSQLKHLSVRGLRASAPN-----PTESEVALPKLETVCLSSINIERIWQNQVAA 479
                    L+HL +        N      +     L  L+ + L     + +    +  
Sbjct: 67  GDAFYSLGSLEHLDLSD------NHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFP 120

Query: 480 MSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
               + NL+ L + N    + +        F GL  L  
Sbjct: 121 ---NLTNLQTLRIGNVETFSEIRR----IDFAGLTSLNE 152

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 42.4 bits (100), Expect = 3e-04
 Identities = 26/174 (14%), Positives = 57/174 (32%), Gaps = 19/174 (10%)

Query: 357 GLFQGIKRMEVARARVVIDLTYMNLLSL--PSSLGLLTNLQTLCLYYCKLQ--DTSVLGE 412
            LF  +  ++       + +  +   S         LT+L  L +    L+   +  L  
Sbjct: 117 SLFPNLTNLQT------LRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKS 170

Query: 413 LKILEILRLRVNELTR------AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCL 464
           ++ +  L L ++E            S +++L +R   L     +P   +     ++ +  
Sbjct: 171 IRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAF 230

Query: 465 SSINIERIWQNQVAAMSCGIQNLKRLILFNC-WNLTCLFTSSIISSFVGLQCLE 517
               +     N++  +   I  L  +   +C  N    F  S       L  +E
Sbjct: 231 RGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVE 284

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 33/178 (18%), Positives = 60/178 (33%), Gaps = 41/178 (23%)

Query: 357 GLFQGIKRMEVARARVVIDLTYMNLLS-----LPSSLGLLTNLQTLCLYYCKLQD----T 407
              Q +K +E       +DL+  NL+        +  G   +LQTL L    L+      
Sbjct: 328 SFSQHLKSLEF------LDLSE-NLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTG 380

Query: 408 SVLGELKILEILRLRVNELTR-----AGSSQLKHLSVRGLRASAPNPTES--EVALPKLE 460
            +L  LK L  L +  N             +++ L++                     LE
Sbjct: 381 EILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSS------TGIRVVKTCIPQTLE 434

Query: 461 TVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
            + +S+        N + + S  +  L+ L +     L  L  +S+      L  ++I
Sbjct: 435 VLDVSN--------NNLDSFSLFLPRLQELYISRN-KLKTLPDASLFPV---LLVMKI 480

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 46.9 bits (112), Expect = 7e-06
 Identities = 28/158 (17%), Positives = 56/158 (35%), Gaps = 20/158 (12%)

Query: 353 GMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ---DTSV 409
           G       G   ++       +DL++  ++++ S+   L  L+ L   +  L+   + SV
Sbjct: 68  GCCSQSDFGTTSLKY------LDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSV 121

Query: 410 LGELKILEILRLRVNELTR------AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVC 463
              L+ L  L +              G S L+ L + G         +    L  L  + 
Sbjct: 122 FLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLD 181

Query: 464 LSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCL 501
           LS   +E++           + +L+ L + +  N   L
Sbjct: 182 LSQCQLEQLSPT----AFNSLSSLQVLNMSHN-NFFSL 214

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 43.5 bits (103), Expect = 9e-05
 Identities = 29/156 (18%), Positives = 49/156 (31%), Gaps = 18/156 (11%)

Query: 373 VIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQDTSVLGE----LKILEILRLRVNELT 427
            ++L    L SLP      LT L  L L    L       +       L+ L L  N + 
Sbjct: 32  RLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI 91

Query: 428 R-----AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSC 482
                  G  QL+HL  +       +     ++L  L  + +S  +    +      +  
Sbjct: 92  TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG----IFN 147

Query: 483 GIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
           G+ +L+ L +                 F  L+ L  
Sbjct: 148 GLSSLEVLKMAGNSFQENFLP----DIFTELRNLTF 179

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 27/143 (18%), Positives = 54/143 (37%), Gaps = 17/143 (11%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQLK 435
           + ++   +   L  + TL  +   +     +  L  L  L L+ N++T        +++ 
Sbjct: 29  SNVTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKIT 88

Query: 436 HLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC 495
            L + G      +       L  ++T+ L+S  I  +          G+ NL+ L L   
Sbjct: 89  ELELSGNPLKNVSAIAG---LQSIKTLDLTSTQITDVTPLA------GLSNLQVLYLDLN 139

Query: 496 WNLTCLFTSSIISSFVGLQCLEI 518
             +T +   S ++    LQ L I
Sbjct: 140 -QITNI---SPLAGLTNLQYLSI 158

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 42.4 bits (100), Expect = 2e-04
 Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 7/97 (7%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQLK 435
           N ++  S L  LTNLQ L +   ++ D + L  L  L  L+   N+++     A    L 
Sbjct: 139 NQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISPLASLPNLI 198

Query: 436 HLSVRGLRASAPNPTESEVALPKLETVCLSSINIERI 472
            + ++  + S  +P  +      L  V L++  I   
Sbjct: 199 EVHLKNNQISDVSPLAN---TSNLFIVTLTNQTITNQ 232

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 40.8 bits (96), Expect = 7e-04
 Identities = 20/137 (14%), Positives = 46/137 (33%), Gaps = 17/137 (12%)

Query: 386 SSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQLKHLSVRG 441
                L N   +      + DT    +L  +  L      +T        + L  L ++ 
Sbjct: 13  FPDPALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKD 72

Query: 442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCL 501
            + +   P ++   L K+  + LS   ++ +           I  L+ +   +  + T +
Sbjct: 73  NQITDLAPLKN---LTKITELELSGNPLKNV---------SAIAGLQSIKTLDLTS-TQI 119

Query: 502 FTSSIISSFVGLQCLEI 518
              + ++    LQ L +
Sbjct: 120 TDVTPLAGLSNLQVLYL 136

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 47.1 bits (111), Expect = 1e-05
 Identities = 24/130 (18%), Positives = 49/130 (37%), Gaps = 30/130 (23%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQ 433
           +DL++  L +LP +L  L  L+ L      L++   +  L  L+ L L  N L    S+ 
Sbjct: 468 LDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQ--QSAA 525

Query: 434 LKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILF 493
           ++ L                 + P+L  + L          N +    C  + ++  +  
Sbjct: 526 IQPLV----------------SCPRLVLLNLQG--------NSL----CQEEGIQERLAE 557

Query: 494 NCWNLTCLFT 503
              +++ + T
Sbjct: 558 MLPSVSSILT 567

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 46.8 bits (111), Expect = 1e-05
 Identities = 32/151 (21%), Positives = 54/151 (35%), Gaps = 22/151 (14%)

Query: 373 VIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTR- 428
           +  +T  +L    +S      N++ L L    L     + L     LE+L L  N L   
Sbjct: 14  IEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYET 73

Query: 429 ---AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQ 485
                 S L+ L +        N  +  +  P +ET+  ++ NI R+  ++        Q
Sbjct: 74  LDLESLSTLRTLDLNN------NYVQELLVGPSIETLHAANNNISRVSCSR-------GQ 120

Query: 486 NLKRLILFNCWNLTCLFTSSIISSFVGLQCL 516
             K + L N   +T L           +Q L
Sbjct: 121 GKKNIYLANN-KITML-RDLDEGCRSRVQYL 149

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 41.0 bits (96), Expect = 7e-04
 Identities = 25/148 (16%), Positives = 50/148 (33%), Gaps = 15/148 (10%)

Query: 373 VIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR-AG 430
            +DL+   L  +  + L   T L+ L L    L +T  L  L  L  L L  N +     
Sbjct: 38  ELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLV 97

Query: 431 SSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLK 488
              ++ L      +   + +           + + L++  I  +        S     ++
Sbjct: 98  GPSIETLHAANNNISRVSCS------RGQGKKNIYLANNKITMLRDLDEGCRS----RVQ 147

Query: 489 RLILFNCWNLTCLFTSSIISSFVGLQCL 516
            L L     +  +  + + +S   L+ L
Sbjct: 148 YLDLKLN-EIDTVNFAELAASSDTLEHL 174

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 46.7 bits (111), Expect = 1e-05
 Identities = 31/148 (20%), Positives = 57/148 (38%), Gaps = 23/148 (15%)

Query: 357 GLFQGIKRMEVARARVVIDLTYMNLLSL--PSSLGLLTNLQTLCLYYCKLQDTSVLGELK 414
             F  I  +        +DL  +  LS     +   L+NL+ L L  C L++   L  L 
Sbjct: 154 YAFNRIPSLRR------LDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLI 207

Query: 415 ILEILRLRVNELTR------AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSS 466
            L+ L L  N L+        G   L+ L +    ++    N  ++   L  L  + L+ 
Sbjct: 208 KLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDN---LQSLVEINLAH 264

Query: 467 INIERIWQNQVAAMSCGIQNLKRLILFN 494
            N+  +  +    +     +L+R+ L +
Sbjct: 265 NNLTLLPHDLFTPLH----HLERIHLHH 288

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 45.5 bits (108), Expect = 3e-05
 Identities = 35/161 (21%), Positives = 59/161 (36%), Gaps = 32/161 (19%)

Query: 372 VVIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR 428
            +++L    +  +  +S   L +L+ L L    ++  +      L  L  L L  N LT 
Sbjct: 67  RLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTT 126

Query: 429 ------AGSSQLKHLSVRG-----LRASAPNPTESEVALPKLETVCLSSIN-IERIWQNQ 476
                    S+LK L +R      + + A N       +P L  + L  +  +  I +  
Sbjct: 127 IPNGAFVYLSKLKELWLRNNPIESIPSYAFNR------IPSLRRLDLGELKRLSYISEGA 180

Query: 477 VAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLE 517
                 G+ NL+ L L  C NL        I +   L  L+
Sbjct: 181 FE----GLSNLRYLNLAMC-NLRE------IPNLTPLIKLD 210

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 45.8 bits (109), Expect = 2e-05
 Identities = 32/148 (21%), Positives = 56/148 (37%), Gaps = 20/148 (13%)

Query: 357 GLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ--DTSVLGELK 414
           G FQG+K++        I +   N+ ++P   GL  +L  L L   K+   D + L  L 
Sbjct: 165 GAFQGMKKLSY------IRIADTNITTIPQ--GLPPSLTELHLDGNKITKVDAASLKGLN 216

Query: 415 ILEILRLRVNELTR------AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSIN 468
            L  L L  N ++       A +  L+ L +   +        ++     ++ V L + N
Sbjct: 217 NLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLAD--HKYIQVVYLHNNN 274

Query: 469 IERIWQNQVAAMSC--GIQNLKRLILFN 494
           I  I  N            +   + LF+
Sbjct: 275 ISAIGSNDFCPPGYNTKKASYSGVSLFS 302

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 45.6 bits (109), Expect = 2e-05
 Identities = 16/81 (19%), Positives = 31/81 (38%), Gaps = 14/81 (17%)

Query: 373 VIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTR 428
            + +  +N L   +P ++  LT L  L + +  +       L ++K L  L    N L+ 
Sbjct: 80  FLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALS- 138

Query: 429 AGS--------SQLKHLSVRG 441
            G+          L  ++  G
Sbjct: 139 -GTLPPSISSLPNLVGITFDG 158

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 44.1 bits (105), Expect = 7e-05
 Identities = 13/59 (22%), Positives = 23/59 (38%), Gaps = 5/59 (8%)

Query: 373 VIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELT 427
            + +T+   +S  +P  L  +  L TL   Y  L  T    +  L  L  +    N ++
Sbjct: 105 YLYITH-TNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRIS 162

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 41.8 bits (99), Expect = 4e-04
 Identities = 20/79 (25%), Positives = 27/79 (34%), Gaps = 14/79 (17%)

Query: 372 VVIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQDT-SVLGELKILEILRLRVNELTR 428
             +DL   N+L        G   N Q + L    L      +G  K L  L LR N +  
Sbjct: 200 AFVDL-SRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIY- 257

Query: 429 AGS--------SQLKHLSV 439
            G+          L  L+V
Sbjct: 258 -GTLPQGLTQLKFLHSLNV 275

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 40.6 bits (96), Expect = 8e-04
 Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 13/79 (16%)

Query: 372 VVIDLTYMNL---LSLPSSLGLLTNLQTLCLY-YCKLQDT--SVLGELKILEILRLRVNE 425
             +DL+ +NL     +PSSL  L  L  L +     L       + +L  L  L +    
Sbjct: 53  NNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTN 112

Query: 426 LTRAGS-----SQLKHLSV 439
           ++  G+     SQ+K L  
Sbjct: 113 VS--GAIPDFLSQIKTLVT 129

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 45.6 bits (108), Expect = 2e-05
 Identities = 25/133 (18%), Positives = 43/133 (32%), Gaps = 28/133 (21%)

Query: 373 VIDLTYMNLLSLPSSLGL--LTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR 428
           ++DL++ NL  L +      LTNL +L L +  L    +     +  L  L L  N L  
Sbjct: 43  LLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHT 102

Query: 429 AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLK 488
                                      L  LE + L + +I  +           +  L+
Sbjct: 103 LDEFLFSD-------------------LQALEVLLLYNNHIVVV-DRNAFE---DMAQLQ 139

Query: 489 RLILFNCWNLTCL 501
           +L L     ++  
Sbjct: 140 KLYLSQN-QISRF 151

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 45.1 bits (107), Expect = 3e-05
 Identities = 31/148 (20%), Positives = 49/148 (33%), Gaps = 23/148 (15%)

Query: 357 GLFQGIKRMEVARARVVIDLTYMNLLSL--PSSLGLLTNLQTLCLYYCKLQDTSVLGELK 414
             F  +  +        +DL  +  L      +   L NL+ L L  C ++D   L  L 
Sbjct: 165 YAFNRVPSLMR------LDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLV 218

Query: 415 ILEILRLRVNELTR------AGSSQLKHLSVRG--LRASAPNPTESEVALPKLETVCLSS 466
            LE L +  N           G S LK L V    +     N  +    L  L  + L+ 
Sbjct: 219 GLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDG---LASLVELNLAH 275

Query: 467 INIERIWQNQVAAMSCGIQNLKRLILFN 494
            N+  +  +    +      L  L L +
Sbjct: 276 NNLSSLPHDLFTPLR----YLVELHLHH 299

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 44.0 bits (104), Expect = 9e-05
 Identities = 36/161 (22%), Positives = 60/161 (37%), Gaps = 32/161 (19%)

Query: 372 VVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR 428
             ++L   N+  + + +   L +L+ L L    ++  +      L  L  L L  N LT 
Sbjct: 78  RYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTV 137

Query: 429 ------AGSSQLKHLSVRG-----LRASAPNPTESEVALPKLETVCLSSIN-IERIWQNQ 476
                    S+L+ L +R      + + A N       +P L  + L  +  +E I    
Sbjct: 138 IPSGAFEYLSKLRELWLRNNPIESIPSYAFNR------VPSLMRLDLGELKKLEYI---S 188

Query: 477 VAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLE 517
             A   G+ NLK L L  C N+        + +   L  LE
Sbjct: 189 EGAFE-GLFNLKYLNLGMC-NIK------DMPNLTPLVGLE 221

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 44.7 bits (105), Expect = 6e-05
 Identities = 25/152 (16%), Positives = 49/152 (32%), Gaps = 23/152 (15%)

Query: 372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR-AG 430
           +  +L     ++   +   L ++  +      ++    +  L  +  L L  N+LT    
Sbjct: 24  IKDNLKK-KSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP 82

Query: 431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRL 490
            + LK+L    L  +      S   L KL+++ L    I              I  L   
Sbjct: 83  LTNLKNLGWLFLDENKIKDLSSLKDLKKLKSLSLEHNGISD------------INGLV-- 128

Query: 491 ILFNCWNLTCLFTS----SIISSFVGLQCLEI 518
              +   L  L+      + I+    L  L+ 
Sbjct: 129 ---HLPQLESLYLGNNKITDITVLSRLTKLDT 157

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 43.6 bits (102), Expect = 1e-04
 Identities = 26/118 (22%), Positives = 45/118 (38%), Gaps = 30/118 (25%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHLSV 439
           N +S  + L  L  L++L L   K+ D +VL  L  L+ L L  N+++           +
Sbjct: 119 NGISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQIS----------DI 168

Query: 440 RGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWN 497
             L             L KL+ + LS  +I  +           +  LK L +   ++
Sbjct: 169 VPLA-----------GLTKLQNLYLSKNHISDL---------RALAGLKNLDVLELFS 206

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 43.9 bits (104), Expect = 8e-05
 Identities = 27/159 (16%), Positives = 55/159 (34%), Gaps = 10/159 (6%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSS 432
            +   +    +   S   L  L +L  +   + D + + +L  L  L    N +T    S
Sbjct: 23  EVAAAFEMQATDTISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLDLS 82

Query: 433 QLKHLSVRGLRASAPNPTESEVA-LPKLETVCLSSINIERIWQNQVAAM---SCGIQNLK 488
           Q  +L    L   +   T  +V  L KL  +   +  + ++  +Q   +   +C    L 
Sbjct: 83  QNTNL--TYLACDSNKLTNLDVTPLTKLTYLNCDTNKLTKLDVSQNPLLTYLNCARNTLT 140

Query: 489 RLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEI 527
            + + +   LT L           +  L++     L  +
Sbjct: 141 EIDVSHNTQLTELD----CHLNKKITKLDVTPQTQLTTL 175

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 41.2 bits (97), Expect = 6e-04
 Identities = 27/169 (15%), Positives = 51/169 (30%), Gaps = 18/169 (10%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR---A 429
            ++     L  +   +   T L  L  +  K      +     L  L    N++T    +
Sbjct: 131 YLNCARNTLTEID--VSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDVS 188

Query: 430 GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERI---WQNQVAAMSCGIQN 486
            +  L  L+      +  +         +L  +  SS  +  I      Q+    C +  
Sbjct: 189 QNKLLNRLNCDTNNITKLDLN----QNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCSVNP 244

Query: 487 LKRLILFNCWNLTCL------FTSSIISSFVGLQCLEICECPVLKEIIV 529
           L  L +     LT L           ++    L   +   C  +KE+ V
Sbjct: 245 LTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELDV 293

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 42.3 bits (100), Expect = 9e-05
 Identities = 31/152 (20%), Positives = 54/152 (35%), Gaps = 28/152 (18%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGE-LKILEILRLRVNELTRAGS 431
           ++ LT   L+   +        + L L   K+     LG  L   + +    NE+     
Sbjct: 1   MVKLTA-ELIEQAAQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIR---- 55

Query: 432 SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLI 491
                  + G              L +L+T+ +++  I RI +     +   + +L  LI
Sbjct: 56  ------KLDGFP-----------LLRRLKTLLVNNNRICRIGEG----LDQALPDLTELI 94

Query: 492 LFNCWNLTCLFTSSIISSFVGLQCLEICECPV 523
           L N  +L  L     ++S   L  L I   PV
Sbjct: 95  LTNN-SLVELGDLDPLASLKSLTYLCILRNPV 125

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 44.2 bits (104), Expect = 1e-04
 Identities = 24/164 (14%), Positives = 53/164 (32%), Gaps = 15/164 (9%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLC---LYYCKLQDTSVLGELKILEILRLRVNELTRAG 430
           + +    +L L        NL+  C   L          +  +   ++ RL ++ +    
Sbjct: 225 VKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNE 284

Query: 431 -------SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCG 483
                  ++Q++ L +        +        P LE +   +     I    +  ++  
Sbjct: 285 MPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRN----VIGDRGLEVLAQY 340

Query: 484 IQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEI 527
            + LKRL +    +   +     + S  GL  L    C  L+ +
Sbjct: 341 CKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQG-CQELEYM 383

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 43.2 bits (102), Expect = 1e-04
 Identities = 34/143 (23%), Positives = 49/143 (34%), Gaps = 31/143 (21%)

Query: 375 DLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTR---- 428
           DL++  L SLP     L  L  L + + +L       L  L  L+ L L+ NEL      
Sbjct: 83  DLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPG 142

Query: 429 --AGSSQLKHLSVRGLRASAPN-----PTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
               + +L+ LS+        N     P      L  L+T+ L          N +  + 
Sbjct: 143 LLTPTPKLEKLSLAN------NNLTELPAGLLNGLENLDTLLLQE--------NSLYTIP 188

Query: 482 CGI---QNLKRLILF-NCWNLTC 500
            G      L    L  N W   C
Sbjct: 189 KGFFGSHLLPFAFLHGNPWLCNC 211

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 41.6 bits (98), Expect = 1e-04
 Identities = 28/123 (22%), Positives = 43/123 (34%), Gaps = 22/123 (17%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSS 432
           V+D    N   +        NL+ L L    L   S L +L  L+ L L  N +      
Sbjct: 30  VLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDM 89

Query: 433 QLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLIL 492
             +                    LP L  + LS   ++ I  + +  +   ++ LK L L
Sbjct: 90  LAEK-------------------LPNLTHLNLSGNKLKDI--STLEPLKK-LECLKSLDL 127

Query: 493 FNC 495
           FNC
Sbjct: 128 FNC 130

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 43.3 bits (102), Expect = 1e-04
 Identities = 28/146 (19%), Positives = 48/146 (32%), Gaps = 23/146 (15%)

Query: 383 SLPSSLGLLTNLQTLCLYYCKLQDTSV--LGELKILEILRLRVNELTRAGSSQLKHLSVR 440
           +L   L   + LQ L L   +L D  V  L +   L  L L          S     S  
Sbjct: 109 TLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNL----------SGCSGFSEF 158

Query: 441 GLRASAPNPTESEVALPKLETVCLSS-INIERIWQNQVAAMSCGIQNLKRLILFNCW-NL 498
            L+    +         +L+ + LS   +          A     + + +L L     NL
Sbjct: 159 ALQTLLSS-------CSRLDELNLSWCFDFTEKHVQVAVAHVS--ETITQLNLSGYRKNL 209

Query: 499 TCLFTSSIISSFVGLQCLEICECPVL 524
                S+++     L  L++ +  +L
Sbjct: 210 QKSDLSTLVRRCPNLVHLDLSDSVML 235

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 27/147 (18%), Positives = 54/147 (36%), Gaps = 20/147 (13%)

Query: 357 GLFQGIKRMEVARARVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQ--DTSVLGEL 413
            +FQ +  ++       +++   +L+ +   +   L +L+ L L  C L    T  L  L
Sbjct: 122 YMFQDLYNLKS------LEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHL 175

Query: 414 KILEILRLRVNELTR------AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSI 467
             L +LRLR   +            +LK L +          T + +    L ++ ++  
Sbjct: 176 HGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLD-TMTPNCLYGLNLTSLSITHC 234

Query: 468 NIERIWQNQVAAMSCGIQNLKRLILFN 494
           N+  +    V  +      L+ L L  
Sbjct: 235 NLTAVPYLAVRHLV----YLRFLNLSY 257

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 42.0 bits (99), Expect = 3e-04
 Identities = 35/162 (21%), Positives = 55/162 (33%), Gaps = 31/162 (19%)

Query: 372 VVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTR 428
            ++DL    + +L         +L+ L L    +          L  L  L LR N L  
Sbjct: 35  RLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKL 94

Query: 429 ------AGSSQLKHLSVRGLRASAPN-----PTESEVALPKLETVCLSSINIERIWQNQV 477
                  G S L  L +        N            L  L+++ +   ++  I     
Sbjct: 95  IPLGVFTGLSNLTKLDISE------NKIVILLDYMFQDLYNLKSLEVGDNDLVYI---SH 145

Query: 478 AAMSCGIQNLKRLILFNCWNLTCLFTSSI-ISSFVGLQCLEI 518
            A S G+ +L++L L  C NLT     SI   +   L  L +
Sbjct: 146 RAFS-GLNSLEQLTLEKC-NLT-----SIPTEALSHLHGLIV 180

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 42.3 bits (100), Expect = 2e-04
 Identities = 26/152 (17%), Positives = 51/152 (33%), Gaps = 23/152 (15%)

Query: 372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR-AG 430
           +  +L     ++   +   L ++  +      ++    +  L  +  L L  N+LT    
Sbjct: 27  IKDNLKK-KSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP 85

Query: 431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRL 490
            + LK+L    L  +      S   L KL+++ L    I  I          G+ +L   
Sbjct: 86  LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDI---------NGLVHLP-- 134

Query: 491 ILFNCWNLTCLFTS----SIISSFVGLQCLEI 518
                  L  L+      + I+    L  L+ 
Sbjct: 135 ------QLESLYLGNNKITDITVLSRLTKLDT 160

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 21/99 (21%), Positives = 36/99 (36%), Gaps = 6/99 (6%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSS 432
           V+D +  N   L         L+ L      L   + L +L  L+ L L  N ++     
Sbjct: 23  VLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEV 82

Query: 433 ------QLKHLSVRGLRASAPNPTESEVALPKLETVCLS 465
                  L HL++ G +    +  E    L  L+++ L 
Sbjct: 83  LAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLDLF 121

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 42.3 bits (100), Expect = 3e-04
 Identities = 24/132 (18%), Positives = 47/132 (35%), Gaps = 25/132 (18%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----- 428
           +D ++ ++  +     +   L  L L +  L DT+ L     L  + L  NEL +     
Sbjct: 210 LDASHNSINVVRG--PVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHP 267

Query: 429 -AGSSQLKHLSVRG-----LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSC 482
                +L+ L +       L             +P L+ + LS  ++  + +N       
Sbjct: 268 FVKMQRLERLYISNNRLVALNLYGQP-------IPTLKVLDLSHNHLLHVERN-----QP 315

Query: 483 GIQNLKRLILFN 494
               L+ L L +
Sbjct: 316 QFDRLENLYLDH 327

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 42.3 bits (100), Expect = 3e-04
 Identities = 30/160 (18%), Positives = 57/160 (35%), Gaps = 29/160 (18%)

Query: 373 VIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR- 428
           ++      +  LP++ L     ++ L L   +++  DT        ++ L +  N +   
Sbjct: 49  IVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYL 108

Query: 429 -----AGSSQLKHLSVRGLRASAPN-----PTESEVALPKLETVCLSSINIERIWQNQVA 478
                     L  L +        N     P       PKL T+ +S+ N+ERI  +   
Sbjct: 109 PPHVFQNVPLLTVLVLER------NDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQ 162

Query: 479 AMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
           A +    +L+ L L +   LT +     +S    L    +
Sbjct: 163 ATT----SLQNLQLSSN-RLTHVD----LSLIPSLFHANV 193

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 42.0 bits (99), Expect = 3e-04
 Identities = 19/112 (16%), Positives = 39/112 (34%), Gaps = 18/112 (16%)

Query: 336 LLIGYTAIASIDDLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQ 395
           + + Y  +  I            F  ++R+E       + ++   L++L      +  L+
Sbjct: 253 VDLSYNELEKIMY--------HPFVKMQRLER------LYISNNRLVALNLYGQPIPTLK 298

Query: 396 TLCLYYCKLQD-TSVLGELKILEILRLRVNELTR---AGSSQLKHLSVRGLR 443
            L L +  L        +   LE L L  N +     +    LK+L++    
Sbjct: 299 VLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLKLSTHHTLKNLTLSHND 350

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 42.2 bits (99), Expect = 3e-04
 Identities = 19/144 (13%), Positives = 45/144 (31%), Gaps = 7/144 (4%)

Query: 375 DLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ---DTSVLGELKILEILRLRVNELTRAGS 431
           D+++  L ++      + +L+ L L +            G L  L  L L   +  +   
Sbjct: 106 DVSHNRLQNISC--CPMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDL 163

Query: 432 SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIE-RIWQNQVAAMSCGIQNLKRL 490
             + HL +  +     +          L+    + +++           ++  +  L  L
Sbjct: 164 LPVAHLHLSCILLDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHL 223

Query: 491 ILFNCWNLTCLFTSSIISSFVGLQ 514
            L N   L       +++    L 
Sbjct: 224 QLSN-IKLNDENCQRLMTFLSELT 246

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 42.0 bits (99), Expect = 4e-04
 Identities = 28/164 (17%), Positives = 48/164 (29%), Gaps = 19/164 (11%)

Query: 375 DLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQDTS----VLGELKILEILRLRVNELTR- 428
            L Y   L L +     L NL+ L L  C L            L  LE+L LR N + + 
Sbjct: 85  KLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKI 144

Query: 429 ------AGSSQLKHLSVRGLR-ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS 481
                     +   L +   +  S                + LSSI ++ + +  +    
Sbjct: 145 QPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEK 204

Query: 482 CGI----QNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC 521
           CG      ++  L L           +      +    ++    
Sbjct: 205 CGNPFKNTSITTLDLSGN-GFKES-MAKRFFDAIAGTKIQSLIL 246

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 41.5 bits (98), Expect = 4e-04
 Identities = 28/138 (20%), Positives = 46/138 (33%), Gaps = 28/138 (20%)

Query: 375 DLTYMNLLSLPSSL-GLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR--- 428
            LT   + SL       L++LQ L      L   +   +G LK L+ L +  N +     
Sbjct: 82  ILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKL 141

Query: 429 ----AGSSQLKHLSVRGLRASAPN-----PTESEVALPKLETVCLSSINIERIWQNQVAA 479
               +  + L+HL +        N            L ++  + LS      +  N +  
Sbjct: 142 PEYFSNLTNLEHLDLSS------NKIQSIYCTDLRVLHQMPLLNLSL----DLSLNPMNF 191

Query: 480 MSCGI---QNLKRLILFN 494
           +  G      LK L L  
Sbjct: 192 IQPGAFKEIRLKELALDT 209

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 41.5 bits (97), Expect = 5e-04
 Identities = 25/132 (18%), Positives = 51/132 (38%), Gaps = 23/132 (17%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR--AG 430
           V+++T   L+SLP       +L+ L     +L  +++      L+ L +  N+LT     
Sbjct: 84  VLEITQNALISLPELPA---SLEYLDACDNRL--STLPELPASLKHLDVDNNQLTMLPEL 138

Query: 431 SSQLKHLSVRGLRASAPNP-TESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKR 489
            + L++++         N  T        LE + +          NQ+  +    ++L+ 
Sbjct: 139 PALLEYINADN------NQLTMLPELPTSLEVLSVR--------NNQLTFLPELPESLEA 184

Query: 490 LILFNCWNLTCL 501
           L +     L  L
Sbjct: 185 LDVSTN-LLESL 195

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 41.4 bits (97), Expect = 6e-04
 Identities = 23/159 (14%), Positives = 50/159 (31%), Gaps = 29/159 (18%)

Query: 383 SLPSSLGLLTNLQTLCLYYCKLQDTSV---LGELKILEILRLRVNELTRAGSSQLKHLSV 439
            LP+   + + L TL L Y  +Q   +   L +   L+ L +              ++  
Sbjct: 280 YLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVL------------DYIED 327

Query: 440 RGLRASAPNPTESEVALPKLETVCLSSINIE------RIWQNQVAAMSCGIQNLKRLILF 493
            GL   A            L  + +             + +  + ++S G   L+ ++ F
Sbjct: 328 AGLEVLAST-------CKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESVLYF 380

Query: 494 NCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIVIDQ 532
            C  +T     +I  +   +    +C         +  +
Sbjct: 381 -CRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLE 418

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 41.5 bits (97), Expect = 6e-04
 Identities = 28/162 (17%), Positives = 60/162 (37%), Gaps = 21/162 (12%)

Query: 357 GLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKIL 416
             FQ    ++       + L+   L  +   L L+ +L    + Y  L   ++   ++ L
Sbjct: 165 DTFQATTSLQN------LQLSSNRLTHVD--LSLIPSLFHANVSYNLLSTLAIPIAVEEL 216

Query: 417 EILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQ 476
           +     +N +    + +L  L ++    +    T   +  P L  V LS   +E+I  + 
Sbjct: 217 DASHNSINVVRGPVNVELTILKLQHNNLT---DTAWLLNYPGLVEVDLSYNELEKIMYHP 273

Query: 477 VAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
                  +Q L+RL + N   L      ++      +  L++
Sbjct: 274 FV----KMQRLERLYISNN-RLV-----ALNLYGQPIPTLKV 305

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 41.5 bits (97), Expect = 7e-04
 Identities = 30/151 (19%), Positives = 59/151 (39%), Gaps = 20/151 (13%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----- 428
           +D ++ ++  +     +   L  L L +  L DT+ L     L  + L  NEL +     
Sbjct: 216 LDASHNSINVVRG--PVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHP 273

Query: 429 -AGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNL 487
                +L+ L +   R  A N       +P L+ + LS  ++  + +N           L
Sbjct: 274 FVKMQRLERLYISNNRLVALNLYGQP--IPTLKVLDLSHNHLLHVERN-----QPQFDRL 326

Query: 488 KRLILFNCWNLTCLFTSSIISSFVGLQCLEI 518
           + L L +  ++  L     +S+   L+ L +
Sbjct: 327 ENLYLDHN-SIVTLK----LSTHHTLKNLTL 352

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 41.1 bits (96), Expect = 8e-04
 Identities = 30/158 (18%), Positives = 56/158 (35%), Gaps = 29/158 (18%)

Query: 373 VIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTR- 428
           ++      +  LP++ L     ++ L L   +++  DT        ++ L +  N +   
Sbjct: 55  IVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFNAIRYL 114

Query: 429 -----AGSSQLKHLSVRGLRASAPN-----PTESEVALPKLETVCLSSINIERIWQNQVA 478
                     L  L +        N     P       PKL T+ +S+ N+ERI  +   
Sbjct: 115 PPHVFQNVPLLTVLVLER------NDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQ 168

Query: 479 AMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL 516
           A +    +L+ L L +   LT +     +S    L   
Sbjct: 169 ATT----SLQNLQLSSN-RLTHVD----LSLIPSLFHA 197

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	532
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.97
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.96
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.65
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	99.64
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.58
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.58
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.57
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.56
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.55
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	99.54
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.52
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.51
3m19_A	251	Variable lymphocyte receptor A diversity region; a	99.51
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	99.5
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.5
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.5
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.5
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.5
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	99.49
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.47
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	99.47
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.46
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	99.46
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	99.46
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.46
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.45
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	99.44
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	99.44
2fna_A	357	Conserved hypothetical protein; structural genomic	99.43
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.42
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.41
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	99.41
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.41
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.41
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	99.41
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.41
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	99.4
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.4
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	99.4
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.39
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	99.39
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.39
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.38
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.38
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.38
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.38
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.38
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	99.38
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.37
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	99.37
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.36
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.36
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.36
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	99.35
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	99.35
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.35
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	99.35
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	99.35
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.34
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	99.34
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.34
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.33
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.33
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	99.33
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.33
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.33
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.33
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.32
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.32
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	99.32
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.32
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	99.32
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.31
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.31
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	99.3
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	99.3
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.3
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	99.29
4g8a_A	635	TOLL-like receptor 4; leucine rich repeat MD-2 rel	99.29
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.28
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	99.28
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	99.28
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.28
3e6j_A	229	Variable lymphocyte receptor diversity region; var	99.28
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.28
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.28
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	99.28
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.28
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	99.28
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	99.28
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	99.28
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	99.28
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	99.27
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	99.27
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.27
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.26
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.26
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	99.25
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.25
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	99.24
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.24
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	99.24
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.23
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.23
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	99.23
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	99.22
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.22
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	99.22
1o6v_A	466	Internalin A; bacterial infection, extracellular r	99.21
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	99.21
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	99.21
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.2
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.19
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	99.19
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.19
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	99.19
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.18
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	99.18
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	99.17
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.17
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.15
4glp_A	310	Monocyte differentiation antigen CD14; alpha beta	99.15
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.14
2o6r_A	177	Variable lymphocyte receptor B; leucine-rich repea	99.14
4b8c_D	727	Glucose-repressible alcohol dehydrogenase transcr	99.13
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	99.12
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.12
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.11
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.1
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	99.09
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	99.07
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	99.05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	99.02
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	99.02
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	99.01
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.0
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	99.0
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	99.0
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	98.95
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	98.94
2r9u_A	174	Variable lymphocyte receptor; adaptive immunity, V	98.93
3g39_A	170	Variable lymphocyte receptor VLRB.2D; antibody, X-	98.92
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.91
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	98.82
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.79
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.77
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	98.76
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.74
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.73
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.7
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.66
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.66
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.65
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.61
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.59
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.56
3bos_A	242	Putative DNA replication factor; P-loop containing	98.54
3pvs_A	447	Replication-associated recombination protein A; ma	98.54
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	98.53
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.52
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.52
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.51
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.49
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	98.47
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.45
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.45
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.44
3un9_A	372	NLR family member X1; leucine rich repeat (LRR), a	98.43
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.43
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.4
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	98.38
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.35
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.35
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.32
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.32
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.3
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.29
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.29
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.28
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.26
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	98.25
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.25
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	98.22
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.2
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.18
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.18
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.17
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.12
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.11
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.1
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	98.09
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.04
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.03
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.01
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.99
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.99
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.98
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.94
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.94
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.89
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.89
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.85
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.85
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.85
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.84
1io0_A	185	Tropomodulin; LRR protein, right-handed super-heli	97.81
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	97.8
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.78
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.76
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.76
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.74
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.74
3co5_A	143	Putative two-component system transcriptional RES	97.69
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.53
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.5
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.45
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.4
4fdw_A	401	Leucine rich hypothetical protein; putative cell s	97.4
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.4
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.36
3rw6_A	267	Nuclear RNA export factor 1; retroviral constituti	97.35
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.21
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.18
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.18
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.14
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.12
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.1
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.06
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.01
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	96.95
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.83
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.69
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.62
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.46
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.4
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.4
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.37
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.35
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.26
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	96.23
2qgz_A	308	Helicase loader, putative primosome component; str	96.16
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.15
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.06
4fs7_A	394	Uncharacterized protein; leucine-rich repeats, pro	95.97
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	95.97
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	95.95
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.88
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.87
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.8
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	95.76
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.75
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.7
3end_A	307	Light-independent protochlorophyllide reductase ir	95.66
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.63
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	95.6
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.59
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.58
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.56
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.56
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.52
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	95.49
2r44_A	331	Uncharacterized protein; putative ATPase, structur	95.48
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.47
3ice_A	422	Transcription termination factor RHO; transcriptio	95.44
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	95.43
2hf9_A	226	Probable hydrogenase nickel incorporation protein	95.42
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.36
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.35
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	95.34
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.31
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.29
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.28
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.27
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.27
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.26
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.26
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.26
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.25
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	95.24
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.22
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.21
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.18
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.18
1via_A	175	Shikimate kinase; structural genomics, transferase	95.18
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.18
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.17
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.16
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.16
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.15
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.15
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.13
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.13
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.11
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.11
4h09_A	379	Hypothetical leucine rich repeat protein; two LRR_	95.08
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	95.07
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.06
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.05
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.04
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.02
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.01
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.01
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	95.0
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	94.99
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.97
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	94.97
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	94.95
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.94
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	94.94
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.93
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	94.93
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.92
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	94.92
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	94.91
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	94.86
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.86
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	94.85
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.84
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.83
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.82
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.82
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.81
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	94.8
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.78
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	94.77
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	94.77
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	94.76
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	94.75
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	94.74
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.7
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.7
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	94.69
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.69
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.67
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	94.67
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	94.64
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	94.61
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.61
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.56
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.56
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	94.55
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.54
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	94.54
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	94.53
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	94.51
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	94.51
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.5
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.5
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	94.49
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.48
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.47
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.47
3l0o_A	427	Transcription termination factor RHO; helicase, RH	94.45
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.43
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	94.4
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	94.4
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.39
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.35
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.35
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.33
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.32
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.28
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.27
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	94.27
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.24
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.23
1u94_A	356	RECA protein, recombinase A; homologous recombinat	94.23
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	94.23
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	94.22
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.21
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.2
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	94.18
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.18
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	94.17
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.16
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	94.15
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	94.14
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	94.11
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	94.11
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.09
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	94.05
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.04
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	93.99
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.95
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.95
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.95
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	93.94
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.94
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	93.94
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	93.93
4a74_A	231	DNA repair and recombination protein RADA; hydrola	93.92
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	93.91
1tue_A	212	Replication protein E1; helicase, replication, E1E	93.91
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	93.9
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.9
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	93.89
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.89
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.88
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	93.88
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.87
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	93.87
1xp8_A	366	RECA protein, recombinase A; recombination, radior	93.83
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	93.82
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	93.8
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	93.8
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.79
3io5_A	333	Recombination and repair protein; storage dimer, i	93.78
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	93.78
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.77
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	93.76
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	93.75
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	93.75
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	93.73
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	93.73
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.73
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	93.72
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.71
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	93.69
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	93.69
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	93.69
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.68
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.67
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	93.66
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	93.65
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	93.63
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	93.62
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.61
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.6
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.59
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	93.59
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	93.59
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	93.58
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	93.57
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	93.52
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.5
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	93.48
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.48
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	93.48
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.47
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.46
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	93.43
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	93.38
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	93.34
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.34
2cvh_A	220	DNA repair and recombination protein RADB; filamen	93.31
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	93.3
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.29
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	93.28
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.25
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	93.24
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.23
1pgv_A	197	TMD-1, tropomodulin TMD-1; structural genomics, PS	93.22
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	93.21
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	93.2
1b0u_A	262	Histidine permease; ABC transporter, transport pro	93.2
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.19
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.18
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	93.18
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.15
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.14
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	93.13
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	93.1
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	93.08
1ji0_A	240	ABC transporter; ATP binding protein, structural g	93.07
1sgw_A	214	Putative ABC transporter; structural genomics, P p	93.06
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	93.06
2og2_A	359	Putative signal recognition particle receptor; nuc	93.06
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	93.03
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	93.02
1g6h_A	257	High-affinity branched-chain amino acid transport	93.01
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	93.01
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	93.0
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	93.0
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	93.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	92.97
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	92.97
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	92.96
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	92.94
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	92.92
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	92.91
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	92.91
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	92.9
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	92.89
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	92.89
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	92.86
2eyu_A	261	Twitching motility protein PILT; pilus retraction	92.84
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	92.83
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	92.83
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	92.8
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	92.79
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	92.77
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	92.77
2ghi_A	260	Transport protein; multidrug resistance protein, M	92.77
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	92.76
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	92.72
2xxa_A	433	Signal recognition particle protein; protein trans	92.71
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	92.71

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=1.8e-37  Score=329.16  Aligned_cols=258  Identities=14%  Similarity=0.113  Sum_probs=197.2

Q ss_pred             ccchHHHHHHHHHhcCC---CceEEEEEccCCCchHHHHHHHHH--HhhccCCCCEEEEeccCch---------------
Q 048213          109 ESRMSTFNDILNALKSP---DVNMLGIYGMGGIRKTTPAKEVAI--KAENEKLFDRVIFVEESES---------------  168 (532)
Q Consensus       109 ~gR~~~~~~i~~~l~~~---~~~vv~I~G~gGiGKTtLA~~v~~--~~~~~~~F~~~~~~~~~~~---------------  168 (532)
                      +||+.++++|.++|...   +.++|+|+||||+||||||+++|+  +.+++.+|+..+|...+..               
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~  210 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLM  210 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHH
Confidence            49999999999999733   689999999999999999999999  6788889999885543221               


Q ss_pred             -------------------hhHHHHHHHHhccCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHHhhhcCCC
Q 048213          169 -------------------GRARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDS  229 (532)
Q Consensus       169 -------------------~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~~~~~  229 (532)
                                         .....+++.|.++|||||||||||+.+++ .+    + ..+||+||||||++.++......
T Consensus       211 l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~----~-~~~gs~ilvTTR~~~v~~~~~~~  284 (549)
T 2a5y_B          211 LKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RW----A-QELRLRCLVTTRDVEISNAASQT  284 (549)
T ss_dssp             HTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HH----H-HHTTCEEEEEESBGGGGGGCCSC
T ss_pred             HhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cc----c-ccCCCEEEEEcCCHHHHHHcCCC
Confidence                               12456667777424999999999998765 21    1 12799999999999997532224


Q ss_pred             CceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHHccCChHHHHHHHHHhcCCCCCCCC
Q 048213          230 QQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPSSTNFK  309 (532)
Q Consensus       230 ~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~l~~~~~~~~~~~~  309 (532)
                      ..+|.+++|+.++||+||.+.++.....+...+++++|+++|+|+||||+++|+.++.++ .+|...+....+..     
T Consensus       285 ~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~-w~~~~~l~~~l~~~-----  358 (549)
T 2a5y_B          285 CEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKT-FEKMAQLNNKLESR-----  358 (549)
T ss_dssp             EEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSS-HHHHHHHHHHHHHH-----
T ss_pred             CeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCChHHHHHHHHHhccch-HHHHHHhHHHhhcc-----
Confidence            468999999999999999999986544467888999999999999999999999998764 34444343322110     


Q ss_pred             CchhHHHHHHHhhcCCCCCchHHHHHH-----------HHhhh-hcCChhHHHHHHHHh--cccCC---cccHHHHHhhH
Q 048213          310 DIQPTAYKAIELSYVKLDGDELKNIFL-----------LIGYT-AIASIDDLLMYGMGL--GLFQG---IKRMEVARARV  372 (532)
Q Consensus       310 ~~~~~~~~~l~~sy~~L~~~~~k~~f~-----------~lalF-~~i~~~~Li~~w~ae--g~~~~---~~~~~~~~~~~  372 (532)
                       ....+.+++.+||+.||++ +|.||+           |||+| .+.+.+  +++|+|+  ||+..   ..+.+++++ +
T Consensus       359 -~~~~i~~~l~~Sy~~L~~~-lk~~f~~Ls~~er~l~~~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~-~  433 (549)
T 2a5y_B          359 -GLVGVECITPYSYKSLAMA-LQRCVEVLSDEDRSALAFAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVAD-R  433 (549)
T ss_dssp             -CSSTTCCCSSSSSSSHHHH-HHHHHHTSCHHHHHHTTGGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHH-H
T ss_pred             -cHHHHHHHHhcccccccHH-HHHHHhccchhhhhHhhheeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHH-H
Confidence             1235777899999999998 999999           99999 444444  8999999  99974   346778877 8


Q ss_pred             HhhhhcccccC
Q 048213          373 VIDLTYMNLLS  383 (532)
Q Consensus       373 ~l~l~~~~l~~  383 (532)
                      +-+|...++..
T Consensus       434 l~~L~~rsLl~  444 (549)
T 2a5y_B          434 LKRLSKRGALL  444 (549)
T ss_dssp             HHHTTTBSSCS
T ss_pred             HHHHHHcCCee
Confidence            88888877743

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=100.00  E-value=8.2e-33  Score=322.31  Aligned_cols=245  Identities=20%  Similarity=0.240  Sum_probs=191.4

Q ss_pred             cccccccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhc-cCCCC-EEEEeccCc----------
Q 048213          102 NKDYEAFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN-EKLFD-RVIFVEESE----------  167 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~~~F~-~~~~~~~~~----------  167 (532)
                      +.....|+||++++++|.++|.  ++++++|+|+||||+||||||+++|++.+. ..+|. ..+|...+.          
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  199 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKL  199 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHH
T ss_pred             CCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHH
Confidence            4456779999999999999996  467899999999999999999999998654 34454 343332211          


Q ss_pred             ---------------------hhhHHHHHHHHhc-cCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHHhhh
Q 048213          168 ---------------------SGRARSLCNRLKK-EKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSR  225 (532)
Q Consensus       168 ---------------------~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~  225 (532)
                                           ......++..+.. ++|+||||||||+..+|+.+       .+||+||||||++.++..
T Consensus       200 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~~~~~  272 (1249)
T 3sfz_A          200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKSVTDS  272 (1249)
T ss_dssp             HHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTTTTTT
T ss_pred             HHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHHHHHh
Confidence                                 1122333333332 24999999999999887765       568999999999999754


Q ss_pred             cCCCCceEEccC-CCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHHccCChHHHHHHHHHhcCCC
Q 048213          226 KMDSQQDFWVGV-LKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPS  304 (532)
Q Consensus       226 ~~~~~~~~~l~~-L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~l~~~~~~~  304 (532)
                      .......+.+.+ |++++|++||...++..  .+...+.+++|+++|+|+||||+++|++|+.++ ..|...++.+....
T Consensus       273 ~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~--~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~l~~~~  349 (1249)
T 3sfz_A          273 VMGPKHVVPVESGLGREKGLEILSLFVNMK--KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQ  349 (1249)
T ss_dssp             CCSCBCCEECCSSCCHHHHHHHHHHHHTSC--STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHHHHSCC
T ss_pred             hcCCceEEEecCCCCHHHHHHHHHHhhCCC--hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHHHhhhh
Confidence            466678899996 99999999999998633  234456799999999999999999999999775 46888888775432


Q ss_pred             C----CCCCCchhHHHHHHHhhcCCCCCchHHHHHHHHhhh---hcCChhHHHHHHHHhc
Q 048213          305 S----TNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYT---AIASIDDLLMYGMGLG  357 (532)
Q Consensus       305 ~----~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f~~lalF---~~i~~~~Li~~w~aeg  357 (532)
                      .    .........+..++.+||+.||++ .|+||+|||+|   +.|+.+.++.+|.+++
T Consensus       350 ~~~~~~~~~~~~~~~~~~l~~s~~~L~~~-~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~  408 (1249)
T 3sfz_A          350 FKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCVLWDLET  408 (1249)
T ss_dssp             CCCSSCTTCTTHHHHHHHHHHHHHTSCTT-THHHHHHGGGSCTTCCEEHHHHHHHHTCCH
T ss_pred             hhhcccccccchHHHHHHHHHHHHhCCHH-HHHHHHHhCccCCCCeeCHHHHHHHhCCCH
Confidence            1    112223467999999999999999 99999999999   6899999999997653

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

Probab=99.97  E-value=7.9e-32  Score=290.80  Aligned_cols=219  Identities=21%  Similarity=0.188  Sum_probs=172.5

Q ss_pred             cccchHHHHHHHHHhcC-CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCE-EEEeccCch-----------------
Q 048213          108 FESRMSTFNDILNALKS-PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDR-VIFVEESES-----------------  168 (532)
Q Consensus       108 ~~gR~~~~~~i~~~l~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~~~~~~~~-----------------  168 (532)
                      .+||++++++|.++|.. ++.++|+|+||||+||||||+++|++.+++.+|+. .+|...+..                 
T Consensus       130 ~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL~~i  209 (1221)
T 1vt4_I          130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI  209 (1221)
T ss_dssp             CCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHhhc
Confidence            39999999999999974 56899999999999999999999998877778986 443221110                 


Q ss_pred             -------------------hhHHHHHHHHh--ccCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHHhhhcC
Q 048213          169 -------------------GRARSLCNRLK--KEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKM  227 (532)
Q Consensus       169 -------------------~~~~~l~~~l~--~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~~~  227 (532)
                                         .....+.+.|.  .++|+||||||||+.++|+.+.       +||+||||||++.++.. +
T Consensus       210 ~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~~Va~~-l  281 (1221)
T 1vt4_I          210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFKQVTDF-L  281 (1221)
T ss_dssp             CSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCSHHHHH-H
T ss_pred             CcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccChHHHHh-c
Confidence                               11223444441  2589999999999988887651       68999999999998742 2


Q ss_pred             CCCceEEcc------CCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHHccC--ChHHHHHHHHH
Q 048213          228 DSQQDFWVG------VLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNK--RLFDWKDALEQ  299 (532)
Q Consensus       228 ~~~~~~~l~------~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~--~~~~w~~~l~~  299 (532)
                      .....+.++      +|+.+||++||.+..+..     ..+...+|   |+|+||||+++|+.|+++  +.++|...   
T Consensus       282 ~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g~~-----~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~eeW~~~---  350 (1221)
T 1vt4_I          282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-----PQDLPREV---LTTNPRRLSIIAESIRDGLATWDNWKHV---  350 (1221)
T ss_dssp             HHHSSCEEEECSSSSCCCHHHHHHHHHHHHCCC-----TTTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHHHHHC---
T ss_pred             CCCeEEEecCccccCCcCHHHHHHHHHHHcCCC-----HHHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHHHhcC---
Confidence            223356666      999999999999985432     12233343   999999999999999977  77888652   


Q ss_pred             hcCCCCCCCCCchhHHHHHHHhhcCCCCCchH-HHHHHHHhhh---hcCChhHHHHHHHHhc
Q 048213          300 LRWPSSTNFKDIQPTAYKAIELSYVKLDGDEL-KNIFLLIGYT---AIASIDDLLMYGMGLG  357 (532)
Q Consensus       300 ~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~-k~~f~~lalF---~~i~~~~Li~~w~aeg  357 (532)
                                 ....+..++.+||+.||++ . |+||++||+|   +.|+.+.++.+|.++|
T Consensus       351 -----------~~~~I~aaLelSYd~Lp~e-elK~cFL~LAIFPed~~I~~elLa~LW~aeG  400 (1221)
T 1vt4_I          351 -----------NCDKLTTIIESSLNVLEPA-EYRKMFDRLSVFPPSAHIPTILLSLIWFDVI  400 (1221)
T ss_dssp             -----------SCHHHHHHHHHHHHHSCTT-HHHHHHHHTTSSCTTSCEEHHHHHHHHCSSC
T ss_pred             -----------ChhHHHHHHHHHHHhCCHH-HHHHHHHHHhCCCCCCCCCHHHHHHHhcCCC
Confidence                       1467999999999999999 8 9999999999   5788899999999886

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.96  E-value=6e-29  Score=267.24  Aligned_cols=241  Identities=20%  Similarity=0.249  Sum_probs=182.6

Q ss_pred             ccccccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhc-cCCCC-EEEEeccC------------
Q 048213          103 KDYEAFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN-EKLFD-RVIFVEES------------  166 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~~~F~-~~~~~~~~------------  166 (532)
                      .....|+||+.++++|.+++.  .++.++|+|+||||+||||||.+++++..+ +.+|+ .++|...+            
T Consensus       121 ~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~l~  200 (591)
T 1z6t_A          121 QRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQ  200 (591)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHHHH
T ss_pred             CCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHHHH
Confidence            345679999999999999997  456799999999999999999999987655 55684 34422111            


Q ss_pred             -------------------chhhHHHHHHHHhc-cCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHHhhhc
Q 048213          167 -------------------ESGRARSLCNRLKK-EKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRK  226 (532)
Q Consensus       167 -------------------~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~~  226 (532)
                                         .......+.+.+.. .+++||||||+|+...++.+       .+|++||||||+..++.. 
T Consensus       201 ~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~~~~~~-  272 (591)
T 1z6t_A          201 NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDS-  272 (591)
T ss_dssp             HHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCGGGGTT-
T ss_pred             HHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCcHHHHh-
Confidence                               01123334444442 27899999999987766543       468999999999988642 


Q ss_pred             CCCCceEEc---cCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHHccCChHHHHHHHHHhcCC
Q 048213          227 MDSQQDFWV---GVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWP  303 (532)
Q Consensus       227 ~~~~~~~~l---~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~l~~~~~~  303 (532)
                      .. ...+.+   ++|+.+++++||...++..  .....+.+.+|+++|+|+||||..+|+.++... ..|...++.+...
T Consensus       273 ~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~--~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l~~l~~~  348 (591)
T 1z6t_A          273 VM-GPKYVVPVESSLGKEKGLEILSLFVNMK--KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNK  348 (591)
T ss_dssp             CC-SCEEEEECCSSCCHHHHHHHHHHHHTSC--GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHHHHHHSC
T ss_pred             cC-CCceEeecCCCCCHHHHHHHHHHHhCCC--cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHHHHHHHh
Confidence            22 344554   5899999999999998742  223356789999999999999999999998763 3688888877643


Q ss_pred             CC----CCCCCchhHHHHHHHhhcCCCCCchHHHHHHHHhhh---hcCChhHHHHHHHHh
Q 048213          304 SS----TNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYT---AIASIDDLLMYGMGL  356 (532)
Q Consensus       304 ~~----~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f~~lalF---~~i~~~~Li~~w~ae  356 (532)
                      ..    .........+..++..||+.||++ .|.||.++|+|   ..|+.+.+..+|.++
T Consensus       349 ~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~-~~~~l~~la~f~~~~~i~~~~l~~l~~~~  407 (591)
T 1z6t_A          349 QFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDYYTDLSILQKDVKVPTKVLCILWDME  407 (591)
T ss_dssp             CCCCSSCCCSSCCHHHHHHHHHHHHTSCTT-THHHHHHGGGCCTTCCEEHHHHHHHHTCC
T ss_pred             HHHHhhhccccchHHHHHHHHHHHHhCCHH-HHHHHHHccccCCCCccCHHHHHHHhccC
Confidence            21    111223468999999999999999 99999999999   468888999999654

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.65  E-value=4.2e-16  Score=154.32  Aligned_cols=153  Identities=27%  Similarity=0.292  Sum_probs=92.7

Q ss_pred             HHhhHHhhhhcccccCCchhhhccccccEEEeccccccC--ccccc---------ccccccEEeecccccccc-----cc
Q 048213          368 ARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLG---------ELKILEILRLRVNELTRA-----GS  431 (532)
Q Consensus       368 ~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~---------~l~~L~~L~l~~~~l~~~-----~l  431 (532)
                      +...+.+++.+|.+..+|..++.+++|++|++++|....  +..+.         .+++|++|++++|.++.+     .+
T Consensus       126 l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l~~L~~L~L~~n~l~~lp~~l~~l  205 (328)
T 4fcg_A          126 FAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANL  205 (328)
T ss_dssp             GTTCSEEEEESCCCCCCCGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEESTTCCEEEEEEECCCCCCGGGGGC
T ss_pred             cCCCCEEECCCCccccCcHHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccCCCCCEEECcCCCcCcchHhhcCC
Confidence            334455555555555555556666666666665554333  22222         356666666666655544     45


Q ss_pred             CCcceEEeccccccCCCCCcccccCCCCCEEecCCcccc-cccccccccccccCCCccEEEeccCCCCCccchhhhhhcC
Q 048213          432 SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIE-RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSF  510 (532)
Q Consensus       432 ~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~-~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L  510 (532)
                      ++|++|++++|.+  ...+..++.+++|++|+|++|++. .+|..+     ..+++|++|+|++|+.++.+ |..+ +.+
T Consensus       206 ~~L~~L~L~~N~l--~~l~~~l~~l~~L~~L~Ls~n~~~~~~p~~~-----~~l~~L~~L~L~~n~~~~~~-p~~~-~~l  276 (328)
T 4fcg_A          206 QNLKSLKIRNSPL--SALGPAIHHLPKLEELDLRGCTALRNYPPIF-----GGRAPLKRLILKDCSNLLTL-PLDI-HRL  276 (328)
T ss_dssp             TTCCEEEEESSCC--CCCCGGGGGCTTCCEEECTTCTTCCBCCCCT-----TCCCCCCEEECTTCTTCCBC-CTTG-GGC
T ss_pred             CCCCEEEccCCCC--CcCchhhccCCCCCEEECcCCcchhhhHHHh-----cCCCCCCEEECCCCCchhhc-chhh-hcC
Confidence            5666666666655  345555666666666666666333 334433     56777888888777777777 6665 678


Q ss_pred             CCccEEEeecCCccccccc
Q 048213          511 VGLQCLEICECPVLKEIIV  529 (532)
Q Consensus       511 ~~L~~L~l~~c~~L~~i~~  529 (532)
                      ++|++|+|++|+.+..++.
T Consensus       277 ~~L~~L~L~~n~~~~~iP~  295 (328)
T 4fcg_A          277 TQLEKLDLRGCVNLSRLPS  295 (328)
T ss_dssp             TTCCEEECTTCTTCCCCCG
T ss_pred             CCCCEEeCCCCCchhhccH
Confidence            8888888888877776654

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV}

Probab=99.64  E-value=7.8e-16  Score=152.37  Aligned_cols=153  Identities=18%  Similarity=0.209  Sum_probs=118.5

Q ss_pred             HHhhHHhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc---------------cc
Q 048213          368 ARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA---------------GS  431 (532)
Q Consensus       368 ~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~---------------~l  431 (532)
                      +...+++++.+|.+..+|..++.+++|++|++++|.+.. |..+.++++|++|++++|++...               .+
T Consensus       103 l~~L~~L~L~~n~l~~lp~~~~~l~~L~~L~Ls~n~l~~lp~~l~~l~~L~~L~L~~n~~~~~~p~~~~~~~~~~~~~~l  182 (328)
T 4fcg_A          103 LSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGL  182 (328)
T ss_dssp             GTTCSEEEEESSCCCCCCSCGGGGTTCSEEEEESCCCCCCCGGGGGCTTCCEEEEEEETTCCCCCSCSEEEC-CCCEEES
T ss_pred             CCCCCEEECCCCCccchhHHHhccCCCCEEECCCCccccCcHHHhcCcCCCEEECCCCCCccccChhHhhccchhhhccC
Confidence            445567777777777777777778888888888877776 55677788888888877644332               27


Q ss_pred             CCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCC
Q 048213          432 SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFV  511 (532)
Q Consensus       432 ~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~  511 (532)
                      ++|++|++++|.+  ...|..++++++|++|+|++|.++.+|+.+     ..+++|++|+|++|+..+.+ |..+ +.++
T Consensus       183 ~~L~~L~L~~n~l--~~lp~~l~~l~~L~~L~L~~N~l~~l~~~l-----~~l~~L~~L~Ls~n~~~~~~-p~~~-~~l~  253 (328)
T 4fcg_A          183 VNLQSLRLEWTGI--RSLPASIANLQNLKSLKIRNSPLSALGPAI-----HHLPKLEELDLRGCTALRNY-PPIF-GGRA  253 (328)
T ss_dssp             TTCCEEEEEEECC--CCCCGGGGGCTTCCEEEEESSCCCCCCGGG-----GGCTTCCEEECTTCTTCCBC-CCCT-TCCC
T ss_pred             CCCCEEECcCCCc--CcchHhhcCCCCCCEEEccCCCCCcCchhh-----ccCCCCCEEECcCCcchhhh-HHHh-cCCC
Confidence            7888888888876  467777888888888888888888887766     67889999999988877777 6666 7889


Q ss_pred             CccEEEeecCCccccccc
Q 048213          512 GLQCLEICECPVLKEIIV  529 (532)
Q Consensus       512 ~L~~L~l~~c~~L~~i~~  529 (532)
                      +|++|+|++|+.+..++.
T Consensus       254 ~L~~L~L~~n~~~~~~p~  271 (328)
T 4fcg_A          254 PLKRLILKDCSNLLTLPL  271 (328)
T ss_dssp             CCCEEECTTCTTCCBCCT
T ss_pred             CCCEEECCCCCchhhcch
Confidence            999999999887776653

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.58  E-value=4.8e-15  Score=135.33  Aligned_cols=147  Identities=20%  Similarity=0.178  Sum_probs=126.0

Q ss_pred             cHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc------ccCCcceE
Q 048213          364 RMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA------GSSQLKHL  437 (532)
Q Consensus       364 ~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L  437 (532)
                      +..++...+.+++.++.+..+| .+..+++|++|++++|.+..++.+..+++|++|++++|.+...      .+++|++|
T Consensus        39 ~~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l~~~~~~~l~~l~~L~~L  117 (197)
T 4ezg_A           39 TEAQMNSLTYITLANINVTDLT-GIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLL  117 (197)
T ss_dssp             BHHHHHTCCEEEEESSCCSCCT-TGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTCBGGGSCCCTTCTTCCEE
T ss_pred             ChhhcCCccEEeccCCCccChH-HHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCccCcccChhhcCCCCCCEE
Confidence            3456666788999999999888 6999999999999999888888999999999999999998863      78899999


Q ss_pred             EeccccccCCCCCcccccCCCCCEEecCCcc-cccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEE
Q 048213          438 SVRGLRASAPNPTESEVALPKLETVCLSSIN-IERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL  516 (532)
Q Consensus       438 ~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~-l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L  516 (532)
                      ++++|.+ ....+..+..+++|++|+|++|. ++.+| .+     ..+++|++|++++|. +..+ + .+ ..+++|++|
T Consensus       118 ~Ls~n~i-~~~~~~~l~~l~~L~~L~L~~n~~i~~~~-~l-----~~l~~L~~L~l~~n~-i~~~-~-~l-~~l~~L~~L  186 (197)
T 4ezg_A          118 DISHSAH-DDSILTKINTLPKVNSIDLSYNGAITDIM-PL-----KTLPELKSLNIQFDG-VHDY-R-GI-EDFPKLNQL  186 (197)
T ss_dssp             ECCSSBC-BGGGHHHHTTCSSCCEEECCSCTBCCCCG-GG-----GGCSSCCEEECTTBC-CCCC-T-TG-GGCSSCCEE
T ss_pred             EecCCcc-CcHhHHHHhhCCCCCEEEccCCCCccccH-hh-----cCCCCCCEEECCCCC-CcCh-H-Hh-ccCCCCCEE
Confidence            9999987 44467788999999999999997 88886 34     678999999999865 7777 4 44 789999999


Q ss_pred             EeecCC
Q 048213          517 EICECP  522 (532)
Q Consensus       517 ~l~~c~  522 (532)
                      ++++++
T Consensus       187 ~l~~N~  192 (197)
T 4ezg_A          187 YAFSQT  192 (197)
T ss_dssp             EECBC-
T ss_pred             EeeCcc
Confidence            999875

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.58  E-value=1.6e-14  Score=138.96  Aligned_cols=146  Identities=23%  Similarity=0.196  Sum_probs=86.9

Q ss_pred             HhhHHhhhhcccccCCchhhhccccccEEEeccccccCc--ccccccccccEEeecccccccc------ccCCcceEEec
Q 048213          369 RARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       369 ~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~--~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      ...+.+++.+|.+..++ .++.+++|++|++++|.+...  ..+.++++|++|++++|++..+      .+++|++|+++
T Consensus        63 ~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~  141 (272)
T 3rfs_A           63 PNVRYLALGGNKLHDIS-ALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLA  141 (272)
T ss_dssp             TTCCEEECTTSCCCCCG-GGTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCCcEEECCCCCCCCch-hhcCCCCCCEEECCCCccCccChhHhcCCcCCCEEECCCCcCCccCHHHhccCCCCCEEECC
Confidence            33455566666555543 456666666666666666552  2356666666666666665554      34566666666


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeec
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICE  520 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~  520 (532)
                      +|.+ ....+..+..+++|++|++++|.++.+|...+    ..+++|++|+|++|. +..+++..+ +.+++|++|++++
T Consensus       142 ~n~l-~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~----~~l~~L~~L~L~~N~-l~~~~~~~~-~~l~~L~~L~l~~  214 (272)
T 3rfs_A          142 HNQL-QSLPKGVFDKLTNLTELDLSYNQLQSLPEGVF----DKLTQLKDLRLYQNQ-LKSVPDGVF-DRLTSLQYIWLHD  214 (272)
T ss_dssp             SSCC-CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTT----TTCTTCCEEECCSSC-CSCCCTTTT-TTCTTCCEEECCS
T ss_pred             CCcc-CccCHHHhccCccCCEEECCCCCcCccCHHHh----cCCccCCEEECCCCc-CCccCHHHH-hCCcCCCEEEccC
Confidence            6655 22233345666677777777776666655431    356777777777643 566644434 6677777777776


Q ss_pred             CC
Q 048213          521 CP  522 (532)
Q Consensus       521 c~  522 (532)
                      |+
T Consensus       215 N~  216 (272)
T 3rfs_A          215 NP  216 (272)
T ss_dssp             SC
T ss_pred             CC
Confidence            54

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.57  E-value=1.3e-14  Score=135.81  Aligned_cols=140  Identities=19%  Similarity=0.185  Sum_probs=119.8

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccccc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRA  444 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~  444 (532)
                      .++..++.+..+|..+.  ++|++|++++|.+..  +..+..+++|++|++++|++..+      .+++|++|+|++|++
T Consensus        23 ~v~c~~~~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l  100 (229)
T 3e6j_A           23 TVDCRSKRHASVPAGIP--TNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQL  100 (229)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EeEccCCCcCccCCCCC--CCCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcC
Confidence            45667778888888664  899999999999988  45689999999999999998877      678999999999987


Q ss_pred             cCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          445 SAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       445 ~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                       ....+..+..+++|++|+|++|.|+.+|..+     ..+++|++|+|++ +.+..+++..+ +.+++|++|++++++
T Consensus       101 -~~l~~~~~~~l~~L~~L~Ls~N~l~~lp~~~-----~~l~~L~~L~L~~-N~l~~~~~~~~-~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          101 -TVLPSAVFDRLVHLKELFMCCNKLTELPRGI-----ERLTHLTHLALDQ-NQLKSIPHGAF-DRLSSLTHAYLFGNP  170 (229)
T ss_dssp             -CCCCTTTTTTCTTCCEEECCSSCCCSCCTTG-----GGCTTCSEEECCS-SCCCCCCTTTT-TTCTTCCEEECTTSC
T ss_pred             -CccChhHhCcchhhCeEeccCCcccccCccc-----ccCCCCCEEECCC-CcCCccCHHHH-hCCCCCCEEEeeCCC
Confidence             3444456789999999999999999999887     7889999999998 56888955455 899999999999886

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.56  E-value=1.6e-14  Score=137.17  Aligned_cols=146  Identities=25%  Similarity=0.263  Sum_probs=120.6

Q ss_pred             hHHhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          371 RVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      .+.+++.++.+..++. .+..+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|+|++
T Consensus        37 l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~  116 (251)
T 3m19_A           37 TEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGG  116 (251)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCcccccChhHhcccCCCCEEEcCC
Confidence            3568888998888755 58999999999999999888  34588999999999999998876      578999999999


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      |.+ ....+..+..+++|++|+|++|.++.+|...+    ..+++|++|+|+++ .+..+++..+ +.+++|++|+|+++
T Consensus       117 N~l-~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~----~~l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~l~~N  189 (251)
T 3m19_A          117 NQL-KSLPSGVFDRLTKLKELRLNTNQLQSIPAGAF----DKLTNLQTLSLSTN-QLQSVPHGAF-DRLGKLQTITLFGN  189 (251)
T ss_dssp             SCC-CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTT----TTCTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSC
T ss_pred             CcC-CCcChhHhccCCcccEEECcCCcCCccCHHHc----CcCcCCCEEECCCC-cCCccCHHHH-hCCCCCCEEEeeCC
Confidence            987 33344457889999999999999998887542    57899999999984 5788855555 78999999999988


Q ss_pred             Cc
Q 048213          522 PV  523 (532)
Q Consensus       522 ~~  523 (532)
                      +-
T Consensus       190 ~~  191 (251)
T 3m19_A          190 QF  191 (251)
T ss_dssp             CB
T ss_pred             ce
Confidence            63

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.55  E-value=2.3e-14  Score=137.65  Aligned_cols=144  Identities=27%  Similarity=0.273  Sum_probs=72.2

Q ss_pred             HHhhhhcccccCCchh-hhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      +.+++.++.+..+|.. +..+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|++++|
T Consensus        64 ~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n  143 (270)
T 2o6q_A           64 RLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN  143 (270)
T ss_dssp             CEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS
T ss_pred             CEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCCCccCeeCHHHhCcCcCCCEEECCCC
Confidence            4444445555444433 3445555555555555444  12344555555555555544443      3455555555555


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      .+ ....+..+..+++|++|+|++|.++.+|...+    .++++|++|+|++| .+..+++..+ +.+++|++|+|++++
T Consensus       144 ~l-~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~----~~l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~l~~N~  216 (270)
T 2o6q_A          144 EL-QSLPKGVFDKLTSLKELRLYNNQLKRVPEGAF----DKLTELKTLKLDNN-QLKRVPEGAF-DSLEKLKMLQLQENP  216 (270)
T ss_dssp             CC-CCCCTTTTTTCTTCCEEECCSSCCSCCCTTTT----TTCTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSSC
T ss_pred             cC-CccCHhHccCCcccceeEecCCcCcEeChhHh----ccCCCcCEEECCCC-cCCcCCHHHh-ccccCCCEEEecCCC
Confidence            44 22222234555556666665555555554431    24566666666653 3555533333 556666666666554

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A

Probab=99.54  E-value=1.7e-14  Score=138.73  Aligned_cols=171  Identities=20%  Similarity=0.143  Sum_probs=137.8

Q ss_pred             HHHHHHHhcccCCcccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeeccccccc
Q 048213          349 LLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR  428 (532)
Q Consensus       349 Li~~w~aeg~~~~~~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~  428 (532)
                      ++.......-+.......++...+.+++.++.+..++ .++.+++|++|++++|.+..++.+.++++|++|++++|.++.
T Consensus        21 l~~l~l~~~~~~~~~~~~~l~~L~~L~l~~~~i~~~~-~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~n~l~~   99 (272)
T 3rfs_A           21 TIKANLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQS   99 (272)
T ss_dssp             HHHHHHTCSCTTSEECHHHHTTCCEEECTTSCCCCCT-TGGGCTTCCEEECTTSCCCCCGGGTTCTTCCEEECTTSCCCC
T ss_pred             HHHHHhcCcccccccccccccceeeeeeCCCCccccc-ccccCCCCcEEECCCCCCCCchhhcCCCCCCEEECCCCccCc
Confidence            3333443333444456677777788889998887776 489999999999999999998899999999999999999887


Q ss_pred             c------ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccc
Q 048213          429 A------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLF  502 (532)
Q Consensus       429 ~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~  502 (532)
                      +      .+++|++|++++|.+ ....+..++.+++|++|++++|.++.+|...+    ..+++|++|++++|. +..++
T Consensus       100 ~~~~~~~~l~~L~~L~L~~n~l-~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~----~~l~~L~~L~l~~n~-l~~~~  173 (272)
T 3rfs_A          100 LPNGVFDKLTNLKELVLVENQL-QSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVF----DKLTNLTELDLSYNQ-LQSLP  173 (272)
T ss_dssp             CCTTTTTTCTTCCEEECTTSCC-CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTT----TTCTTCCEEECCSSC-CCCCC
T ss_pred             cChhHhcCCcCCCEEECCCCcC-CccCHHHhccCCCCCEEECCCCccCccCHHHh----ccCccCCEEECCCCC-cCccC
Confidence            6      578999999999987 44445568999999999999999998887652    468999999999864 78885


Q ss_pred             hhhhhhcCCCccEEEeecCCcccccc
Q 048213          503 TSSIISSFVGLQCLEICECPVLKEII  528 (532)
Q Consensus       503 p~~~~~~L~~L~~L~l~~c~~L~~i~  528 (532)
                      +..+ +.+++|++|++++|. ++.++
T Consensus       174 ~~~~-~~l~~L~~L~L~~N~-l~~~~  197 (272)
T 3rfs_A          174 EGVF-DKLTQLKDLRLYQNQ-LKSVP  197 (272)
T ss_dssp             TTTT-TTCTTCCEEECCSSC-CSCCC
T ss_pred             HHHh-cCCccCCEEECCCCc-CCccC
Confidence            5545 789999999999885 44443

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.52  E-value=4.4e-14  Score=131.32  Aligned_cols=141  Identities=18%  Similarity=0.287  Sum_probs=117.8

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccccc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRA  444 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~  444 (532)
                      .+++.++.+..+|..+.  ++++.|++++|.+..  +..+..+++|++|++++|.+..+      .+++|++|+|++|.+
T Consensus        15 ~v~c~~~~l~~iP~~l~--~~l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l   92 (220)
T 2v9t_B           15 IVDCRGKGLTEIPTNLP--ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKI   92 (220)
T ss_dssp             EEECTTSCCSSCCSSCC--TTCCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCC
T ss_pred             EEEcCCCCcCcCCCccC--cCCCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcC
Confidence            45677788888988764  689999999999988  34789999999999999998877      678999999999987


Q ss_pred             cCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          445 SAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       445 ~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                       ..-.+..|.++++|++|+|++|.|+.+++..+    ..+++|++|+|++ +.+..+++..+ +.+++|++|+|++++
T Consensus        93 -~~l~~~~f~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~L~~-N~l~~~~~~~~-~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B           93 -TELPKSLFEGLFSLQLLLLNANKINCLRVDAF----QDLHNLNLLSLYD-NKLQTIAKGTF-SPLRAIQTMHLAQNP  163 (220)
T ss_dssp             -CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTT----TTCTTCCEEECCS-SCCSCCCTTTT-TTCTTCCEEECCSSC
T ss_pred             -CccCHhHccCCCCCCEEECCCCCCCEeCHHHc----CCCCCCCEEECCC-CcCCEECHHHH-hCCCCCCEEEeCCCC
Confidence             33334457899999999999999998866542    5789999999998 55888855555 789999999999886

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.51  E-value=1.1e-13  Score=134.44  Aligned_cols=149  Identities=24%  Similarity=0.241  Sum_probs=72.9

Q ss_pred             CcccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcce
Q 048213          361 GIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKH  436 (532)
Q Consensus       361 ~~~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~  436 (532)
                      +.....++...+.+++.++.+..+|. +..+++|++|++++|.+.+.+.+.++++|++|++++|.+..+    .+++|++
T Consensus        38 ~~~~~~~l~~L~~L~l~~~~i~~~~~-~~~l~~L~~L~L~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~  116 (291)
T 1h6t_A           38 DAVTQNELNSIDQIIANNSDIKSVQG-IQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSSLKDLKKLKS  116 (291)
T ss_dssp             SEECHHHHHTCCEEECTTSCCCCCTT-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGGGGTTCTTCCE
T ss_pred             cccchhhcCcccEEEccCCCcccChh-HhcCCCCCEEEccCCccCCCcccccCCCCCEEECCCCcCCCChhhccCCCCCE
Confidence            33344455555555555555555543 555555555555555555533355555555555555554444    3444555


Q ss_pred             EEeccccccC--------------------CCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          437 LSVRGLRASA--------------------PNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       437 L~l~~~~~~~--------------------~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      |++++|++..                    ... ..+..+++|++|++++|.++.+++ +     ..+++|+.|+|++| 
T Consensus       117 L~L~~n~i~~~~~l~~l~~L~~L~l~~n~l~~~-~~l~~l~~L~~L~L~~N~l~~~~~-l-----~~l~~L~~L~L~~N-  188 (291)
T 1h6t_A          117 LSLEHNGISDINGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLEDNQISDIVP-L-----AGLTKLQNLYLSKN-  188 (291)
T ss_dssp             EECTTSCCCCCGGGGGCTTCCEEECCSSCCCCC-GGGGGCTTCSEEECCSSCCCCCGG-G-----TTCTTCCEEECCSS-
T ss_pred             EECCCCcCCCChhhcCCCCCCEEEccCCcCCcc-hhhccCCCCCEEEccCCccccchh-h-----cCCCccCEEECCCC-
Confidence            5555543300                    111 334444555555555554444433 2     34455555555543 


Q ss_pred             CCCccchhhhhhcCCCccEEEeecC
Q 048213          497 NLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       497 ~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      .++.+ +. + ..+++|++|++++|
T Consensus       189 ~i~~l-~~-l-~~l~~L~~L~l~~n  210 (291)
T 1h6t_A          189 HISDL-RA-L-AGLKNLDVLELFSQ  210 (291)
T ss_dssp             CCCBC-GG-G-TTCTTCSEEEEEEE
T ss_pred             cCCCC-hh-h-ccCCCCCEEECcCC
Confidence            34444 22 2 45555555555554

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A

Probab=99.51  E-value=6.6e-14  Score=132.92  Aligned_cols=147  Identities=20%  Similarity=0.222  Sum_probs=123.2

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      ..+++.++.+..+|..+.  ++++.|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|++++|.
T Consensus        17 ~~l~~~~~~l~~~p~~~~--~~l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~   94 (251)
T 3m19_A           17 KEVDCQGKSLDSVPSGIP--ADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQ   94 (251)
T ss_dssp             TEEECTTCCCSSCCSCCC--TTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             eEEecCCCCccccCCCCC--CCCCEEEccCCCcCccCHhHhcCcccCCEEECCCCcCCccCHhHhccCCcCCEEECCCCc
Confidence            356788888999998765  689999999999988  44689999999999999998876      67899999999998


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCc
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPV  523 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~  523 (532)
                      + ....+..+..+++|++|+|++|.++.+|...+    ..+++|++|+|+++ .+..+++..+ +.+++|++|+|+++. 
T Consensus        95 l-~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~Ls~N-~l~~~~~~~~-~~l~~L~~L~L~~N~-  166 (251)
T 3m19_A           95 L-ASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVF----DRLTKLKELRLNTN-QLQSIPAGAF-DKLTNLQTLSLSTNQ-  166 (251)
T ss_dssp             C-CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTT----TTCTTCCEEECCSS-CCCCCCTTTT-TTCTTCCEEECCSSC-
T ss_pred             c-cccChhHhcccCCCCEEEcCCCcCCCcChhHh----ccCCcccEEECcCC-cCCccCHHHc-CcCcCCCEEECCCCc-
Confidence            7 44455678899999999999999999888752    46899999999985 6888955455 899999999999874 


Q ss_pred             ccccc
Q 048213          524 LKEII  528 (532)
Q Consensus       524 L~~i~  528 (532)
                      |+.++
T Consensus       167 l~~~~  171 (251)
T 3m19_A          167 LQSVP  171 (251)
T ss_dssp             CSCCC
T ss_pred             CCccC
Confidence            44443

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri}

Probab=99.50  E-value=7.6e-14  Score=134.05  Aligned_cols=150  Identities=27%  Similarity=0.282  Sum_probs=125.9

Q ss_pred             hHHhhhhcccccCCch-hhhccccccEEEeccccccCc--ccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          371 RVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~~--~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      .+.+++.++.+..+|. .|..+++|++|++++|.+...  ..+.++++|++|++++|.+..+      .+++|++|++++
T Consensus        39 l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~  118 (270)
T 2o6q_A           39 TKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDR  118 (270)
T ss_dssp             CSEEECCSSCCSCCCTTSSSSCTTCCEEECCSSCCSCCCTTTTSSCTTCCEEECCSSCCCCCCTTTTTTCSSCCEEECCS
T ss_pred             CCEEECcCCCCCeeCHHHhcCCCCCCEEECCCCccCeeChhhhcCCCCCCEEECCCCcCCcCCHhHcccccCCCEEECCC
Confidence            3578899999988876 599999999999999999883  3468899999999999998876      578999999999


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      |.+ ....+..+..+++|++|+|++|.++.+|...+    ..+++|++|+|++| .+..+++..+ +.+++|++|+|++|
T Consensus       119 n~l-~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~----~~l~~L~~L~L~~n-~l~~~~~~~~-~~l~~L~~L~L~~N  191 (270)
T 2o6q_A          119 NQL-KSLPPRVFDSLTKLTYLSLGYNELQSLPKGVF----DKLTSLKELRLYNN-QLKRVPEGAF-DKLTELKTLKLDNN  191 (270)
T ss_dssp             SCC-CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTT----TTCTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSS
T ss_pred             Ccc-CeeCHHHhCcCcCCCEEECCCCcCCccCHhHc----cCCcccceeEecCC-cCcEeChhHh-ccCCCcCEEECCCC
Confidence            987 44455678999999999999999999887752    46899999999985 5888855555 78999999999988


Q ss_pred             Ccccccc
Q 048213          522 PVLKEII  528 (532)
Q Consensus       522 ~~L~~i~  528 (532)
                       .++.+.
T Consensus       192 -~l~~~~  197 (270)
T 2o6q_A          192 -QLKRVP  197 (270)
T ss_dssp             -CCSCCC
T ss_pred             -cCCcCC
Confidence             455543

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.50  E-value=5.5e-14  Score=136.45  Aligned_cols=143  Identities=24%  Similarity=0.231  Sum_probs=93.1

Q ss_pred             HHhhhhcccccCC-chhhhccccccEEEeccccccCcccccccccccEEeecccccccc-----ccCCcceEEecccccc
Q 048213          372 VVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRAS  445 (532)
Q Consensus       372 ~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~~  445 (532)
                      +.+++.+|.+..+ |..+..+++|++|++++|.+..++....+++|++|++++|.+..+     .+++|++|++++|++ 
T Consensus        34 ~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l-  112 (290)
T 1p9a_G           34 TILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRL-  112 (290)
T ss_dssp             CEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCC-
T ss_pred             CEEEcCCCcCCccCHHHhhcCCCCCEEECCCCccCcccCCCCCCcCCEEECCCCcCCcCchhhccCCCCCEEECCCCcC-
Confidence            4567777777665 345777777777777777776644446677777777777776655     456777777777765 


Q ss_pred             CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          446 APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       446 ~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      ....+..|.++++|++|+|++|.++.+|...+    ..+++|+.|+|++ +.++.+++..+ ..+++|++|+|+++
T Consensus       113 ~~l~~~~~~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~L~~-N~l~~l~~~~~-~~l~~L~~L~L~~N  182 (290)
T 1p9a_G          113 TSLPLGALRGLGELQELYLKGNELKTLPPGLL----TPTPKLEKLSLAN-NNLTELPAGLL-NGLENLDTLLLQEN  182 (290)
T ss_dssp             CCCCSSTTTTCTTCCEEECTTSCCCCCCTTTT----TTCTTCCEEECTT-SCCSCCCTTTT-TTCTTCCEEECCSS
T ss_pred             cccCHHHHcCCCCCCEEECCCCCCCccChhhc----ccccCCCEEECCC-CcCCccCHHHh-cCcCCCCEEECCCC
Confidence            33334556677777777777777776666542    2466777777765 34666633333 56677777777665

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.50  E-value=1.3e-13  Score=131.81  Aligned_cols=161  Identities=19%  Similarity=0.189  Sum_probs=131.7

Q ss_pred             HHHHHHHHhcccCCcccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccc
Q 048213          348 DLLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELT  427 (532)
Q Consensus       348 ~Li~~w~aeg~~~~~~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~  427 (532)
                      .++.......-+.+...+.++...+.+++.++.+..+| .++.+++|++|++++|.+.+.+.+.++++|++|++++|+++
T Consensus        20 ~l~~l~l~~~~i~~~~~~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L~L~~N~l~   98 (263)
T 1xeu_A           20 NAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLA-GMQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRNRLK   98 (263)
T ss_dssp             HHHHHHHTCSCTTSEECHHHHTTCSEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCCS
T ss_pred             HHHHHHhcCCCcccccchhhcCcCcEEECcCCCcccch-HHhhCCCCCEEECCCCccCCChhhccCCCCCEEECCCCccC
Confidence            34444444444555556778888889999999999888 68999999999999999999555999999999999999988


Q ss_pred             cc---ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchh
Q 048213          428 RA---GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTS  504 (532)
Q Consensus       428 ~~---~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~  504 (532)
                      .+   ..++|++|++++|+.  ... ..+..+++|++|+|++|.++.+| .+     ..+++|++|+|++|. +..+  .
T Consensus        99 ~l~~~~~~~L~~L~L~~N~l--~~~-~~l~~l~~L~~L~Ls~N~i~~~~-~l-----~~l~~L~~L~L~~N~-i~~~--~  166 (263)
T 1xeu_A           99 NLNGIPSACLSRLFLDNNEL--RDT-DSLIHLKNLEILSIRNNKLKSIV-ML-----GFLSKLEVLDLHGNE-ITNT--G  166 (263)
T ss_dssp             CCTTCCCSSCCEEECCSSCC--SBS-GGGTTCTTCCEEECTTSCCCBCG-GG-----GGCTTCCEEECTTSC-CCBC--T
T ss_pred             CcCccccCcccEEEccCCcc--CCC-hhhcCcccccEEECCCCcCCCCh-HH-----ccCCCCCEEECCCCc-Ccch--H
Confidence            76   338899999999976  333 46889999999999999999886 33     578999999999854 7766  3


Q ss_pred             hhhhcCCCccEEEeecCC
Q 048213          505 SIISSFVGLQCLEICECP  522 (532)
Q Consensus       505 ~~~~~L~~L~~L~l~~c~  522 (532)
                      .+ +.+++|++|++++++
T Consensus       167 ~l-~~l~~L~~L~l~~N~  183 (263)
T 1xeu_A          167 GL-TRLKKVNWIDLTGQK  183 (263)
T ss_dssp             TS-TTCCCCCEEEEEEEE
T ss_pred             Hh-ccCCCCCEEeCCCCc
Confidence            33 789999999999875

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.50  E-value=1.9e-13  Score=133.93  Aligned_cols=136  Identities=18%  Similarity=0.222  Sum_probs=66.4

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEeccccccCC
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAP  447 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~  447 (532)
                      +.+++.+|.+..++. +..+++|++|++++|.+..++.+..+++|++|++++|.+..+    .+++|++|++++|..  .
T Consensus        66 ~~L~L~~n~i~~~~~-~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l--~  142 (308)
T 1h6u_A           66 IGLELKDNQITDLAP-LKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQI--T  142 (308)
T ss_dssp             CEEECCSSCCCCCGG-GTTCCSCCEEECCSCCCSCCGGGTTCTTCCEEECTTSCCCCCGGGTTCTTCCEEECCSSCC--C
T ss_pred             CEEEccCCcCCCChh-HccCCCCCEEEccCCcCCCchhhcCCCCCCEEECCCCCCCCchhhcCCCCCCEEECCCCcc--C
Confidence            334444444444433 444444444444444444444444444444444444444433    344555555555543  1


Q ss_pred             CCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          448 NPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       448 ~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      ..+ .+..+++|++|++++|.++.++. +     ..+++|+.|++++| .+..+++  + ..+++|++|++++|
T Consensus       143 ~~~-~l~~l~~L~~L~l~~n~l~~~~~-l-----~~l~~L~~L~l~~n-~l~~~~~--l-~~l~~L~~L~L~~N  205 (308)
T 1h6u_A          143 NIS-PLAGLTNLQYLSIGNAQVSDLTP-L-----ANLSKLTTLKADDN-KISDISP--L-ASLPNLIEVHLKNN  205 (308)
T ss_dssp             CCG-GGGGCTTCCEEECCSSCCCCCGG-G-----TTCTTCCEEECCSS-CCCCCGG--G-GGCTTCCEEECTTS
T ss_pred             cCc-cccCCCCccEEEccCCcCCCChh-h-----cCCCCCCEEECCCC-ccCcChh--h-cCCCCCCEEEccCC
Confidence            221 14555555555555555555443 2     45566666666653 3555522  2 56666666666665

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.50  E-value=9.3e-14  Score=129.09  Aligned_cols=141  Identities=18%  Similarity=0.263  Sum_probs=118.3

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccCc---ccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT---SVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~---~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      .+++.++.+..+|..+.  ..+++|++++|.+...   ..+.++++|++|++++|.++.+      .+++|++|+|++|.
T Consensus        15 ~l~~s~n~l~~iP~~~~--~~~~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~   92 (220)
T 2v70_A           15 TVDCSNQKLNKIPEHIP--QYTAELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNR   92 (220)
T ss_dssp             EEECCSSCCSSCCSCCC--TTCSEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             EeEeCCCCcccCccCCC--CCCCEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCc
Confidence            56788888988988664  4578999999998873   3488999999999999998877      67899999999998


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      + ....+..|.++++|++|+|++|.|+.+++..+    ..+++|++|+|++ +.+..++|..+ +.+++|++|+|++++
T Consensus        93 l-~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~----~~l~~L~~L~L~~-N~l~~~~~~~~-~~l~~L~~L~L~~N~  164 (220)
T 2v70_A           93 L-ENVQHKMFKGLESLKTLMLRSNRITCVGNDSF----IGLSSVRLLSLYD-NQITTVAPGAF-DTLHSLSTLNLLANP  164 (220)
T ss_dssp             C-CCCCGGGGTTCSSCCEEECTTSCCCCBCTTSS----TTCTTCSEEECTT-SCCCCBCTTTT-TTCTTCCEEECCSCC
T ss_pred             c-CccCHhHhcCCcCCCEEECCCCcCCeECHhHc----CCCccCCEEECCC-CcCCEECHHHh-cCCCCCCEEEecCcC
Confidence            7 44455668999999999999999998855432    5789999999998 55888867666 899999999999886

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A

Probab=99.49  E-value=7.5e-14  Score=135.60  Aligned_cols=124  Identities=26%  Similarity=0.217  Sum_probs=98.0

Q ss_pred             HHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEeccc
Q 048213          367 VARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGL  442 (532)
Q Consensus       367 ~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~  442 (532)
                      .+...+.+++.+|.+..+|. +..+++|++|++++|.+..++.+..+++|++|++++|.+..+    .+++|++|++++|
T Consensus        88 ~l~~L~~L~l~~n~l~~~~~-l~~l~~L~~L~L~~n~i~~~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~L~~N  166 (291)
T 1h6t_A           88 NLKNLGWLFLDENKVKDLSS-LKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDN  166 (291)
T ss_dssp             TCTTCCEEECCSSCCCCGGG-GTTCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCGGGGGCTTCSEEECCSS
T ss_pred             cCCCCCEEECCCCcCCCChh-hccCCCCCEEECCCCcCCCChhhcCCCCCCEEEccCCcCCcchhhccCCCCCEEEccCC
Confidence            33444667777777766654 777888888888888887777788888888888888877766    6789999999999


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCcc
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCL  501 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l  501 (532)
                      .+  ...+. +..+++|++|+|++|.++.+|. +     ..+++|+.|++++++ +...
T Consensus       167 ~l--~~~~~-l~~l~~L~~L~L~~N~i~~l~~-l-----~~l~~L~~L~l~~n~-i~~~  215 (291)
T 1h6t_A          167 QI--SDIVP-LAGLTKLQNLYLSKNHISDLRA-L-----AGLKNLDVLELFSQE-CLNK  215 (291)
T ss_dssp             CC--CCCGG-GTTCTTCCEEECCSSCCCBCGG-G-----TTCTTCSEEEEEEEE-EECC
T ss_pred             cc--ccchh-hcCCCccCEEECCCCcCCCChh-h-----ccCCCCCEEECcCCc-ccCC
Confidence            76  34433 8999999999999999998864 4     678999999999864 5544

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.47  E-value=2.3e-13  Score=145.11  Aligned_cols=119  Identities=24%  Similarity=0.210  Sum_probs=59.6

Q ss_pred             HHHHHHhcccCCcccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc
Q 048213          350 LMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA  429 (532)
Q Consensus       350 i~~w~aeg~~~~~~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~  429 (532)
                      +.......-+.+.....++...+.+++.++.+..+| .++.+++|+.|++++|.+..++.+..+++|+.|+|++|.+..+
T Consensus        24 ~~l~l~~~~i~~~~~~~~L~~L~~L~l~~n~i~~l~-~l~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l  102 (605)
T 1m9s_A           24 IKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKPLTNLKNLGWLFLDENKIKDL  102 (605)
T ss_dssp             HHHHTTCSCTTSEECHHHHTTCCCCBCTTCCCCCCT-TGGGCTTCCEEECTTSCCCCCGGGGGCTTCCEEECCSSCCCCC
T ss_pred             HHHhccCCCcccccchhcCCCCCEEECcCCCCCCCh-HHccCCCCCEEEeeCCCCCCChhhccCCCCCEEECcCCCCCCC
Confidence            333333333333344455555555566666555554 3555666666666666555533355555555555555555444


Q ss_pred             ----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccc
Q 048213          430 ----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERI  472 (532)
Q Consensus       430 ----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~l  472 (532)
                          .+++|++|+|++|.+  .. +..+..+++|+.|+|++|.++.+
T Consensus       103 ~~l~~l~~L~~L~Ls~N~l--~~-l~~l~~l~~L~~L~Ls~N~l~~l  146 (605)
T 1m9s_A          103 SSLKDLKKLKSLSLEHNGI--SD-INGLVHLPQLESLYLGNNKITDI  146 (605)
T ss_dssp             TTSTTCTTCCEEECTTSCC--CC-CGGGGGCTTCSEEECCSSCCCCC
T ss_pred             hhhccCCCCCEEEecCCCC--CC-CccccCCCccCEEECCCCccCCc
Confidence                344555555555543  11 22344444555555555444443

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1

Probab=99.47  E-value=1.9e-13  Score=133.95  Aligned_cols=141  Identities=21%  Similarity=0.242  Sum_probs=100.3

Q ss_pred             HHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEecccc
Q 048213          368 ARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLR  443 (532)
Q Consensus       368 ~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~  443 (532)
                      +...+.+++.+|.+..+| .+..+++|++|++++|.+...+.+..+++|++|++++|.+..+    .+++|++|++++|.
T Consensus        84 l~~L~~L~L~~n~l~~~~-~~~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~l~~~~~l~~l~~L~~L~l~~n~  162 (308)
T 1h6u_A           84 LTKITELELSGNPLKNVS-AIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQ  162 (308)
T ss_dssp             CCSCCEEECCSCCCSCCG-GGTTCTTCCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSC
T ss_pred             CCCCCEEEccCCcCCCch-hhcCCCCCCEEECCCCCCCCchhhcCCCCCCEEECCCCccCcCccccCCCCccEEEccCCc
Confidence            334466777777777765 4777788888888888777766677788888888888777665    56778888888776


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      .  ...+. +..+++|++|++++|.++.++. +     ..+++|++|+|++|. +..+++  + ..+++|++|++++|+
T Consensus       163 l--~~~~~-l~~l~~L~~L~l~~n~l~~~~~-l-----~~l~~L~~L~L~~N~-l~~~~~--l-~~l~~L~~L~l~~N~  228 (308)
T 1h6u_A          163 V--SDLTP-LANLSKLTTLKADDNKISDISP-L-----ASLPNLIEVHLKNNQ-ISDVSP--L-ANTSNLFIVTLTNQT  228 (308)
T ss_dssp             C--CCCGG-GTTCTTCCEEECCSSCCCCCGG-G-----GGCTTCCEEECTTSC-CCBCGG--G-TTCTTCCEEEEEEEE
T ss_pred             C--CCChh-hcCCCCCCEEECCCCccCcChh-h-----cCCCCCCEEEccCCc-cCcccc--c-cCCCCCCEEEccCCe
Confidence            5  33333 7777788888888887777665 2     466788888887743 666632  3 677888888887765

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.46  E-value=1.8e-13  Score=132.55  Aligned_cols=145  Identities=28%  Similarity=0.376  Sum_probs=81.2

Q ss_pred             hHHhhhhccc-ccCC-chhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEec
Q 048213          371 RVVIDLTYMN-LLSL-PSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       371 ~~~l~l~~~~-l~~l-p~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      .+.+++.+|. +..+ |..+..+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|+++
T Consensus        82 L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  161 (285)
T 1ozn_A           82 LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLH  161 (285)
T ss_dssp             CCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEECCCCcccccCHhHhccCCCccEEECC
Confidence            3455555554 4444 3445556666666666665555  23455566666666666655544      34566666666


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeec
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICE  520 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~  520 (532)
                      +|.+ ....+..+..+++|++|+|++|.++.+++..+    ..+++|+.|+|++| .+..+++..+ +.+++|++|++++
T Consensus       162 ~n~l-~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~----~~l~~L~~L~l~~n-~l~~~~~~~~-~~l~~L~~L~l~~  234 (285)
T 1ozn_A          162 GNRI-SSVPERAFRGLHSLDRLLLHQNRVAHVHPHAF----RDLGRLMTLYLFAN-NLSALPTEAL-APLRALQYLRLND  234 (285)
T ss_dssp             SSCC-CEECTTTTTTCTTCCEEECCSSCCCEECTTTT----TTCTTCCEEECCSS-CCSCCCHHHH-TTCTTCCEEECCS
T ss_pred             CCcc-cccCHHHhcCccccCEEECCCCcccccCHhHc----cCcccccEeeCCCC-cCCcCCHHHc-ccCcccCEEeccC
Confidence            6654 22222345556666666666666655522221    45667777777764 3566634444 6677777777776


Q ss_pred             CC
Q 048213          521 CP  522 (532)
Q Consensus       521 c~  522 (532)
                      ++
T Consensus       235 N~  236 (285)
T 1ozn_A          235 NP  236 (285)
T ss_dssp             SC
T ss_pred             CC
Confidence            65

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A

Probab=99.46  E-value=1.7e-13  Score=132.99  Aligned_cols=147  Identities=24%  Similarity=0.260  Sum_probs=124.5

Q ss_pred             HHhhHHhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc------ccCCcceEEec
Q 048213          368 ARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       368 ~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      +...+.+++.+|.+..+|.. +.+++|++|++++|.+.. +..+..+++|++|++++|+++.+      .+++|++|+|+
T Consensus        54 l~~L~~L~L~~n~l~~~~~~-~~l~~L~~L~Ls~N~l~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~l~~L~~L~L~  132 (290)
T 1p9a_G           54 YTRLTQLNLDRAELTKLQVD-GTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLK  132 (290)
T ss_dssp             CTTCCEEECTTSCCCEEECC-SCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECT
T ss_pred             CCCCCEEECCCCccCcccCC-CCCCcCCEEECCCCcCCcCchhhccCCCCCEEECCCCcCcccCHHHHcCCCCCCEEECC
Confidence            34456789999999888765 889999999999999988 56688999999999999998877      67899999999


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeec
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICE  520 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~  520 (532)
                      +|++ ....+..+..+++|++|+|++|.++.+|..++    ..+++|++|+|++ +.+..+ |..+ ..+++|++|+|++
T Consensus       133 ~N~l-~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~----~~l~~L~~L~L~~-N~l~~i-p~~~-~~~~~L~~l~L~~  204 (290)
T 1p9a_G          133 GNEL-KTLPPGLLTPTPKLEKLSLANNNLTELPAGLL----NGLENLDTLLLQE-NSLYTI-PKGF-FGSHLLPFAFLHG  204 (290)
T ss_dssp             TSCC-CCCCTTTTTTCTTCCEEECTTSCCSCCCTTTT----TTCTTCCEEECCS-SCCCCC-CTTT-TTTCCCSEEECCS
T ss_pred             CCCC-CccChhhcccccCCCEEECCCCcCCccCHHHh----cCcCCCCEEECCC-CcCCcc-Chhh-cccccCCeEEeCC
Confidence            9987 44445567899999999999999999988762    3689999999998 558899 6666 5788999999998


Q ss_pred             CCc
Q 048213          521 CPV  523 (532)
Q Consensus       521 c~~  523 (532)
                      +|-
T Consensus       205 Np~  207 (290)
T 1p9a_G          205 NPW  207 (290)
T ss_dssp             CCB
T ss_pred             CCc
Confidence            763

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A*

Probab=99.46  E-value=2e-13  Score=132.18  Aligned_cols=151  Identities=19%  Similarity=0.207  Sum_probs=125.8

Q ss_pred             HhhHHhhhhcccccCC-chhhhccccccEEEecccc-ccC--cccccccccccEEeecccccccc------ccCCcceEE
Q 048213          369 RARVVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCK-LQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLS  438 (532)
Q Consensus       369 ~~~~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~-l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~  438 (532)
                      ...+.+++.++.+..+ |..+..+++|++|++++|. +..  +..+..+++|++|++++|.+..+      .+++|++|+
T Consensus        56 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~  135 (285)
T 1ozn_A           56 RNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLY  135 (285)
T ss_dssp             TTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEE
T ss_pred             CCCCEEECCCCccceeCHhhcCCccCCCEEeCCCCCCccccCHHHhcCCcCCCEEECCCCcCCEECHhHhhCCcCCCEEE
Confidence            4456789999999887 6679999999999999997 776  46789999999999999988876      578999999


Q ss_pred             eccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEe
Q 048213          439 VRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI  518 (532)
Q Consensus       439 l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l  518 (532)
                      +++|.+ ....+..+..+++|++|+|++|.++.+|...+    ..+++|++|+|++|. +..+.|..+ +.+++|++|++
T Consensus       136 l~~n~l-~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~----~~l~~L~~L~l~~n~-l~~~~~~~~-~~l~~L~~L~l  208 (285)
T 1ozn_A          136 LQDNAL-QALPDDTFRDLGNLTHLFLHGNRISSVPERAF----RGLHSLDRLLLHQNR-VAHVHPHAF-RDLGRLMTLYL  208 (285)
T ss_dssp             CCSSCC-CCCCTTTTTTCTTCCEEECCSSCCCEECTTTT----TTCTTCCEEECCSSC-CCEECTTTT-TTCTTCCEEEC
T ss_pred             CCCCcc-cccCHhHhccCCCccEEECCCCcccccCHHHh----cCccccCEEECCCCc-ccccCHhHc-cCcccccEeeC
Confidence            999987 34444568899999999999999998887642    568999999999865 677757776 79999999999


Q ss_pred             ecCCccccc
Q 048213          519 CECPVLKEI  527 (532)
Q Consensus       519 ~~c~~L~~i  527 (532)
                      ++|. ++.+
T Consensus       209 ~~n~-l~~~  216 (285)
T 1ozn_A          209 FANN-LSAL  216 (285)
T ss_dssp             CSSC-CSCC
T ss_pred             CCCc-CCcC
Confidence            9874 4443

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.46  E-value=2.1e-13  Score=120.88  Aligned_cols=133  Identities=26%  Similarity=0.228  Sum_probs=107.5

Q ss_pred             ccccccEEEecccccc--C-cccccccccccEEeecccccccc----ccCCcceEEeccccccCCCCCcccccCCCCCEE
Q 048213          390 LLTNLQTLCLYYCKLQ--D-TSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTESEVALPKLETV  462 (532)
Q Consensus       390 ~l~~L~~L~l~~~~l~--~-~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L  462 (532)
                      ..++|+.|++++|.+.  . +..+..+++|++|++++|.+..+    .+++|++|++++|.+ ....+..+.++++|++|
T Consensus        22 ~~~~L~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l-~~~~~~~~~~l~~L~~L  100 (168)
T 2ell_A           22 TPAAVRELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRI-FGGLDMLAEKLPNLTHL  100 (168)
T ss_dssp             CTTSCSEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCC-CSCCCHHHHHCTTCCEE
T ss_pred             CcccCCEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcC-chHHHHHHhhCCCCCEE
Confidence            3478999999999988  4 55678999999999999988766    778999999999987 33366677789999999


Q ss_pred             ecCCccccccc--ccccccccccCCCccEEEeccCCCCCccch---hhhhhcCCCccEEEeecCCccccccccC
Q 048213          463 CLSSINIERIW--QNQVAAMSCGIQNLKRLILFNCWNLTCLFT---SSIISSFVGLQCLEICECPVLKEIIVID  531 (532)
Q Consensus       463 ~L~~~~l~~lp--~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p---~~~~~~L~~L~~L~l~~c~~L~~i~~~~  531 (532)
                      +|++|.++.+|  ..+     ..+++|++|++++|+ +..+++   ..+ +.+++|++|++++|+ ++++...|
T Consensus       101 ~Ls~N~l~~~~~~~~l-----~~l~~L~~L~l~~N~-l~~~~~~~~~~~-~~l~~L~~L~l~~n~-~~~~~~~~  166 (168)
T 2ell_A          101 NLSGNKLKDISTLEPL-----KKLECLKSLDLFNCE-VTNLNDYRESVF-KLLPQLTYLDGYDRE-DQEAPDSD  166 (168)
T ss_dssp             ECBSSSCCSSGGGGGG-----SSCSCCCEEECCSSG-GGTSTTHHHHHH-TTCSSCCEETTEETT-SCBCCSSS
T ss_pred             eccCCccCcchhHHHH-----hcCCCCCEEEeeCCc-CcchHHHHHHHH-HhCccCcEecCCCCC-hhhccccc
Confidence            99999999886  344     678999999999865 777734   244 899999999999986 55555443

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.45  E-value=4.2e-13  Score=123.43  Aligned_cols=140  Identities=19%  Similarity=0.216  Sum_probs=111.9

Q ss_pred             hhhhcccccCCchhhhccccccEEEeccccccCc--ccccccccccEEeecccccccc------ccCCcceEEecccccc
Q 048213          374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRAS  445 (532)
Q Consensus       374 l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~--~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~  445 (532)
                      ++..++.+..+|..+  .++|++|++++|.+...  ..+.++++|++|++++|++..+      .+++|++|++++|.+ 
T Consensus        12 v~c~~~~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l-   88 (208)
T 2o6s_A           12 VECYSQGRTSVPTGI--PAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQL-   88 (208)
T ss_dssp             EECCSSCCSSCCSCC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC-
T ss_pred             EEecCCCccCCCCCC--CCCCcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcC-
Confidence            345556677777654  46899999999998883  3478999999999999988876      568999999999987 


Q ss_pred             CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          446 APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       446 ~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      ....+..+..+++|++|+|++|.++.+|...+    ..+++|++|+|+++ .+..+++..+ +.+++|++|++++++
T Consensus        89 ~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~l~~N-~l~~~~~~~~-~~l~~L~~L~l~~N~  159 (208)
T 2o6s_A           89 QSLPNGVFDKLTQLKELALNTNQLQSLPDGVF----DKLTQLKDLRLYQN-QLKSVPDGVF-DRLTSLQYIWLHDNP  159 (208)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCCCCCTTTT----TTCTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSCC
T ss_pred             CccCHhHhcCccCCCEEEcCCCcCcccCHhHh----ccCCcCCEEECCCC-ccceeCHHHh-ccCCCccEEEecCCC
Confidence            33344457899999999999999998887642    46899999999985 5788844444 789999999999865

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes}

Probab=99.44  E-value=3.3e-13  Score=123.10  Aligned_cols=126  Identities=15%  Similarity=0.123  Sum_probs=109.3

Q ss_pred             hhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEeccccccCCCCCcccccCCCCCEEe
Q 048213          388 LGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVC  463 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~  463 (532)
                      ...+++|++|++++|.+.+.+.+..+++|++|++++|.+..+    .+++|++|++++|.+ ....+..++.+++|++|+
T Consensus        40 ~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~n~l-~~~~~~~l~~l~~L~~L~  118 (197)
T 4ezg_A           40 EAQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGKDV-TSDKIPNLSGLTSLTLLD  118 (197)
T ss_dssp             HHHHHTCCEEEEESSCCSCCTTGGGCTTCSEEEEESCCCSCCGGGTTCTTCCEEEEECTTC-BGGGSCCCTTCTTCCEEE
T ss_pred             hhhcCCccEEeccCCCccChHHHhcCCCCCEEEccCCCCCcchhhhcCCCCCEEEeECCcc-CcccChhhcCCCCCCEEE
Confidence            478899999999999999866899999999999999987766    789999999999987 444677889999999999


Q ss_pred             cCCccccc-ccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          464 LSSINIER-IWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       464 L~~~~l~~-lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      +++|.++. .|..+     ..+++|++|+|++|..++.+ | .+ +.+++|++|++++|.
T Consensus       119 Ls~n~i~~~~~~~l-----~~l~~L~~L~L~~n~~i~~~-~-~l-~~l~~L~~L~l~~n~  170 (197)
T 4ezg_A          119 ISHSAHDDSILTKI-----NTLPKVNSIDLSYNGAITDI-M-PL-KTLPELKSLNIQFDG  170 (197)
T ss_dssp             CCSSBCBGGGHHHH-----TTCSSCCEEECCSCTBCCCC-G-GG-GGCSSCCEEECTTBC
T ss_pred             ecCCccCcHhHHHH-----hhCCCCCEEEccCCCCcccc-H-hh-cCCCCCCEEECCCCC
Confidence            99999886 44444     67899999999998768888 5 34 799999999999885

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A

Probab=99.44  E-value=2.2e-13  Score=145.30  Aligned_cols=145  Identities=25%  Similarity=0.267  Sum_probs=126.0

Q ss_pred             HHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEec
Q 048213          365 MEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVR  440 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~  440 (532)
                      +..+...+.|++.+|.+..+|+ +..+++|++|++++|.+..++.+..+++|++|+|++|.+..+    .+++|+.|+|+
T Consensus        61 l~~l~~L~~L~Ls~N~l~~~~~-l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls~N~l~~l~~l~~l~~L~~L~Ls  139 (605)
T 1m9s_A           61 IQYLPNVTKLFLNGNKLTDIKP-LTNLKNLGWLFLDENKIKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLG  139 (605)
T ss_dssp             GGGCTTCCEEECTTSCCCCCGG-GGGCTTCCEEECCSSCCCCCTTSTTCTTCCEEECTTSCCCCCGGGGGCTTCSEEECC
T ss_pred             HccCCCCCEEEeeCCCCCCChh-hccCCCCCEEECcCCCCCCChhhccCCCCCEEEecCCCCCCCccccCCCccCEEECC
Confidence            3444556789999999999887 999999999999999999988999999999999999998877    78999999999


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeec
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICE  520 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~  520 (532)
                      +|.+  ... ..+..+++|+.|+|++|.|..+++ +     ..+++|+.|+|++| .+..+ |. + +.|++|+.|+|++
T Consensus       140 ~N~l--~~l-~~l~~l~~L~~L~Ls~N~l~~~~~-l-----~~l~~L~~L~Ls~N-~i~~l-~~-l-~~l~~L~~L~L~~  206 (605)
T 1m9s_A          140 NNKI--TDI-TVLSRLTKLDTLSLEDNQISDIVP-L-----AGLTKLQNLYLSKN-HISDL-RA-L-AGLKNLDVLELFS  206 (605)
T ss_dssp             SSCC--CCC-GGGGSCTTCSEEECCSSCCCCCGG-G-----TTCTTCCEEECCSS-CCCBC-GG-G-TTCTTCSEEECCS
T ss_pred             CCcc--CCc-hhhcccCCCCEEECcCCcCCCchh-h-----ccCCCCCEEECcCC-CCCCC-hH-H-ccCCCCCEEEccC
Confidence            9976  333 678999999999999999998866 4     67899999999986 47878 43 4 7899999999999


Q ss_pred             CCc
Q 048213          521 CPV  523 (532)
Q Consensus       521 c~~  523 (532)
                      |+-
T Consensus       207 N~l  209 (605)
T 1m9s_A          207 QEC  209 (605)
T ss_dssp             EEE
T ss_pred             CcC
Confidence            863

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.43  E-value=2.5e-12  Score=128.48  Aligned_cols=171  Identities=13%  Similarity=0.105  Sum_probs=112.6

Q ss_pred             ccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc--------Cc-------
Q 048213          103 KDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE--------SE-------  167 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~--------~~-------  167 (532)
                      ..+..|+||+++++.|.+ +..   +++.|+|++|+|||+|++++++.....    .......        +.       
T Consensus        10 ~~~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           10 DNRKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINELNLP----YIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             CSGGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHHTCC----EEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CCHHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhcCCC----EEEEEchhhccccCCCHHHHHHHH
Confidence            346789999999999999 765   699999999999999999999875321    1111100        00       


Q ss_pred             ---------------------------------------hhhHHHHHHHHhcc--CcEEEEEcCCCCcc-----cccccc
Q 048213          168 ---------------------------------------SGRARSLCNRLKKE--KMILVILDNIWENL-----DFHAVG  201 (532)
Q Consensus       168 ---------------------------------------~~~~~~l~~~l~~~--k~~LlVlDdv~~~~-----~~~~l~  201 (532)
                                                             ......+.+.+...  ++++||+||++...     +|..+.
T Consensus        82 ~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~~~~~l  161 (357)
T 2fna_A           82 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPAL  161 (357)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchhHHHHH
Confidence                                                   01223344444421  38999999997643     222221


Q ss_pred             cccCCCCCCeEEEEeecChHHhhhc---------CC-C-CceEEccCCCHHHHHHHHHHHhC--CCCCCcchHHHHHHHH
Q 048213          202 IPHGDDHKGCKVLLTARSLDVLSRK---------MD-S-QQDFWVGVLKEDEAWSLFKKMAG--DYIEGSEFKWVAKDVA  268 (532)
Q Consensus       202 ~~~~~~~~gs~ilvTtr~~~v~~~~---------~~-~-~~~~~l~~L~~~~~~~Lf~~~~~--~~~~~~~~~~~~~~i~  268 (532)
                      ..+.....+.++|+|++........         .. . ...+.+.+|+.+++.+++.....  +.. ...    ...|+
T Consensus       162 ~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~-~~~----~~~i~  236 (357)
T 2fna_A          162 AYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADID-FKD----YEVVY  236 (357)
T ss_dssp             HHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCC-CCC----HHHHH
T ss_pred             HHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCC-CCc----HHHHH
Confidence            2221122467899999986532111         11 1 25789999999999999987542  111 111    17899


Q ss_pred             HHcCCchHHHHHHHHHHc
Q 048213          269 KKCAGLPVSIVTVARALR  286 (532)
Q Consensus       269 ~~c~glPLai~~~~~~l~  286 (532)
                      ..|+|+|+++..++..+.
T Consensus       237 ~~t~G~P~~l~~~~~~~~  254 (357)
T 2fna_A          237 EKIGGIPGWLTYFGFIYL  254 (357)
T ss_dssp             HHHCSCHHHHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHc
Confidence            999999999999988765

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.42  E-value=3.3e-13  Score=129.97  Aligned_cols=97  Identities=26%  Similarity=0.238  Sum_probs=42.8

Q ss_pred             HhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          373 VIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       373 ~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      .+++.++.+..++. .+..+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|++++|.
T Consensus        32 ~L~ls~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~  111 (276)
T 2z62_A           32 NLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN  111 (276)
T ss_dssp             EEECTTCCCCEECTTTTTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSC
T ss_pred             EEECCCCcccccCHhHhccccCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCC
Confidence            34444444444433 34445555555555554444  12344445555555555444433      33444444444443


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccc
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIE  470 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~  470 (532)
                      . ....+..++++++|++|++++|.++
T Consensus       112 l-~~~~~~~~~~l~~L~~L~l~~n~l~  137 (276)
T 2z62_A          112 L-ASLENFPIGHLKTLKELNVAHNLIQ  137 (276)
T ss_dssp             C-CCSTTCCCTTCTTCCEEECCSSCCC
T ss_pred             c-cccCchhcccCCCCCEEECcCCccc
Confidence            3 1112223444444444444444443

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.41  E-value=3.7e-13  Score=132.13  Aligned_cols=142  Identities=17%  Similarity=0.177  Sum_probs=68.4

Q ss_pred             HHhhhhc-cccc-CCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          372 VVIDLTY-MNLL-SLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       372 ~~l~l~~-~~l~-~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      +++++.+ +.+. .+|..++.+++|++|++++|.+..  +..+.++++|++|++++|.+...      .+++|++|++++
T Consensus        79 ~~L~L~~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~  158 (313)
T 1ogq_A           79 NFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDG  158 (313)
T ss_dssp             SEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCS
T ss_pred             CeeeCCCCCcccccCChhHhcCCCCCEEECcCCeeCCcCCHHHhCCCCCCEEeCCCCccCCcCChHHhcCCCCCeEECcC
Confidence            3444442 3333 244444555555555555554442  33444555555555555544421      344555555555


Q ss_pred             ccccCCCCCcccccCC-CCCEEecCCcccc-cccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEee
Q 048213          442 LRASAPNPTESEVALP-KLETVCLSSINIE-RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC  519 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~-~L~~L~L~~~~l~-~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~  519 (532)
                      |.+ ....|..+..++ +|++|+|++|.++ .+|..+     ..+. |++|+|++|. +...+|..+ +.+++|++|+++
T Consensus       159 N~l-~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~-----~~l~-L~~L~Ls~N~-l~~~~~~~~-~~l~~L~~L~L~  229 (313)
T 1ogq_A          159 NRI-SGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTF-----ANLN-LAFVDLSRNM-LEGDASVLF-GSDKNTQKIHLA  229 (313)
T ss_dssp             SCC-EEECCGGGGCCCTTCCEEECCSSEEEEECCGGG-----GGCC-CSEEECCSSE-EEECCGGGC-CTTSCCSEEECC
T ss_pred             Ccc-cCcCCHHHhhhhhcCcEEECcCCeeeccCChHH-----hCCc-ccEEECcCCc-ccCcCCHHH-hcCCCCCEEECC
Confidence            544 223444444444 5555555555444 233332     3333 6666666543 333334444 567777777777


Q ss_pred             cCC
Q 048213          520 ECP  522 (532)
Q Consensus       520 ~c~  522 (532)
                      +|.
T Consensus       230 ~N~  232 (313)
T 1ogq_A          230 KNS  232 (313)
T ss_dssp             SSE
T ss_pred             CCc
Confidence            653

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8

Probab=99.41  E-value=3.8e-13  Score=132.12  Aligned_cols=149  Identities=17%  Similarity=0.169  Sum_probs=103.6

Q ss_pred             hhHHhhhhccccc-CCchhhhccccccEEEeccccccC--cccccccc-cccEEeecccccccc------ccCCcceEEe
Q 048213          370 ARVVIDLTYMNLL-SLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELK-ILEILRLRVNELTRA------GSSQLKHLSV  439 (532)
Q Consensus       370 ~~~~l~l~~~~l~-~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~-~L~~L~l~~~~l~~~------~l~~Lr~L~l  439 (532)
                      ..+.+++.+|.+. .+|..+..+++|++|++++|.+..  +..+.+++ +|++|++++|.+...      .++ |++|++
T Consensus       126 ~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~~L~~L~L~~N~l~~~~~~~~~~l~-L~~L~L  204 (313)
T 1ogq_A          126 TLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDL  204 (313)
T ss_dssp             TCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCC-CSEEEC
T ss_pred             CCCEEeCCCCccCCcCChHHhcCCCCCeEECcCCcccCcCCHHHhhhhhcCcEEECcCCeeeccCChHHhCCc-ccEEEC
Confidence            3456666666666 456667777777777777776653  55666666 677777777766533      333 777777


Q ss_pred             ccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEee
Q 048213          440 RGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC  519 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~  519 (532)
                      ++|.+ ....+..+..+++|++|+|++|.++..++.+     ..+++|++|+|++|.....+ |..+ +.+++|++|+|+
T Consensus       205 s~N~l-~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~-----~~l~~L~~L~Ls~N~l~~~~-p~~l-~~l~~L~~L~Ls  276 (313)
T 1ogq_A          205 SRNML-EGDASVLFGSDKNTQKIHLAKNSLAFDLGKV-----GLSKNLNGLDLRNNRIYGTL-PQGL-TQLKFLHSLNVS  276 (313)
T ss_dssp             CSSEE-EECCGGGCCTTSCCSEEECCSSEECCBGGGC-----CCCTTCCEEECCSSCCEECC-CGGG-GGCTTCCEEECC
T ss_pred             cCCcc-cCcCCHHHhcCCCCCEEECCCCceeeecCcc-----cccCCCCEEECcCCcccCcC-ChHH-hcCcCCCEEECc
Confidence            77766 4456667788888888888888877655544     56789999999986643355 7776 789999999999


Q ss_pred             cCCccccc
Q 048213          520 ECPVLKEI  527 (532)
Q Consensus       520 ~c~~L~~i  527 (532)
                      +|+--..+
T Consensus       277 ~N~l~~~i  284 (313)
T 1ogq_A          277 FNNLCGEI  284 (313)
T ss_dssp             SSEEEEEC
T ss_pred             CCcccccC
Confidence            88533333

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.41  E-value=2.7e-13  Score=132.64  Aligned_cols=144  Identities=21%  Similarity=0.190  Sum_probs=82.3

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccCc---ccccccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT---SVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~---~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      +.+++.+|.+..+|..+..+++|++|++++|.+...   ..+.++++|++|++++|.+...      .+++|++|++++|
T Consensus        81 ~~L~Ls~n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n  160 (306)
T 2z66_A           81 KYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGN  160 (306)
T ss_dssp             CEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEECTTSCCEECSTTTTTTCTTCCEEECTTC
T ss_pred             CEEECCCCccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEECCCCcCCccchhhcccCcCCCEEECCCC
Confidence            456666666666666666666666666666666552   2456666666666666655443      4556666666666


Q ss_pred             cccCC-CCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          443 RASAP-NPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       443 ~~~~~-~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      .+ .. ..+..+..+++|++|+|++|.++.+++..+    ..+++|++|+|++|. +..+++..+ +.+++|++|++++|
T Consensus       161 ~l-~~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~----~~l~~L~~L~L~~N~-l~~~~~~~~-~~l~~L~~L~L~~N  233 (306)
T 2z66_A          161 SF-QENFLPDIFTELRNLTFLDLSQCQLEQLSPTAF----NSLSSLQVLNMSHNN-FFSLDTFPY-KCLNSLQVLDYSLN  233 (306)
T ss_dssp             EE-GGGEECSCCTTCTTCCEEECTTSCCCEECTTTT----TTCTTCCEEECTTSC-CSBCCSGGG-TTCTTCCEEECTTS
T ss_pred             cc-ccccchhHHhhCcCCCEEECCCCCcCCcCHHHh----cCCCCCCEEECCCCc-cCccChhhc-cCcccCCEeECCCC
Confidence            54 11 244555666666666666666655533221    345566666666533 455533333 45666666666655


Q ss_pred             C
Q 048213          522 P  522 (532)
Q Consensus       522 ~  522 (532)
                      .
T Consensus       234 ~  234 (306)
T 2z66_A          234 H  234 (306)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.41  E-value=2.5e-13  Score=136.18  Aligned_cols=147  Identities=21%  Similarity=0.173  Sum_probs=113.4

Q ss_pred             HHhhhhcccccCCchh-hh-ccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          372 VVIDLTYMNLLSLPSS-LG-LLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~-~~-~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      +.+++++|.+..++.. +. .+++|++|++++|.+..  +..+.++++|++|+|++|++..+      .+++|++|+|++
T Consensus        42 ~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~  121 (361)
T 2xot_A           42 ALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYN  121 (361)
T ss_dssp             SEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCS
T ss_pred             CEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCCcCCcCCHHHhCCCcCCCEEECCC
Confidence            4678888888887665 55 88899999999998887  34688889999999999988776      578899999999


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCc--cEEEee
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGL--QCLEIC  519 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L--~~L~l~  519 (532)
                      |.+ ....+..|.++++|++|+|++|.|+.+|...+.. ...+++|+.|+|++ +.+..+++..+ ..++++  +.|+|+
T Consensus       122 N~i-~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~-~~~l~~L~~L~L~~-N~l~~l~~~~~-~~l~~~~l~~l~l~  197 (361)
T 2xot_A          122 NHI-VVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKD-GNKLPKLMLLDLSS-NKLKKLPLTDL-QKLPAWVKNGLYLH  197 (361)
T ss_dssp             SCC-CEECTTTTTTCTTCCEEECCSSCCCSCCGGGTC-----CTTCCEEECCS-SCCCCCCHHHH-HHSCHHHHTTEECC
T ss_pred             Ccc-cEECHHHhCCcccCCEEECCCCcCCeeCHHHhcC-cccCCcCCEEECCC-CCCCccCHHHh-hhccHhhcceEEec
Confidence            877 4445677888899999999999998888776210 01478899999987 55888855555 778774  788888


Q ss_pred             cCC
Q 048213          520 ECP  522 (532)
Q Consensus       520 ~c~  522 (532)
                      +++
T Consensus       198 ~N~  200 (361)
T 2xot_A          198 NNP  200 (361)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            865

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes}

Probab=99.41  E-value=2.2e-12  Score=123.23  Aligned_cols=141  Identities=18%  Similarity=0.147  Sum_probs=119.3

Q ss_pred             HHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEeccc
Q 048213          367 VARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGL  442 (532)
Q Consensus       367 ~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~  442 (532)
                      .+.+...+++..+.+..++ .+..+++|++|++++|.+..++.+..+++|++|++++|.+..+    .+++|++|++++|
T Consensus        17 ~l~~l~~l~l~~~~i~~~~-~~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~L~~N~i~~~~~l~~l~~L~~L~L~~N   95 (263)
T 1xeu_A           17 GLANAVKQNLGKQSVTDLV-SQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSPLKDLTKLEELSVNRN   95 (263)
T ss_dssp             HHHHHHHHHHTCSCTTSEE-CHHHHTTCSEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSS
T ss_pred             HHHHHHHHHhcCCCccccc-chhhcCcCcEEECcCCCcccchHHhhCCCCCEEECCCCccCCChhhccCCCCCEEECCCC
Confidence            3455567888899998888 6899999999999999999977899999999999999998887    6889999999999


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      ++  ...+. +.. ++|++|+|++|.++.++. +     ..+++|+.|+|++| .++.+ + .+ +.+++|++|++++|.
T Consensus        96 ~l--~~l~~-~~~-~~L~~L~L~~N~l~~~~~-l-----~~l~~L~~L~Ls~N-~i~~~-~-~l-~~l~~L~~L~L~~N~  161 (263)
T 1xeu_A           96 RL--KNLNG-IPS-ACLSRLFLDNNELRDTDS-L-----IHLKNLEILSIRNN-KLKSI-V-ML-GFLSKLEVLDLHGNE  161 (263)
T ss_dssp             CC--SCCTT-CCC-SSCCEEECCSSCCSBSGG-G-----TTCTTCCEEECTTS-CCCBC-G-GG-GGCTTCCEEECTTSC
T ss_pred             cc--CCcCc-ccc-CcccEEEccCCccCCChh-h-----cCcccccEEECCCC-cCCCC-h-HH-ccCCCCCEEECCCCc
Confidence            77  33433 333 899999999999998753 4     67899999999985 58888 4 34 789999999999875

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.41  E-value=2.6e-13  Score=127.74  Aligned_cols=148  Identities=16%  Similarity=0.109  Sum_probs=81.9

Q ss_pred             HHhhhhccc-ccCCch-hhhccccccEEEecc-ccccC--cccccccccccEEeecccccccc----ccCCcc---eEEe
Q 048213          372 VVIDLTYMN-LLSLPS-SLGLLTNLQTLCLYY-CKLQD--TSVLGELKILEILRLRVNELTRA----GSSQLK---HLSV  439 (532)
Q Consensus       372 ~~l~l~~~~-l~~lp~-~~~~l~~L~~L~l~~-~~l~~--~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr---~L~l  439 (532)
                      +.+++.+|. +..+|. .|..+++|++|++++ |.+..  +..+.++++|++|++++|.+..+    .+++|+   +|++
T Consensus        58 ~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l~~n~l~~lp~~~~l~~L~~L~~L~l  137 (239)
T 2xwt_C           58 SRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEI  137 (239)
T ss_dssp             CEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEEEEECCCSCCCCTTCCBCCSEEEEEE
T ss_pred             cEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeCCCCCCccccccccccccccccEEEC
Confidence            345555554 544443 355555555555555 45544  22445555555555555555444    233444   6666


Q ss_pred             ccc-cccCCCCCcccccCCCCC-EEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcC-CCccEE
Q 048213          440 RGL-RASAPNPTESEVALPKLE-TVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSF-VGLQCL  516 (532)
Q Consensus       440 ~~~-~~~~~~~~~~~~~l~~L~-~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L-~~L~~L  516 (532)
                      ++| .. ....+..|.++++|+ +|++++|.++.+|...     +..++|+.|+|++|..++.+++..+ +.+ ++|++|
T Consensus       138 ~~N~~l-~~i~~~~~~~l~~L~~~L~l~~n~l~~i~~~~-----~~~~~L~~L~L~~n~~l~~i~~~~~-~~l~~~L~~L  210 (239)
T 2xwt_C          138 TDNPYM-TSIPVNAFQGLCNETLTLKLYNNGFTSVQGYA-----FNGTKLDAVYLNKNKYLTVIDKDAF-GGVYSGPSLL  210 (239)
T ss_dssp             ESCTTC-CEECTTTTTTTBSSEEEEECCSCCCCEECTTT-----TTTCEEEEEECTTCTTCCEECTTTT-TTCSBCCSEE
T ss_pred             CCCcch-hhcCcccccchhcceeEEEcCCCCCcccCHhh-----cCCCCCCEEEcCCCCCcccCCHHHh-hccccCCcEE
Confidence            655 43 222233456666777 7777777666666655     4446677777776545666644444 566 777777


Q ss_pred             EeecCCccccc
Q 048213          517 EICECPVLKEI  527 (532)
Q Consensus       517 ~l~~c~~L~~i  527 (532)
                      ++++++ ++.+
T Consensus       211 ~l~~N~-l~~l  220 (239)
T 2xwt_C          211 DVSQTS-VTAL  220 (239)
T ss_dssp             ECTTCC-CCCC
T ss_pred             ECCCCc-cccC
Confidence            777643 4443

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C*

Probab=99.40  E-value=4e-13  Score=126.46  Aligned_cols=148  Identities=18%  Similarity=0.172  Sum_probs=122.0

Q ss_pred             hHHhhhhcccccCCch-hhhccccccEEEecccc-ccC--cccccccccccEEeecc-cccccc------ccCCcceEEe
Q 048213          371 RVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCK-LQD--TSVLGELKILEILRLRV-NELTRA------GSSQLKHLSV  439 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~-l~~--~~~i~~l~~L~~L~l~~-~~l~~~------~l~~Lr~L~l  439 (532)
                      .+.+++.++.+..+|. .+..+++|++|++++|. +..  +..+.++++|++|++++ |.++.+      .+++|++|++
T Consensus        33 l~~L~l~~n~l~~i~~~~~~~l~~L~~L~l~~n~~l~~i~~~~f~~l~~L~~L~l~~~n~l~~i~~~~f~~l~~L~~L~l  112 (239)
T 2xwt_C           33 TQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGI  112 (239)
T ss_dssp             CCEEEEESCCCSEECTTTTTTCTTCCEEEEECCSSCCEECTTTEESCTTCCEEEEEEETTCCEECTTSEECCTTCCEEEE
T ss_pred             ccEEEEeCCcceEECHHHccCCCCCcEEeCCCCCCcceeCHhHcCCCcCCcEEECCCCCCeeEcCHHHhCCCCCCCEEeC
Confidence            4578899999998876 58999999999999997 777  34789999999999998 888876      6789999999


Q ss_pred             ccccccCCCCCcccccCCCCC---EEecCCc-ccccccccccccccccCCCcc-EEEeccCCCCCccchhhhhhcCCCcc
Q 048213          440 RGLRASAPNPTESEVALPKLE---TVCLSSI-NIERIWQNQVAAMSCGIQNLK-RLILFNCWNLTCLFTSSIISSFVGLQ  514 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~---~L~L~~~-~l~~lp~~~~~~~~~~L~~L~-~L~L~~c~~l~~l~p~~~~~~L~~L~  514 (532)
                      ++|.+  ...|. +..+++|+   +|++++| .++.+|...+    ..+++|+ +|+++++ .++.+++..+ .. ++|+
T Consensus       113 ~~n~l--~~lp~-~~~l~~L~~L~~L~l~~N~~l~~i~~~~~----~~l~~L~~~L~l~~n-~l~~i~~~~~-~~-~~L~  182 (239)
T 2xwt_C          113 FNTGL--KMFPD-LTKVYSTDIFFILEITDNPYMTSIPVNAF----QGLCNETLTLKLYNN-GFTSVQGYAF-NG-TKLD  182 (239)
T ss_dssp             EEECC--CSCCC-CTTCCBCCSEEEEEEESCTTCCEECTTTT----TTTBSSEEEEECCSC-CCCEECTTTT-TT-CEEE
T ss_pred             CCCCC--ccccc-cccccccccccEEECCCCcchhhcCcccc----cchhcceeEEEcCCC-CCcccCHhhc-CC-CCCC
Confidence            99977  34554 78888888   9999999 9999987652    4689999 9999985 5788844444 34 8999


Q ss_pred             EEEeecCCcccccc
Q 048213          515 CLEICECPVLKEII  528 (532)
Q Consensus       515 ~L~l~~c~~L~~i~  528 (532)
                      +|++++|+.++.+.
T Consensus       183 ~L~L~~n~~l~~i~  196 (239)
T 2xwt_C          183 AVYLNKNKYLTVID  196 (239)
T ss_dssp             EEECTTCTTCCEEC
T ss_pred             EEEcCCCCCcccCC
Confidence            99999998777664

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.40  E-value=7.2e-13  Score=137.10  Aligned_cols=142  Identities=25%  Similarity=0.290  Sum_probs=88.9

Q ss_pred             HHhhhhcccccCC-chhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      +.+++.+|.+..+ |..|..+++|++|++++|.+..  +..+.++++|++|+|++|.+..+      .+++|++|+|++|
T Consensus        78 ~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N  157 (452)
T 3zyi_A           78 RYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNN  157 (452)
T ss_dssp             SEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSBCCTTTSSSCTTCCEEECCSC
T ss_pred             cEEECcCCcCceECHHHcCCCCCCCEEECCCCccCCcChhhccCcccCCEEECCCCcCCccChhhhcccCCCCEEECCCC
Confidence            4566666666665 3446677777777777776665  34566677777777777766655      3566777777777


Q ss_pred             cccCCCCCcccccCCCCCEEecCCc-ccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSI-NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~-~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      .+ ....+..+.++++|++|+|++| .+..+|...+    .++++|++|+|++| .+..+ |. + ..+++|++|+|++|
T Consensus       158 ~l-~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~----~~l~~L~~L~L~~n-~l~~~-~~-~-~~l~~L~~L~Ls~N  228 (452)
T 3zyi_A          158 PI-ESIPSYAFNRVPSLMRLDLGELKKLEYISEGAF----EGLFNLKYLNLGMC-NIKDM-PN-L-TPLVGLEELEMSGN  228 (452)
T ss_dssp             CC-CEECTTTTTTCTTCCEEECCCCTTCCEECTTTT----TTCTTCCEEECTTS-CCSSC-CC-C-TTCTTCCEEECTTS
T ss_pred             Cc-ceeCHhHHhcCCcccEEeCCCCCCccccChhhc----cCCCCCCEEECCCC-ccccc-cc-c-cccccccEEECcCC
Confidence            65 2223345666777777777764 5555555431    35677777777764 35666 32 2 56777777777766


Q ss_pred             C
Q 048213          522 P  522 (532)
Q Consensus       522 ~  522 (532)
                      .
T Consensus       229 ~  229 (452)
T 3zyi_A          229 H  229 (452)
T ss_dssp             C
T ss_pred             c
Confidence            4

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri}

Probab=99.40  E-value=3.6e-13  Score=131.79  Aligned_cols=145  Identities=20%  Similarity=0.136  Sum_probs=107.2

Q ss_pred             hhHHhhhhcccccCC---chhhhccccccEEEeccccccC-cccccccccccEEeecccccccc-------ccCCcceEE
Q 048213          370 ARVVIDLTYMNLLSL---PSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA-------GSSQLKHLS  438 (532)
Q Consensus       370 ~~~~l~l~~~~l~~l---p~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~  438 (532)
                      ..+.+++.++.+..+   |..+..+++|++|++++|.+.. +..+..+++|++|++++|.+..+       .+++|++|+
T Consensus        53 ~L~~L~L~~n~l~~~~~~~~~~~~~~~L~~L~Ls~n~i~~l~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~  132 (306)
T 2z66_A           53 QLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLD  132 (306)
T ss_dssp             TCSEEECCSSCCCEEEEEEHHHHSCSCCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESSTTTTTTTTCTTCCEEE
T ss_pred             cCCEEECCCCccCcccCcccccccccccCEEECCCCccccChhhcCCCCCCCEEECCCCcccccccchhhhhccCCCEEE
Confidence            345666666666543   4556667777777777777666 44577778888888888766554       567888888


Q ss_pred             eccccccCCCCCcccccCCCCCEEecCCccccc--ccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEE
Q 048213          439 VRGLRASAPNPTESEVALPKLETVCLSSINIER--IWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL  516 (532)
Q Consensus       439 l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~--lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L  516 (532)
                      +++|.. ....+..+..+++|++|++++|.+..  +|..+     ..+++|++|+|++|. +..++|..+ +.+++|++|
T Consensus       133 l~~n~l-~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~-----~~l~~L~~L~Ls~n~-l~~~~~~~~-~~l~~L~~L  204 (306)
T 2z66_A          133 ISHTHT-RVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIF-----TELRNLTFLDLSQCQ-LEQLSPTAF-NSLSSLQVL  204 (306)
T ss_dssp             CTTSCC-EECSTTTTTTCTTCCEEECTTCEEGGGEECSCC-----TTCTTCCEEECTTSC-CCEECTTTT-TTCTTCCEE
T ss_pred             CCCCcC-CccchhhcccCcCCCEEECCCCccccccchhHH-----hhCcCCCEEECCCCC-cCCcCHHHh-cCCCCCCEE
Confidence            888876 44556667888889999999987765  55555     678999999999854 777756666 789999999


Q ss_pred             EeecCC
Q 048213          517 EICECP  522 (532)
Q Consensus       517 ~l~~c~  522 (532)
                      ++++|.
T Consensus       205 ~L~~N~  210 (306)
T 2z66_A          205 NMSHNN  210 (306)
T ss_dssp             ECTTSC
T ss_pred             ECCCCc
Confidence            999875

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.39  E-value=5e-13  Score=139.28  Aligned_cols=149  Identities=23%  Similarity=0.214  Sum_probs=86.7

Q ss_pred             hHHhhhhcccccCC-chhhhccccccEEEeccccccCc--ccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          371 RVVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       371 ~~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~~--~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      .+.+++.+|.+..+ |..|+.+++|++|++++|.+...  ..+.++++|++|++++|.+..+      .+++|++|++++
T Consensus        58 L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~l~~  137 (477)
T 2id5_A           58 LEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGD  137 (477)
T ss_dssp             CCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEEECC
T ss_pred             CCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCCCccccCChhHccccccCCEEECCC
Confidence            34566666666654 45566666677777766666652  2356666677777766666554      456666666666


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      |.. ....+..+.++++|++|+|++|.++.+|...+    ..+++|+.|+|+++. +..+++..+ +.+++|++|++++|
T Consensus       138 n~l-~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l----~~l~~L~~L~l~~n~-i~~~~~~~~-~~l~~L~~L~l~~~  210 (477)
T 2id5_A          138 NDL-VYISHRAFSGLNSLEQLTLEKCNLTSIPTEAL----SHLHGLIVLRLRHLN-INAIRDYSF-KRLYRLKVLEISHW  210 (477)
T ss_dssp             TTC-CEECTTSSTTCTTCCEEEEESCCCSSCCHHHH----TTCTTCCEEEEESCC-CCEECTTCS-CSCTTCCEEEEECC
T ss_pred             Ccc-ceeChhhccCCCCCCEEECCCCcCcccChhHh----cccCCCcEEeCCCCc-CcEeChhhc-ccCcccceeeCCCC
Confidence            655 33344456666666666666666666654431    345566666665533 444433333 55566666666655


Q ss_pred             Ccccc
Q 048213          522 PVLKE  526 (532)
Q Consensus       522 ~~L~~  526 (532)
                      +.+..
T Consensus       211 ~~~~~  215 (477)
T 2id5_A          211 PYLDT  215 (477)
T ss_dssp             TTCCE
T ss_pred             ccccc
Confidence            54433

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A*

Probab=99.39  E-value=1.2e-12  Score=125.89  Aligned_cols=151  Identities=22%  Similarity=0.162  Sum_probs=104.1

Q ss_pred             HhhHHhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEe
Q 048213          369 RARVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSV  439 (532)
Q Consensus       369 ~~~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l  439 (532)
                      ...+.+++.+|.+..++. .+..+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|++
T Consensus        52 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l  131 (276)
T 2z62_A           52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNV  131 (276)
T ss_dssp             TTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTSCCCCSTTCCCTTCTTCCEEEC
T ss_pred             cCCcEEECCCCcCCccCHHHccCCcCCCEEECCCCccCccChhhhcCCccccEEECCCCCccccCchhcccCCCCCEEEC
Confidence            344567777777777654 57778888888888887766  34577778888888887776655      5677888888


Q ss_pred             ccccccCCCCCcccccCCCCCEEecCCcccccccccccc-----------------------cccccCCCccEEEeccCC
Q 048213          440 RGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVA-----------------------AMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~-----------------------~~~~~L~~L~~L~L~~c~  496 (532)
                      ++|.+.....|..+.++++|++|+|++|.++.++...+.                       ...+...+|+.|+|++|.
T Consensus       132 ~~n~l~~~~l~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~l~l~L~ls~n~l~~~~~~~~~~~~L~~L~L~~n~  211 (276)
T 2z62_A          132 AHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQ  211 (276)
T ss_dssp             CSSCCCCCCCCGGGGGCTTCCEEECCSSCCCEECGGGGHHHHTCTTCCEEEECCSSCCCEECTTSSCSCCEEEEECCSSC
T ss_pred             cCCccceecCchhhccCCCCCEEECCCCCCCcCCHHHhhhhhhccccceeeecCCCcccccCccccCCCcccEEECCCCc
Confidence            877662123466777777788888877776665532211                       112344589999999854


Q ss_pred             CCCccchhhhhhcCCCccEEEeecC
Q 048213          497 NLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       497 ~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                       ++.+++..+ +.+++|++|+++++
T Consensus       212 -l~~~~~~~~-~~l~~L~~L~l~~N  234 (276)
T 2z62_A          212 -LKSVPDGIF-DRLTSLQKIWLHTN  234 (276)
T ss_dssp             -CSCCCTTTT-TTCCSCCEEECCSS
T ss_pred             -eeecCHhHh-cccccccEEEccCC
Confidence             888844444 78999999999943

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=99.39  E-value=9e-13  Score=145.51  Aligned_cols=152  Identities=18%  Similarity=0.143  Sum_probs=108.7

Q ss_pred             hhHHhhhhccccc-CCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc-----------------
Q 048213          370 ARVVIDLTYMNLL-SLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA-----------------  429 (532)
Q Consensus       370 ~~~~l~l~~~~l~-~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~-----------------  429 (532)
                      ..+.+++.+|.+. .+|..++.+++|++|++++|.+..  |..++++++|++|++++|.+.+.                 
T Consensus       491 ~L~~L~L~~N~l~~~~p~~~~~l~~L~~L~L~~N~l~~~~p~~l~~l~~L~~L~Ls~N~l~g~ip~~~~~~~~~~~~~~~  570 (768)
T 3rgz_A          491 NLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFI  570 (768)
T ss_dssp             TCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSSCCEEECCGGGGGCTTCCEEECCSSEEESBCCGGGGTTTTCBCCSTT
T ss_pred             CCCEEEccCCccCCcCChHHhcCCCCCEEECCCCcccCcCCHHHcCCCCCCEEECCCCccCCcCChHHhcccchhhhhcc
Confidence            3455666666665 356666777777777777776654  55667777777777776654311                 


Q ss_pred             -----------------------------------------------------------ccCCcceEEeccccccCCCCC
Q 048213          430 -----------------------------------------------------------GSSQLKHLSVRGLRASAPNPT  450 (532)
Q Consensus       430 -----------------------------------------------------------~l~~Lr~L~l~~~~~~~~~~~  450 (532)
                                                                                 .+++|+.|+|++|++ ....|
T Consensus       571 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~g~~~~~~~~l~~L~~LdLs~N~l-~g~ip  649 (768)
T 3rgz_A          571 AGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNML-SGYIP  649 (768)
T ss_dssp             CSCEEEEEECCSCCTTCCSSEEEEECTTCCGGGGGGGGGTCCSCTTSCEEEEECCCSCSSSBCCCEEECCSSCC-BSCCC
T ss_pred             ccccccccccccccccccccccccccccccchhhhccccccccccccceecccCchhhhccccccEEECcCCcc-cccCC
Confidence                                                                       135677888888877 66778


Q ss_pred             cccccCCCCCEEecCCcccc-cccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCccccccc
Q 048213          451 ESEVALPKLETVCLSSINIE-RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIV  529 (532)
Q Consensus       451 ~~~~~l~~L~~L~L~~~~l~-~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i~~  529 (532)
                      ..++++++|++|+|++|.++ .+|..+     ..|++|++|+|++|+..+.+ |..+ +.|++|++|+|++|+--..|+.
T Consensus       650 ~~l~~l~~L~~L~Ls~N~l~g~ip~~l-----~~L~~L~~LdLs~N~l~g~i-p~~l-~~l~~L~~L~ls~N~l~g~iP~  722 (768)
T 3rgz_A          650 KEIGSMPYLFILNLGHNDISGSIPDEV-----GDLRGLNILDLSSNKLDGRI-PQAM-SALTMLTEIDLSNNNLSGPIPE  722 (768)
T ss_dssp             GGGGGCTTCCEEECCSSCCCSCCCGGG-----GGCTTCCEEECCSSCCEECC-CGGG-GGCCCCSEEECCSSEEEEECCS
T ss_pred             HHHhccccCCEEeCcCCccCCCCChHH-----hCCCCCCEEECCCCcccCcC-ChHH-hCCCCCCEEECcCCcccccCCC
Confidence            88888888888888888887 666666     78889999999986644466 7777 7899999999998875555543

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.38  E-value=7.3e-13  Score=118.42  Aligned_cols=127  Identities=18%  Similarity=0.164  Sum_probs=104.9

Q ss_pred             hhccccccEEEeccccccCcccccccc-cccEEeecccccccc----ccCCcceEEeccccccCCCCCc-ccccCCCCCE
Q 048213          388 LGLLTNLQTLCLYYCKLQDTSVLGELK-ILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTE-SEVALPKLET  461 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~~~~i~~l~-~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~-~~~~l~~L~~  461 (532)
                      +.++.+|+.|++++|.+..++.+..+. +|++|++++|.++.+    .+++|++|++++|.+  ...+. .+..+++|++
T Consensus        15 ~~~~~~L~~L~l~~n~l~~i~~~~~~~~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l--~~~~~~~~~~l~~L~~   92 (176)
T 1a9n_A           15 YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRI--CRIGEGLDQALPDLTE   92 (176)
T ss_dssp             EECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCC--CEECSCHHHHCTTCCE
T ss_pred             cCCcCCceEEEeeCCCCchhHHhhhcCCCCCEEECCCCCCCcccccccCCCCCEEECCCCcc--cccCcchhhcCCCCCE
Confidence            567889999999999998866677666 999999999988876    778999999999987  34443 4589999999


Q ss_pred             EecCCcccccccc--cccccccccCCCccEEEeccCCCCCccchhh---hhhcCCCccEEEeecCCc
Q 048213          462 VCLSSINIERIWQ--NQVAAMSCGIQNLKRLILFNCWNLTCLFTSS---IISSFVGLQCLEICECPV  523 (532)
Q Consensus       462 L~L~~~~l~~lp~--~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~---~~~~L~~L~~L~l~~c~~  523 (532)
                      |+|++|.++.+|.  .+     ..+++|++|++++|+ +..+ |..   .++.+++|++|++++++.
T Consensus        93 L~L~~N~i~~~~~~~~l-----~~l~~L~~L~l~~N~-i~~~-~~~~~~~~~~l~~L~~Ld~~~n~~  152 (176)
T 1a9n_A           93 LILTNNSLVELGDLDPL-----ASLKSLTYLCILRNP-VTNK-KHYRLYVIYKVPQVRVLDFQKVKL  152 (176)
T ss_dssp             EECCSCCCCCGGGGGGG-----GGCTTCCEEECCSSG-GGGS-TTHHHHHHHHCTTCSEETTEECCH
T ss_pred             EECCCCcCCcchhhHhh-----hcCCCCCEEEecCCC-CCCc-HhHHHHHHHHCCccceeCCCcCCH
Confidence            9999999998887  44     578999999999865 6777 543   237999999999998863

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.38  E-value=6.4e-13  Score=115.23  Aligned_cols=123  Identities=24%  Similarity=0.262  Sum_probs=98.6

Q ss_pred             cccccEEEecccccc--C-cccccccccccEEeecccccccc----ccCCcceEEeccccccCCCCCcccccCCCCCEEe
Q 048213          391 LTNLQTLCLYYCKLQ--D-TSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVC  463 (532)
Q Consensus       391 l~~L~~L~l~~~~l~--~-~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~  463 (532)
                      .++|+.|++++|.+.  . +..+..+++|++|++++|.+..+    .+++|++|++++|.+ ....|..+..+++|++|+
T Consensus        16 ~~~l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~n~i-~~~~~~~~~~l~~L~~L~   94 (149)
T 2je0_A           16 PSDVKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRV-SGGLEVLAEKCPNLTHLN   94 (149)
T ss_dssp             GGGCSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCCTTCCCCTTCCEEECCSSCC-CSCTHHHHHHCTTCCEEE
T ss_pred             CccCeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCchhhhcCCCCCEEECCCCcc-cchHHHHhhhCCCCCEEE
Confidence            467889999999887  3 55678889999999999988776    678899999999987 333666777899999999


Q ss_pred             cCCccccccc--ccccccccccCCCccEEEeccCCCCCccch--hhhhhcCCCccEEEeec
Q 048213          464 LSSINIERIW--QNQVAAMSCGIQNLKRLILFNCWNLTCLFT--SSIISSFVGLQCLEICE  520 (532)
Q Consensus       464 L~~~~l~~lp--~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p--~~~~~~L~~L~~L~l~~  520 (532)
                      +++|.++.+|  ..+     ..+++|++|++++|+ +..+++  ...++.+++|++|++++
T Consensus        95 ls~N~i~~~~~~~~~-----~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~l~~L~~L~l~d  149 (149)
T 2je0_A           95 LSGNKIKDLSTIEPL-----KKLENLKSLDLFNCE-VTNLNDYRENVFKLLPQLTYLDGYD  149 (149)
T ss_dssp             CTTSCCCSHHHHGGG-----GGCTTCCEEECTTCG-GGGSTTHHHHHHHHCTTCCEETTBC
T ss_pred             CCCCcCCChHHHHHH-----hhCCCCCEEeCcCCc-ccchHHHHHHHHHHCCCcccccCCC
Confidence            9999998875  444     678999999999864 777744  13348899999998864

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.38  E-value=1.1e-12  Score=135.13  Aligned_cols=141  Identities=23%  Similarity=0.301  Sum_probs=96.9

Q ss_pred             HHhhhhcccccCCc-hhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~~lp-~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      +.+++.+|.+..++ ..|..+++|++|++++|.+..  +..+.++++|++|+|++|+++.+      .+++|++|+|++|
T Consensus        67 ~~L~L~~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N  146 (440)
T 3zyj_A           67 RLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNN  146 (440)
T ss_dssp             SEEECCSCCCCEECTTTTSSCSSCCEEECCSSCCCEECGGGGTTCSSCCEEECCSSCCSSCCTTTSCSCSSCCEEECCSC
T ss_pred             cEEEccCCcCCeeCHHHhhCCCCCCEEECCCCcCCccChhhccCCccCCEEECCCCcCCeeCHhHhhccccCceeeCCCC
Confidence            56677777776654 457777777777777777766  34677777777777777777665      4567777777777


Q ss_pred             cccCCCCCcccccCCCCCEEecCCc-ccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSI-NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~-~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      .+ ....+..|.++++|++|+|++| .+..++...+    .++++|++|+|++| .+..+ |. + ..+++|++|+|++|
T Consensus       147 ~i-~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~----~~l~~L~~L~L~~n-~l~~~-~~-~-~~l~~L~~L~Ls~N  217 (440)
T 3zyj_A          147 PI-ESIPSYAFNRIPSLRRLDLGELKRLSYISEGAF----EGLSNLRYLNLAMC-NLREI-PN-L-TPLIKLDELDLSGN  217 (440)
T ss_dssp             CC-CEECTTTTTTCTTCCEEECCCCTTCCEECTTTT----TTCSSCCEEECTTS-CCSSC-CC-C-TTCSSCCEEECTTS
T ss_pred             cc-cccCHHHhhhCcccCEeCCCCCCCcceeCcchh----hcccccCeecCCCC-cCccc-cc-c-CCCcccCEEECCCC
Confidence            65 3333446677777777777774 5666655432    45777888888774 46777 43 3 57788888888877

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.38  E-value=1.1e-11  Score=123.40  Aligned_cols=175  Identities=12%  Similarity=0.062  Sum_probs=113.9

Q ss_pred             cccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec-----------------
Q 048213          102 NKDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE-----------------  164 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~-----------------  164 (532)
                      ...+..|+||++++++|.+++..+  +++.|+|++|+|||||++++++...      ......                 
T Consensus         8 ~~~~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~   79 (350)
T 2qen_A            8 KTRREDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNERP------GILIDCRELYAERGHITREELIK   79 (350)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHSS------EEEEEHHHHHHTTTCBCHHHHHH
T ss_pred             CCChHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHcC------cEEEEeecccccccCCCHHHHHH
Confidence            345678999999999999988754  7999999999999999999987631      111000                 


Q ss_pred             -------------------------------cCchhhHHHHHHHHhccCcEEEEEcCCCCccc---------cccccccc
Q 048213          165 -------------------------------ESESGRARSLCNRLKKEKMILVILDNIWENLD---------FHAVGIPH  204 (532)
Q Consensus       165 -------------------------------~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~---------~~~l~~~~  204 (532)
                                                     .........+.+.....++++||+||++....         +..+....
T Consensus        80 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~  159 (350)
T 2qen_A           80 ELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAY  159 (350)
T ss_dssp             HHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHH
Confidence                                           00011122222222222489999999987543         12221111


Q ss_pred             CCCCCCeEEEEeecChHHhhhc----------C-CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCC
Q 048213          205 GDDHKGCKVLLTARSLDVLSRK----------M-DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAG  273 (532)
Q Consensus       205 ~~~~~gs~ilvTtr~~~v~~~~----------~-~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~g  273 (532)
                       ....+.++|+|++........          . .....+.+.+|+.+++.+++........ .....+.+..|+..|+|
T Consensus       160 -~~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~-~~~~~~~~~~i~~~tgG  237 (350)
T 2qen_A          160 -DSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVN-LDVPENEIEEAVELLDG  237 (350)
T ss_dssp             -HHCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTT-CCCCHHHHHHHHHHHTT
T ss_pred             -HhcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHhCC
Confidence             112478899998876532111          1 1124789999999999999987543111 11225678899999999


Q ss_pred             chHHHHHHHHHHc
Q 048213          274 LPVSIVTVARALR  286 (532)
Q Consensus       274 lPLai~~~~~~l~  286 (532)
                      +|+++..++..+.
T Consensus       238 ~P~~l~~~~~~~~  250 (350)
T 2qen_A          238 IPGWLVVFGVEYL  250 (350)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999987653

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.38  E-value=7.9e-13  Score=132.15  Aligned_cols=144  Identities=22%  Similarity=0.196  Sum_probs=99.8

Q ss_pred             hHHhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          371 RVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      .+.+++.++.+..+|. .+..+++|++|++++|.+..  +..+.++++|++|++++|.++.+      .+++|++|++++
T Consensus        54 L~~L~l~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~  133 (353)
T 2z80_A           54 VKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLG  133 (353)
T ss_dssp             CCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECTT
T ss_pred             CcEEECCCCcCcccCHHHhccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECCC
Confidence            3567777777777665 57777788888887777766  34577777888888887777666      467788888887


Q ss_pred             ccccCCCCCc--ccccCCCCCEEecCCc-ccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEe
Q 048213          442 LRASAPNPTE--SEVALPKLETVCLSSI-NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI  518 (532)
Q Consensus       442 ~~~~~~~~~~--~~~~l~~L~~L~L~~~-~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l  518 (532)
                      |.+  ...+.  .+.++++|++|++++| .++.++...+    .++++|++|++++|. +..+.|..+ +.+++|++|++
T Consensus       134 n~l--~~l~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~----~~l~~L~~L~l~~n~-l~~~~~~~l-~~l~~L~~L~l  205 (353)
T 2z80_A          134 NPY--KTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDF----AGLTFLEELEIDASD-LQSYEPKSL-KSIQNVSHLIL  205 (353)
T ss_dssp             CCC--SSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTT----TTCCEEEEEEEEETT-CCEECTTTT-TTCSEEEEEEE
T ss_pred             CCC--cccCchhhhccCCCCcEEECCCCccccccCHHHc----cCCCCCCEEECCCCC-cCccCHHHH-hccccCCeecC
Confidence            765  33333  5677778888888777 4666644331    457778888887754 555545555 67788888888


Q ss_pred             ecCC
Q 048213          519 CECP  522 (532)
Q Consensus       519 ~~c~  522 (532)
                      ++|.
T Consensus       206 ~~n~  209 (353)
T 2z80_A          206 HMKQ  209 (353)
T ss_dssp             ECSC
T ss_pred             CCCc
Confidence            7764

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens}

Probab=99.38  E-value=9.4e-13  Score=137.21  Aligned_cols=145  Identities=23%  Similarity=0.267  Sum_probs=122.9

Q ss_pred             hHHhhhhcccccCCc-hhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          371 RVVIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp-~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      .+.+++.++.+..++ ..|..+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|+|++
T Consensus        34 l~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~  113 (477)
T 2id5_A           34 TRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISE  113 (477)
T ss_dssp             CSEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCSCCTTSSTTCTTCCEEECTT
T ss_pred             CcEEECCCCccceECHhHccCCCCCCEEECCCCccCEeChhhhhCCccCCEEECCCCcCCccCcccccCCCCCCEEECCC
Confidence            357899999998874 569999999999999999887  56799999999999999988877      578999999999


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      |.+ ....+..+.++++|++|+|++|.++.++...+    ..+++|+.|+|++| .+..+++..+ +.+++|+.|++++|
T Consensus       114 n~i-~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~----~~l~~L~~L~l~~n-~l~~~~~~~l-~~l~~L~~L~l~~n  186 (477)
T 2id5_A          114 NKI-VILLDYMFQDLYNLKSLEVGDNDLVYISHRAF----SGLNSLEQLTLEKC-NLTSIPTEAL-SHLHGLIVLRLRHL  186 (477)
T ss_dssp             SCC-CEECTTTTTTCTTCCEEEECCTTCCEECTTSS----TTCTTCCEEEEESC-CCSSCCHHHH-TTCTTCCEEEEESC
T ss_pred             Ccc-ccCChhHccccccCCEEECCCCccceeChhhc----cCCCCCCEEECCCC-cCcccChhHh-cccCCCcEEeCCCC
Confidence            987 45566788999999999999999988765442    57899999999986 4788855555 89999999999987


Q ss_pred             C
Q 048213          522 P  522 (532)
Q Consensus       522 ~  522 (532)
                      .
T Consensus       187 ~  187 (477)
T 2id5_A          187 N  187 (477)
T ss_dssp             C
T ss_pred             c
Confidence            4

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.37  E-value=1.7e-12  Score=128.35  Aligned_cols=147  Identities=24%  Similarity=0.235  Sum_probs=77.0

Q ss_pred             HhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeeccccc---------------------cc
Q 048213          373 VIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNEL---------------------TR  428 (532)
Q Consensus       373 ~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l---------------------~~  428 (532)
                      .+++.++.+..+|. .++.+++|++|++++|.+..  +..+.++++|++|++++|.+                     ..
T Consensus        56 ~L~L~~n~i~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~~L~~L~l~~n~l~~  135 (330)
T 1xku_A           56 LLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITK  135 (330)
T ss_dssp             EEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCCTTCCEEECCSSCCCB
T ss_pred             EEECCCCcCCEeChhhhccCCCCCEEECCCCcCCeeCHHHhcCCCCCCEEECCCCcCCccChhhcccccEEECCCCcccc
Confidence            34444444444433 34445555555555554444  23344444455555444443                     33


Q ss_pred             c------ccCCcceEEecccccc-CCCCCcccccCCCCCEEecCCccccccccccc-----------------ccccccC
Q 048213          429 A------GSSQLKHLSVRGLRAS-APNPTESEVALPKLETVCLSSINIERIWQNQV-----------------AAMSCGI  484 (532)
Q Consensus       429 ~------~l~~Lr~L~l~~~~~~-~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~-----------------~~~~~~L  484 (532)
                      +      .+++|++|++++|... ....+..+.++++|++|++++|.++.+|..+.                 +.....+
T Consensus       136 ~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n~l~~~~~~~~~~l  215 (330)
T 1xku_A          136 VRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGL  215 (330)
T ss_dssp             BCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCCTTCSEEECTTSCCCEECTGGGTTC
T ss_pred             cCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCccccccCCEEECCCCcCCccCHHHhcCC
Confidence            3      4556666666666541 11334556667777777777776666654331                 1112345


Q ss_pred             CCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          485 QNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       485 ~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      ++|++|+|++|. +..+++..+ +.+++|++|++++|
T Consensus       216 ~~L~~L~Ls~n~-l~~~~~~~~-~~l~~L~~L~L~~N  250 (330)
T 1xku_A          216 NNLAKLGLSFNS-ISAVDNGSL-ANTPHLRELHLNNN  250 (330)
T ss_dssp             TTCCEEECCSSC-CCEECTTTG-GGSTTCCEEECCSS
T ss_pred             CCCCEEECCCCc-CceeChhhc-cCCCCCCEEECCCC
Confidence            666666666533 555534344 56667777777666

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens}

Probab=99.37  E-value=7.2e-13  Score=132.44  Aligned_cols=151  Identities=21%  Similarity=0.215  Sum_probs=113.7

Q ss_pred             HHHHHhhHHhhhhcccccCCc-hhhhccccccEEEeccccccC-cc-cccccccccEEeecccccccc-------ccCCc
Q 048213          365 MEVARARVVIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQD-TS-VLGELKILEILRLRVNELTRA-------GSSQL  434 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~lp-~~~~~l~~L~~L~l~~~~l~~-~~-~i~~l~~L~~L~l~~~~l~~~-------~l~~L  434 (532)
                      +......+.+++.+|.+..++ ..++.+++|++|++++|.+.. ++ .+.++++|++|++++|.+..+       .+++|
T Consensus        72 ~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~~l~~L  151 (353)
T 2z80_A           72 LQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKL  151 (353)
T ss_dssp             TTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCSSCCHHHHTTCTTCSEEECTTCCCSSSCSSCSCTTCTTC
T ss_pred             hccCCCCCEEECCCCccCccCHhhcCCCCCCCEEECCCCcCCcCCHhHhCCCccCCEEECCCCCCcccCchhhhccCCCC
Confidence            344455577888888888764 458888999999999988887 33 378888999999998877655       56789


Q ss_pred             ceEEeccccccCCCCCcccccCCCCCEEecCCccccccc-ccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCc
Q 048213          435 KHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIW-QNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGL  513 (532)
Q Consensus       435 r~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp-~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L  513 (532)
                      ++|++++|+......+..+.++++|++|++++|.++.++ ..+     ..+++|++|+++++. +..+ |..+.+.+++|
T Consensus       152 ~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~l-----~~l~~L~~L~l~~n~-l~~~-~~~~~~~~~~L  224 (353)
T 2z80_A          152 QILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSL-----KSIQNVSHLILHMKQ-HILL-LEIFVDVTSSV  224 (353)
T ss_dssp             CEEEEEESSSCCEECTTTTTTCCEEEEEEEEETTCCEECTTTT-----TTCSEEEEEEEECSC-STTH-HHHHHHHTTTE
T ss_pred             cEEECCCCccccccCHHHccCCCCCCEEECCCCCcCccCHHHH-----hccccCCeecCCCCc-cccc-hhhhhhhcccc
Confidence            999998885312334567788889999999998887763 333     567889999998754 6777 55554678899


Q ss_pred             cEEEeecCC
Q 048213          514 QCLEICECP  522 (532)
Q Consensus       514 ~~L~l~~c~  522 (532)
                      ++|++++|.
T Consensus       225 ~~L~L~~n~  233 (353)
T 2z80_A          225 ECLELRDTD  233 (353)
T ss_dssp             EEEEEESCB
T ss_pred             cEEECCCCc
Confidence            999998875

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.36  E-value=1.7e-12  Score=139.04  Aligned_cols=75  Identities=19%  Similarity=0.247  Sum_probs=43.2

Q ss_pred             hhHHhhhhcccccCCchh-hhccccccEEEeccccccC-cc-cccccccccEEeecccccccc------ccCCcceEEec
Q 048213          370 ARVVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD-TS-VLGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~-~~-~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      ..+.+++.+|.+..+|+. |+.+++|++|++++|.+.. ++ .++++++|++|++++|.+..+      .+++|++|+++
T Consensus       100 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~  179 (597)
T 3oja_B          100 TIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLS  179 (597)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECT
T ss_pred             CCCEEECCCCcCCCCCHHHHcCCCCCCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECc
Confidence            345556666666555443 4666666666666666655 22 245666666666666655544      45566666666


Q ss_pred             cccc
Q 048213          441 GLRA  444 (532)
Q Consensus       441 ~~~~  444 (532)
                      +|.+
T Consensus       180 ~N~l  183 (597)
T 3oja_B          180 SNRL  183 (597)
T ss_dssp             TSCC
T ss_pred             CCCC
Confidence            6644

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.36  E-value=1e-12  Score=129.01  Aligned_cols=142  Identities=18%  Similarity=0.121  Sum_probs=114.0

Q ss_pred             HhhHHhhhhcccccCCc-hhhhccccccEEEeccccccC----cccc--cccccccEEeecccccccc---------ccC
Q 048213          369 RARVVIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQD----TSVL--GELKILEILRLRVNELTRA---------GSS  432 (532)
Q Consensus       369 ~~~~~l~l~~~~l~~lp-~~~~~l~~L~~L~l~~~~l~~----~~~i--~~l~~L~~L~l~~~~l~~~---------~l~  432 (532)
                      ...+++++.+|.+..++ ..++.+++|++|++++|.+..    +..+  .++++|++|++++|.+..+         .++
T Consensus       149 ~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~~l~  228 (312)
T 1wwl_A          149 PGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARV  228 (312)
T ss_dssp             TTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTCCEEECTTSCCCCHHHHHHHHHHTTC
T ss_pred             CCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCCCEEECCCCcCcchHHHHHHHHhcCC
Confidence            45577888888888876 668899999999999998654    3334  7889999999999988844         458


Q ss_pred             CcceEEeccccccCCCCC-cccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCC
Q 048213          433 QLKHLSVRGLRASAPNPT-ESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFV  511 (532)
Q Consensus       433 ~Lr~L~l~~~~~~~~~~~-~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~  511 (532)
                      +|++|++++|.+ ....+ ..+..+++|++|+|++|.|+.+|..+     +  ++|++|+|++ +.++.+ |. + +.++
T Consensus       229 ~L~~L~Ls~N~l-~~~~~~~~~~~l~~L~~L~Ls~N~l~~ip~~~-----~--~~L~~L~Ls~-N~l~~~-p~-~-~~l~  296 (312)
T 1wwl_A          229 QLQGLDLSHNSL-RDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGL-----P--AKLSVLDLSY-NRLDRN-PS-P-DELP  296 (312)
T ss_dssp             CCSEEECTTSCC-CSSCCCSCCCCCTTCCEEECTTSCCSSCCSSC-----C--SEEEEEECCS-SCCCSC-CC-T-TTSC
T ss_pred             CCCEEECCCCcC-CcccchhhhhhcCCCCEEECCCCccChhhhhc-----c--CCceEEECCC-CCCCCC-hh-H-hhCC
Confidence            999999999987 33332 45667899999999999999888876     5  8899999997 458888 55 5 7899


Q ss_pred             CccEEEeecCC
Q 048213          512 GLQCLEICECP  522 (532)
Q Consensus       512 ~L~~L~l~~c~  522 (532)
                      +|++|++++++
T Consensus       297 ~L~~L~L~~N~  307 (312)
T 1wwl_A          297 QVGNLSLKGNP  307 (312)
T ss_dssp             EEEEEECTTCT
T ss_pred             CCCEEeccCCC
Confidence            99999999875

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.36  E-value=6.1e-12  Score=125.22  Aligned_cols=147  Identities=17%  Similarity=0.159  Sum_probs=71.7

Q ss_pred             cHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEe
Q 048213          364 RMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSV  439 (532)
Q Consensus       364 ~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l  439 (532)
                      ..+++...+.+++.++.+..+|. +..+++|++|++++|.+.+.+.+.++++|++|++++|.+..+    .+++|++|++
T Consensus        39 ~~~~l~~L~~L~l~~~~i~~~~~-~~~~~~L~~L~l~~n~i~~~~~~~~l~~L~~L~L~~n~i~~~~~~~~l~~L~~L~l  117 (347)
T 4fmz_A           39 TQEELESITKLVVAGEKVASIQG-IEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDISALQNLTNLRELYL  117 (347)
T ss_dssp             CHHHHTTCSEEECCSSCCCCCTT-GGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEEC
T ss_pred             cchhcccccEEEEeCCccccchh-hhhcCCccEEEccCCccccchhhhcCCcCCEEEccCCcccCchHHcCCCcCCEEEC
Confidence            34444444455555555544443 455555555555555554433355555555555555544443    3444555555


Q ss_pred             cccccc--------------------CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCC
Q 048213          440 RGLRAS--------------------APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLT  499 (532)
Q Consensus       440 ~~~~~~--------------------~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~  499 (532)
                      ++|...                    ....+..+..+++|++|++++|.+..++. +     ..+++|+.|++++|. +.
T Consensus       118 ~~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~~~~~~-~-----~~l~~L~~L~l~~n~-l~  190 (347)
T 4fmz_A          118 NEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKVKDVTP-I-----ANLTDLYSLSLNYNQ-IE  190 (347)
T ss_dssp             TTSCCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCCCCCGG-G-----GGCTTCSEEECTTSC-CC
T ss_pred             cCCcccCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCcCCchh-h-----ccCCCCCEEEccCCc-cc
Confidence            444330                    01122234555555555555555544433 2     345666666666543 45


Q ss_pred             ccchhhhhhcCCCccEEEeecC
Q 048213          500 CLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       500 ~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      .+++  + ..+++|++|++++|
T Consensus       191 ~~~~--~-~~l~~L~~L~l~~n  209 (347)
T 4fmz_A          191 DISP--L-ASLTSLHYFTAYVN  209 (347)
T ss_dssp             CCGG--G-GGCTTCCEEECCSS
T ss_pred             cccc--c-cCCCccceeecccC
Confidence            5522  2 45666666666554

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A*

Probab=99.35  E-value=1.8e-12  Score=143.09  Aligned_cols=148  Identities=20%  Similarity=0.142  Sum_probs=118.6

Q ss_pred             HHhhhhccccc-CCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLL-SLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~-~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      +.+++.+|.+. .+|..++.+++|++|++++|.+.+  +..+.++++|++|++++|.+.+.      .+++|++|++++|
T Consensus       397 ~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~N  476 (768)
T 3rgz_A          397 QELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFN  476 (768)
T ss_dssp             CEEECCSSEEEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEEECCSSCCCSCCCGGGGGCTTCCEEECCSS
T ss_pred             cEEECCCCccccccCHHHhcCCCCCEEECcCCcccCcccHHHhcCCCCCEEECCCCcccCcCCHHHcCCCCceEEEecCC
Confidence            45666777666 467788888889999998888875  66788888999999988887754      6788999999999


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccc-cccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIE-RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~-~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      ++ ....|..+.++++|++|+|++|.++ .+|.++     ..+++|++|+|++|...+.+ |..+ +.+++|++|++++|
T Consensus       477 ~l-~~~~p~~l~~l~~L~~L~L~~N~l~~~~p~~~-----~~l~~L~~L~L~~N~l~~~~-p~~l-~~l~~L~~L~Ls~N  548 (768)
T 3rgz_A          477 DL-TGEIPSGLSNCTNLNWISLSNNRLTGEIPKWI-----GRLENLAILKLSNNSFSGNI-PAEL-GDCRSLIWLDLNTN  548 (768)
T ss_dssp             CC-CSCCCGGGGGCTTCCEEECCSSCCCSCCCGGG-----GGCTTCCEEECCSSCCEEEC-CGGG-GGCTTCCEEECCSS
T ss_pred             cc-cCcCCHHHhcCCCCCEEEccCCccCCcCChHH-----hcCCCCCEEECCCCcccCcC-CHHH-cCCCCCCEEECCCC
Confidence            87 5577888899999999999999887 566666     67899999999987755566 7777 78999999999988


Q ss_pred             Cccccc
Q 048213          522 PVLKEI  527 (532)
Q Consensus       522 ~~L~~i  527 (532)
                      +-...+
T Consensus       549 ~l~g~i  554 (768)
T 3rgz_A          549 LFNGTI  554 (768)
T ss_dssp             EEESBC
T ss_pred             ccCCcC
Confidence            654343

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens}

Probab=99.35  E-value=1.7e-12  Score=133.76  Aligned_cols=143  Identities=22%  Similarity=0.214  Sum_probs=87.4

Q ss_pred             HhhhhcccccCCch-hhhccccccEEEecccc-ccC--cccccccccccEEeecccccccc----ccCCcceEEeccccc
Q 048213          373 VIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCK-LQD--TSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRA  444 (532)
Q Consensus       373 ~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~-l~~--~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~  444 (532)
                      .+++.+|.+..+|. .+..+++|++|++++|. +..  ...+.++++|++|++++|+++.+    .+++|+.|+|++|.+
T Consensus       140 ~L~L~~N~i~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~Ls~N~l  219 (440)
T 3zyj_A          140 ELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHL  219 (440)
T ss_dssp             EEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCSSCCEEECTTSCCSSCCCCTTCSSCCEEECTTSCC
T ss_pred             eeeCCCCcccccCHHHhhhCcccCEeCCCCCCCcceeCcchhhcccccCeecCCCCcCccccccCCCcccCEEECCCCcc
Confidence            44455555544433 24555555555555432 222  22455666666666666666555    456677777777765


Q ss_pred             cCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          445 SAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       445 ~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                       ....+..|.++++|++|+|++|.++.++...+    ..+++|++|+|++| .+..+++..+ ..+++|++|+|+++|
T Consensus       220 -~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~----~~l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~L~~Np  290 (440)
T 3zyj_A          220 -SAIRPGSFQGLMHLQKLWMIQSQIQVIERNAF----DNLQSLVEINLAHN-NLTLLPHDLF-TPLHHLERIHLHHNP  290 (440)
T ss_dssp             -CEECTTTTTTCTTCCEEECTTCCCCEECTTSS----TTCTTCCEEECTTS-CCCCCCTTTT-SSCTTCCEEECCSSC
T ss_pred             -CccChhhhccCccCCEEECCCCceeEEChhhh----cCCCCCCEEECCCC-CCCccChhHh-ccccCCCEEEcCCCC
Confidence             33445667777777777777777776655442    45778888888874 5777744444 678888888888776

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A

Probab=99.35  E-value=1.1e-12  Score=116.17  Aligned_cols=122  Identities=19%  Similarity=0.102  Sum_probs=107.5

Q ss_pred             HHhhhhccccc--CCchhhhccccccEEEeccccccCcccccccccccEEeeccccccc-c-----ccCCcceEEecccc
Q 048213          372 VVIDLTYMNLL--SLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR-A-----GSSQLKHLSVRGLR  443 (532)
Q Consensus       372 ~~l~l~~~~l~--~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~-~-----~l~~Lr~L~l~~~~  443 (532)
                      +.+++.++.+.  .+|..+..+++|++|++++|.+.....+..+++|++|++++|.+.. +     .+++|++|++++|.
T Consensus        27 ~~L~l~~n~l~~~~i~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~  106 (168)
T 2ell_A           27 RELVLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGNK  106 (168)
T ss_dssp             SEEECCSCBCBTTBCSSCCGGGGGCCEEEEESSCCCCCSSCCCCSSCCEEEEESCCCCSCCCHHHHHCTTCCEEECBSSS
T ss_pred             CEEECCCCCCChhhHHHHHHhCCCCCEEeCcCCCCCChhhhccCCCCCEEECcCCcCchHHHHHHhhCCCCCEEeccCCc
Confidence            57889999998  7898899999999999999999888889999999999999999988 3     58999999999997


Q ss_pred             ccCCCCC--cccccCCCCCEEecCCcccccccc----cccccccccCCCccEEEeccCCCCCcc
Q 048213          444 ASAPNPT--ESEVALPKLETVCLSSINIERIWQ----NQVAAMSCGIQNLKRLILFNCWNLTCL  501 (532)
Q Consensus       444 ~~~~~~~--~~~~~l~~L~~L~L~~~~l~~lp~----~~~~~~~~~L~~L~~L~L~~c~~l~~l  501 (532)
                      +  ...+  ..+..+++|++|++++|.++.+|.    .+     ..+++|++|++++|. +.++
T Consensus       107 l--~~~~~~~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~-----~~l~~L~~L~l~~n~-~~~~  162 (168)
T 2ell_A          107 L--KDISTLEPLKKLECLKSLDLFNCEVTNLNDYRESVF-----KLLPQLTYLDGYDRE-DQEA  162 (168)
T ss_dssp             C--CSSGGGGGGSSCSCCCEEECCSSGGGTSTTHHHHHH-----TTCSSCCEETTEETT-SCBC
T ss_pred             c--CcchhHHHHhcCCCCCEEEeeCCcCcchHHHHHHHH-----HhCccCcEecCCCCC-hhhc
Confidence            7  4433  688999999999999999998887    33     578999999999976 5666

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.35  E-value=1.3e-12  Score=139.95  Aligned_cols=143  Identities=21%  Similarity=0.162  Sum_probs=79.7

Q ss_pred             hHHhhhhcccccCCchh-hhccccccEEEeccccccC--cccccccccccEEeecccccccc------------------
Q 048213          371 RVVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------------------  429 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------------------  429 (532)
                      .+.+++.+|.+..+|.. |+.+++|++|++++|.+..  +..+.++++|++|++++|.+..+                  
T Consensus       125 L~~L~L~~n~l~~l~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~l~~L~~L~l~~n~l  204 (597)
T 3oja_B          125 LTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLL  204 (597)
T ss_dssp             CCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTTTCTTCCEEECTTSCCSBCCGGGCTTCSEEECCSSCC
T ss_pred             CCEEEeeCCCCCCCCHHHhccCCCCCEEEeeCCcCCCCChhhhhcCCcCcEEECcCCCCCCcChhhhhhhhhhhcccCcc
Confidence            34556666666665554 3566666666666665554  22455566666666655544432                  


Q ss_pred             -----------------------------------------------ccCCcceEEeccccccCCCCCcccccCCCCCEE
Q 048213          430 -----------------------------------------------GSSQLKHLSVRGLRASAPNPTESEVALPKLETV  462 (532)
Q Consensus       430 -----------------------------------------------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L  462 (532)
                                                                     .+++|++|+|++|.+ ....|..++.+++|++|
T Consensus       205 ~~l~~~~~L~~L~ls~n~l~~~~~~~~~~L~~L~L~~n~l~~~~~l~~l~~L~~L~Ls~N~l-~~~~~~~~~~l~~L~~L  283 (597)
T 3oja_B          205 STLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNEL-EKIMYHPFVKMQRLERL  283 (597)
T ss_dssp             SEEECCTTCSEEECCSSCCCEEECSCCSCCCEEECCSSCCCCCGGGGGCTTCSEEECCSSCC-CEEESGGGTTCSSCCEE
T ss_pred             ccccCCchhheeeccCCcccccccccCCCCCEEECCCCCCCCChhhccCCCCCEEECCCCcc-CCCCHHHhcCccCCCEE
Confidence                                                           233444444444443 22234455555666666


Q ss_pred             ecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          463 CLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       463 ~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      +|++|.++.+|...     ..+++|++|+|++|. +..+ |..+ +.+++|++|+|++|+
T Consensus       284 ~Ls~N~l~~l~~~~-----~~l~~L~~L~Ls~N~-l~~i-~~~~-~~l~~L~~L~L~~N~  335 (597)
T 3oja_B          284 YISNNRLVALNLYG-----QPIPTLKVLDLSHNH-LLHV-ERNQ-PQFDRLENLYLDHNS  335 (597)
T ss_dssp             ECTTSCCCEEECSS-----SCCTTCCEEECCSSC-CCCC-GGGH-HHHTTCSEEECCSSC
T ss_pred             ECCCCCCCCCCccc-----ccCCCCcEEECCCCC-CCcc-Cccc-ccCCCCCEEECCCCC
Confidence            66666555555443     446677777777643 5566 5444 566777777776654

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus}

Probab=99.35  E-value=2e-12  Score=129.53  Aligned_cols=147  Identities=20%  Similarity=0.165  Sum_probs=118.0

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccC--ccccc-ccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLG-ELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~-~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      ..+++.++.+..+|..+.  .+++.|++++|.+..  +..+. ++++|++|+|++|++..+      .+++|++|+|++|
T Consensus        21 ~~l~c~~~~l~~iP~~~~--~~l~~L~Ls~N~l~~l~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N   98 (361)
T 2xot_A           21 NILSCSKQQLPNVPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSN   98 (361)
T ss_dssp             TEEECCSSCCSSCCSSCC--TTCSEEECCSSCCCEECTTSSSSCCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSS
T ss_pred             CEEEeCCCCcCccCccCC--CCCCEEECCCCCCCccChhhhhhcccccCEEECCCCcCCccChhhccCCCCCCEEECCCC
Confidence            356788888988998654  468999999999988  33455 899999999999999877      6789999999999


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhh---hcCCCccEEEee
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSII---SSFVGLQCLEIC  519 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~---~~L~~L~~L~l~  519 (532)
                      ++ ....+..|.++++|++|+|++|.|+.+++..+    ..+++|+.|+|++ +.+..+ |..++   +.+++|++|+|+
T Consensus        99 ~l-~~~~~~~~~~l~~L~~L~L~~N~i~~~~~~~~----~~l~~L~~L~L~~-N~l~~l-~~~~~~~~~~l~~L~~L~L~  171 (361)
T 2xot_A           99 HL-HTLDEFLFSDLQALEVLLLYNNHIVVVDRNAF----EDMAQLQKLYLSQ-NQISRF-PVELIKDGNKLPKLMLLDLS  171 (361)
T ss_dssp             CC-CEECTTTTTTCTTCCEEECCSSCCCEECTTTT----TTCTTCCEEECCS-SCCCSC-CGGGTC----CTTCCEEECC
T ss_pred             cC-CcCCHHHhCCCcCCCEEECCCCcccEECHHHh----CCcccCCEEECCC-CcCCee-CHHHhcCcccCCcCCEEECC
Confidence            87 34445578999999999999999998865442    5789999999998 568889 55443   469999999999


Q ss_pred             cCCcccccc
Q 048213          520 ECPVLKEII  528 (532)
Q Consensus       520 ~c~~L~~i~  528 (532)
                      ++. |+.+.
T Consensus       172 ~N~-l~~l~  179 (361)
T 2xot_A          172 SNK-LKKLP  179 (361)
T ss_dssp             SSC-CCCCC
T ss_pred             CCC-CCccC
Confidence            874 55543

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.34  E-value=3.4e-12  Score=129.29  Aligned_cols=75  Identities=19%  Similarity=0.215  Sum_probs=41.2

Q ss_pred             hhHHhhhhcccccCCch-hhhccccccEEEeccccccC-ccc-ccccccccEEeecccccccc------ccCCcceEEec
Q 048213          370 ARVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD-TSV-LGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~-~~~-i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      ..+.+++.++.+..+|+ .++.+++|++|++++|.+.. +.. +.++++|++|++++|.+..+      .+++|++|+++
T Consensus        94 ~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~l~  173 (390)
T 3o6n_A           94 TIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLS  173 (390)
T ss_dssp             TCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCBCCTTTTSSCTTCCEEECC
T ss_pred             CcCEEECCCCCCCcCCHHHhcCCCCCCEEECCCCccCcCCHHHhcCCCCCcEEECCCCccCccChhhccCCCCCCEEECC
Confidence            33455555555555433 25556666666666665555 222 45566666666666655544      34566666666


Q ss_pred             cccc
Q 048213          441 GLRA  444 (532)
Q Consensus       441 ~~~~  444 (532)
                      +|.+
T Consensus       174 ~n~l  177 (390)
T 3o6n_A          174 SNRL  177 (390)
T ss_dssp             SSCC
T ss_pred             CCcC
Confidence            6543

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A

Probab=99.34  E-value=1.8e-12  Score=134.07  Aligned_cols=147  Identities=20%  Similarity=0.230  Sum_probs=76.7

Q ss_pred             HHhhhhcccccCCchh-hhccccccEEEeccccccC--cccccccccccEEeeccc-ccccc------ccCCcceEEecc
Q 048213          372 VVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVN-ELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~-~l~~~------~l~~Lr~L~l~~  441 (532)
                      +.+++.+|.+..+|.. +..+++|++|++++|.+..  ...+.++++|++|++++| .+..+      .+++|++|++++
T Consensus       126 ~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~l~~~~~l~~i~~~~~~~l~~L~~L~L~~  205 (452)
T 3zyi_A          126 NTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM  205 (452)
T ss_dssp             CEEECCSSCCSBCCTTTSSSCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECCCCTTCCEECTTTTTTCTTCCEEECTT
T ss_pred             CEEECCCCcCCccChhhhcccCCCCEEECCCCCcceeCHhHHhcCCcccEEeCCCCCCccccChhhccCCCCCCEEECCC
Confidence            3344444444443332 3444444444444444433  113444444444444442 22222      345556666665


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      |++  ... ..+..+++|++|+|++|.++.+++..+    .++++|+.|+|++| .+..+++..+ +.+++|++|+|++|
T Consensus       206 n~l--~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~~----~~l~~L~~L~L~~n-~l~~~~~~~~-~~l~~L~~L~L~~N  276 (452)
T 3zyi_A          206 CNI--KDM-PNLTPLVGLEELEMSGNHFPEIRPGSF----HGLSSLKKLWVMNS-QVSLIERNAF-DGLASLVELNLAHN  276 (452)
T ss_dssp             SCC--SSC-CCCTTCTTCCEEECTTSCCSEECGGGG----TTCTTCCEEECTTS-CCCEECTTTT-TTCTTCCEEECCSS
T ss_pred             Ccc--ccc-ccccccccccEEECcCCcCcccCcccc----cCccCCCEEEeCCC-cCceECHHHh-cCCCCCCEEECCCC
Confidence            544  222 235566666666666666666543331    46777777777764 3666645555 67788888888776


Q ss_pred             Ccccccc
Q 048213          522 PVLKEII  528 (532)
Q Consensus       522 ~~L~~i~  528 (532)
                       .|+.+.
T Consensus       277 -~l~~~~  282 (452)
T 3zyi_A          277 -NLSSLP  282 (452)
T ss_dssp             -CCSCCC
T ss_pred             -cCCccC
Confidence             344443

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.34  E-value=3e-12  Score=137.54  Aligned_cols=138  Identities=16%  Similarity=0.200  Sum_probs=75.7

Q ss_pred             hhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecccccc
Q 048213          374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRAS  445 (532)
Q Consensus       374 l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~  445 (532)
                      ++..++.++.+|..+.  +++++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|+|++|.+ 
T Consensus        16 ~~c~~~~l~~ip~~~~--~~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l-   92 (606)
T 3vq2_A           16 YQCMDQKLSKVPDDIP--SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPI-   92 (606)
T ss_dssp             EECTTSCCSSCCTTSC--TTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCC-
T ss_pred             eEccCCCcccCCCCCC--CCcCEEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcc-
Confidence            3444555555555443  456666666666555  22455666666666666655544      445666666666654 


Q ss_pred             CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCC--ccchhhhhhcCCCccEEEeecC
Q 048213          446 APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLT--CLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       446 ~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~--~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      ....|..|+++++|++|+|++|.++.+|+..+    .++++|++|++++|. +.  .+ |..+ +++++|++|++++|
T Consensus        93 ~~~~p~~~~~l~~L~~L~L~~n~l~~~~~~~~----~~l~~L~~L~L~~n~-l~~~~l-p~~~-~~l~~L~~L~Ls~n  163 (606)
T 3vq2_A           93 QSFSPGSFSGLTSLENLVAVETKLASLESFPI----GQLITLKKLNVAHNF-IHSCKL-PAYF-SNLTNLVHVDLSYN  163 (606)
T ss_dssp             CCCCTTSSTTCTTCCEEECTTSCCCCSSSSCC----TTCTTCCEEECCSSC-CCCCCC-CGGG-GTCTTCCEEECCSS
T ss_pred             cccChhhcCCcccCCEEEccCCcccccccccc----CCCCCCCEEeCCCCc-ccceec-hHhH-hhcCCCCEEEccCC
Confidence            33335556666666666666666655543221    455666666666543 33  23 4444 55666666666655

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.33  E-value=2.9e-12  Score=138.08  Aligned_cols=122  Identities=16%  Similarity=0.195  Sum_probs=53.0

Q ss_pred             cccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCCCCEEec
Q 048213          393 NLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCL  464 (532)
Q Consensus       393 ~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L  464 (532)
                      ++++|++++|.++.  +..+.++++|++|+|++|+++.+      .+++|++|+|++|++ ..-.+..|.++++|++|+|
T Consensus        53 ~~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l-~~l~~~~f~~L~~L~~L~L  131 (635)
T 4g8a_A           53 STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI-QSLALGAFSGLSSLQKLVA  131 (635)
T ss_dssp             TCCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCC-CEECGGGGTTCTTCCEEEC
T ss_pred             CCCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcC-CCCCHHHhcCCCCCCEEEC
Confidence            44455555554444  12344455555555555444443      344455555554443 1112233444455555555


Q ss_pred             CCcccccccccccccccccCCCccEEEeccCCCCCccc-hhhhhhcCCCccEEEeecC
Q 048213          465 SSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLF-TSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       465 ~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~-p~~~~~~L~~L~~L~l~~c  521 (532)
                      ++|+++.+|+..+    .+|++|++|+|+++. +..++ |..+ +.+++|++|++++|
T Consensus       132 s~N~l~~l~~~~~----~~L~~L~~L~Ls~N~-l~~~~~~~~~-~~l~~L~~L~L~~N  183 (635)
T 4g8a_A          132 VETNLASLENFPI----GHLKTLKELNVAHNL-IQSFKLPEYF-SNLTNLEHLDLSSN  183 (635)
T ss_dssp             TTSCCCCSTTCCC----TTCTTCCEEECCSSC-CCCCCCCGGG-GGCTTCCEEECCSS
T ss_pred             CCCcCCCCChhhh----hcCcccCeeccccCc-cccCCCchhh-ccchhhhhhcccCc
Confidence            5554444443321    234455555554422 32221 2222 44455555555443

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.33  E-value=1.2e-12  Score=144.49  Aligned_cols=152  Identities=15%  Similarity=0.111  Sum_probs=124.9

Q ss_pred             HHHHHhhHHhhhhcccccC------------------Cchhhh--ccccccEEEeccccccC--cccccccccccEEeec
Q 048213          365 MEVARARVVIDLTYMNLLS------------------LPSSLG--LLTNLQTLCLYYCKLQD--TSVLGELKILEILRLR  422 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~------------------lp~~~~--~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~  422 (532)
                      +..+...+.+++.+|.+..                  +|..++  .+++|++|++++|.+..  |..+.++++|++|+++
T Consensus       444 l~~L~~L~~L~Ls~N~Lsg~~i~~~~~~~s~n~~~g~iP~~l~f~~L~~L~~L~Ls~N~l~~~iP~~l~~L~~L~~L~Ls  523 (876)
T 4ecn_A          444 IQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIA  523 (876)
T ss_dssp             GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEESCTTCCSCCGGGGGCSSCCEEECT
T ss_pred             HhcCCCCCEEECcCCcCCCCcccccccccccccccccCChhhhhccCCCCCEEECcCCCCCccChHHHhCCCCCCEEECc
Confidence            4445566889999999988                  999987  99999999999998766  7789999999999999


Q ss_pred             ccc-ccc--c-----c-------cCCcceEEeccccccCCCCCc--ccccCCCCCEEecCCcccccccccccccccccCC
Q 048213          423 VNE-LTR--A-----G-------SSQLKHLSVRGLRASAPNPTE--SEVALPKLETVCLSSINIERIWQNQVAAMSCGIQ  485 (532)
Q Consensus       423 ~~~-l~~--~-----~-------l~~Lr~L~l~~~~~~~~~~~~--~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~  485 (532)
                      +|+ ++.  +     .       +++|++|+|++|.+  ...|.  .++++++|++|+|++|.++.+| .+     ..++
T Consensus       524 ~N~~lsg~~iP~~i~~L~~~~~~l~~L~~L~Ls~N~L--~~ip~~~~l~~L~~L~~L~Ls~N~l~~lp-~~-----~~L~  595 (876)
T 4ecn_A          524 CNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNL--EEFPASASLQKMVKLGLLDCVHNKVRHLE-AF-----GTNV  595 (876)
T ss_dssp             TCTTSCHHHHHHHHHHHHHCTTTTTTCCEEECCSSCC--CBCCCHHHHTTCTTCCEEECTTSCCCBCC-CC-----CTTS
T ss_pred             CCCCcccccchHHHHhhhhcccccCCccEEEeeCCcC--CccCChhhhhcCCCCCEEECCCCCcccch-hh-----cCCC
Confidence            998 775  2     2       34999999999987  37777  8999999999999999988888 44     6788


Q ss_pred             CccEEEeccCCCCCccchhhhhhcCCC-ccEEEeecCCcccccc
Q 048213          486 NLKRLILFNCWNLTCLFTSSIISSFVG-LQCLEICECPVLKEII  528 (532)
Q Consensus       486 ~L~~L~L~~c~~l~~l~p~~~~~~L~~-L~~L~l~~c~~L~~i~  528 (532)
                      +|+.|+|++|. +..+ |..+ +.+++ |++|+|++|. ++.++
T Consensus       596 ~L~~L~Ls~N~-l~~l-p~~l-~~l~~~L~~L~Ls~N~-L~~lp  635 (876)
T 4ecn_A          596 KLTDLKLDYNQ-IEEI-PEDF-CAFTDQVEGLGFSHNK-LKYIP  635 (876)
T ss_dssp             EESEEECCSSC-CSCC-CTTS-CEECTTCCEEECCSSC-CCSCC
T ss_pred             cceEEECcCCc-cccc-hHHH-hhccccCCEEECcCCC-CCcCc
Confidence            99999998755 6677 6666 68888 9999988875 44443

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae}

Probab=99.33  E-value=2.2e-12  Score=130.74  Aligned_cols=82  Identities=17%  Similarity=0.084  Sum_probs=45.0

Q ss_pred             CCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCC
Q 048213          432 SQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFV  511 (532)
Q Consensus       432 ~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~  511 (532)
                      ++|++|++++|.. ....+..+..+++|++|+|++|.++.+|...     ..+++|++|+|++| .+..+ |..+ +.++
T Consensus       248 ~~L~~L~Ls~n~l-~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~-----~~l~~L~~L~L~~n-~l~~~-~~~~-~~l~  318 (390)
T 3o6n_A          248 PGLVEVDLSYNEL-EKIMYHPFVKMQRLERLYISNNRLVALNLYG-----QPIPTLKVLDLSHN-HLLHV-ERNQ-PQFD  318 (390)
T ss_dssp             TTCSEEECCSSCC-CEEESGGGTTCSSCCEEECCSSCCCEEECSS-----SCCTTCCEEECCSS-CCCCC-GGGH-HHHT
T ss_pred             CCccEEECCCCcC-CCcChhHccccccCCEEECCCCcCcccCccc-----CCCCCCCEEECCCC-cceec-Cccc-cccC
Confidence            3444444444443 2223444555555666666665555554443     45566777777664 35566 4444 5666


Q ss_pred             CccEEEeecCC
Q 048213          512 GLQCLEICECP  522 (532)
Q Consensus       512 ~L~~L~l~~c~  522 (532)
                      +|++|++++|+
T Consensus       319 ~L~~L~L~~N~  329 (390)
T 3o6n_A          319 RLENLYLDHNS  329 (390)
T ss_dssp             TCSEEECCSSC
T ss_pred             cCCEEECCCCc
Confidence            77777766654

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.33  E-value=2.3e-12  Score=135.84  Aligned_cols=144  Identities=19%  Similarity=0.208  Sum_probs=117.0

Q ss_pred             hhHHhhhhcccccC-CchhhhccccccEEEeccccccC----cccccccccccEEeeccccccc-c------ccCCcceE
Q 048213          370 ARVVIDLTYMNLLS-LPSSLGLLTNLQTLCLYYCKLQD----TSVLGELKILEILRLRVNELTR-A------GSSQLKHL  437 (532)
Q Consensus       370 ~~~~l~l~~~~l~~-lp~~~~~l~~L~~L~l~~~~l~~----~~~i~~l~~L~~L~l~~~~l~~-~------~l~~Lr~L  437 (532)
                      ..+.+++.+|.+.. +|..++.+++|++|++++|.+..    +..+.++++|++|++++|.+.. +      .+++|++|
T Consensus       325 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~l~~~~~~~~~l~~L~~L~Ls~N~l~~~l~~~~~~~l~~L~~L  404 (520)
T 2z7x_B          325 PFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSL  404 (520)
T ss_dssp             CCCEEECCSSCCCTTTTTTCCCCSSCCEEECCSSCCCBHHHHHHHHTTCTTCCEEECCSSCCBCCGGGCSCCCCTTCCEE
T ss_pred             cccEEEeECCccChhhhhhhccCCCCCEEEccCCccCccccchHHHhhCCCCCEEECCCCcCCcccccchhccCccCCEE
Confidence            34578888888877 67788999999999999999886    2458889999999999998887 4      56789999


Q ss_pred             EeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEE
Q 048213          438 SVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLE  517 (532)
Q Consensus       438 ~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~  517 (532)
                      ++++|.. ....+..+.  ++|++|+|++|.++.+|..+     +.+++|++|+|++| .++.+|+..+ ..+++|++|+
T Consensus       405 ~Ls~N~l-~~~~~~~l~--~~L~~L~Ls~N~l~~ip~~~-----~~l~~L~~L~L~~N-~l~~l~~~~~-~~l~~L~~L~  474 (520)
T 2z7x_B          405 NMSSNIL-TDTIFRCLP--PRIKVLDLHSNKIKSIPKQV-----VKLEALQELNVASN-QLKSVPDGIF-DRLTSLQKIW  474 (520)
T ss_dssp             ECCSSCC-CGGGGGSCC--TTCCEEECCSSCCCCCCGGG-----GGCTTCCEEECCSS-CCCCCCTTTT-TTCTTCCEEE
T ss_pred             ECcCCCC-Ccchhhhhc--ccCCEEECCCCcccccchhh-----hcCCCCCEEECCCC-cCCccCHHHh-ccCCcccEEE
Confidence            9999976 333333332  68999999999999999887     78899999999986 5888944335 7899999999


Q ss_pred             eecCCc
Q 048213          518 ICECPV  523 (532)
Q Consensus       518 l~~c~~  523 (532)
                      +++++-
T Consensus       475 l~~N~~  480 (520)
T 2z7x_B          475 LHTNPW  480 (520)
T ss_dssp             CCSSCB
T ss_pred             CcCCCC
Confidence            999873

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.33  E-value=2e-12  Score=127.22  Aligned_cols=144  Identities=19%  Similarity=0.170  Sum_probs=87.0

Q ss_pred             hHHhhhhcccccCCc-hhhhccccccEEEeccccccCcccccccccccEEeecccccccc-ccCCcceEEecccccc---
Q 048213          371 RVVIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-GSSQLKHLSVRGLRAS---  445 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp-~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-~l~~Lr~L~l~~~~~~---  445 (532)
                      .+.+++.+|.+..++ ..++.+++|++|++++|.+.....+..+++|++|++++|.++.+ ..++|++|++++|.+.   
T Consensus        36 L~~L~L~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~L~~L~l~~n~l~~~~  115 (317)
T 3o53_A           36 VKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVS  115 (317)
T ss_dssp             CSEEECTTSCCCCCCHHHHTTCTTCCEEECTTSCCEEEEEETTCTTCCEEECCSSEEEEEEECTTCCEEECCSSCCSEEE
T ss_pred             CCEEECcCCccCcCCHHHhhCCCcCCEEECCCCcCCcchhhhhcCCCCEEECcCCccccccCCCCcCEEECCCCccCCcC
Confidence            457788888888765 46888888999999888887744588888888888888877765 3445555555554330   


Q ss_pred             -----------------CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhh
Q 048213          446 -----------------APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIIS  508 (532)
Q Consensus       446 -----------------~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~  508 (532)
                                       ....+..+..+++|++|+|++|.++.++...+.   ..+++|++|+|++|. ++.+ +..  .
T Consensus       116 ~~~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~---~~l~~L~~L~L~~N~-l~~~-~~~--~  188 (317)
T 3o53_A          116 CSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELA---ASSDTLEHLNLQYNF-IYDV-KGQ--V  188 (317)
T ss_dssp             ECCCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGG---GGTTTCCEEECTTSC-CCEE-ECC--C
T ss_pred             ccccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHh---hccCcCCEEECCCCc-Cccc-ccc--c
Confidence                             222233445555555555555555544332210   134556666666533 4555 222  2


Q ss_pred             cCCCccEEEeecC
Q 048213          509 SFVGLQCLEICEC  521 (532)
Q Consensus       509 ~L~~L~~L~l~~c  521 (532)
                      .+++|++|++++|
T Consensus       189 ~l~~L~~L~Ls~N  201 (317)
T 3o53_A          189 VFAKLKTLDLSSN  201 (317)
T ss_dssp             CCTTCCEEECCSS
T ss_pred             ccccCCEEECCCC
Confidence            3566666666655

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.33  E-value=3.9e-11  Score=112.68  Aligned_cols=179  Identities=12%  Similarity=0.127  Sum_probs=118.5

Q ss_pred             ccccccchHHHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhccCCC--------------------CEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENEKLF--------------------DRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F--------------------~~~~~~  163 (532)
                      ...++||+..++.+..++..+. .+.+.|+|++|+||||+|+.+++.......+                    +.....
T Consensus        22 ~~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (250)
T 1njg_A           22 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEID  101 (250)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCSSEEEEE
T ss_pred             HHHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCcceEEec
Confidence            4569999999999999987543 4588999999999999999999876432111                    111111


Q ss_pred             ccCchhhHHHHHHHHh-------ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceE
Q 048213          164 EESESGRARSLCNRLK-------KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDF  233 (532)
Q Consensus       164 ~~~~~~~~~~l~~~l~-------~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~  233 (532)
                      . ........+.+.+.       .+++.+||+||++..  ..++.+...+.....+..+|+||+..... .........+
T Consensus       102 ~-~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~r~~~i  180 (250)
T 1njg_A          102 A-ASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQF  180 (250)
T ss_dssp             T-TCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             C-cccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHHHhhhc
Confidence            1 11122223333332       246799999999764  34555544443345578888888765422 1112224689


Q ss_pred             EccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHH
Q 048213          234 WVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARAL  285 (532)
Q Consensus       234 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  285 (532)
                      .+.+++.++..+++...+.... ..-.++....|++.|+|.|..+..+...+
T Consensus       181 ~l~~l~~~e~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          181 HLKALDVEQIRHQLEHILNEEH-IAHEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            9999999999999998764211 12225668899999999999888776543

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.32  E-value=1e-11  Score=128.41  Aligned_cols=142  Identities=16%  Similarity=0.075  Sum_probs=109.7

Q ss_pred             ccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc---ccCCcceEEe
Q 048213          363 KRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA---GSSQLKHLSV  439 (532)
Q Consensus       363 ~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~---~l~~Lr~L~l  439 (532)
                      .++..+...+.+++.++.+..+| .++.+++|++|++++|.+...+ ++.+++|++|++++|.+..+   .+++|++|++
T Consensus        36 ~~~~~l~~L~~L~Ls~n~l~~~~-~l~~l~~L~~L~Ls~n~l~~~~-~~~l~~L~~L~Ls~N~l~~~~~~~l~~L~~L~L  113 (457)
T 3bz5_A           36 ISEEQLATLTSLDCHNSSITDMT-GIEKLTGLTKLICTSNNITTLD-LSQNTNLTYLACDSNKLTNLDVTPLTKLTYLNC  113 (457)
T ss_dssp             EEHHHHTTCCEEECCSSCCCCCT-TGGGCTTCSEEECCSSCCSCCC-CTTCTTCSEEECCSSCCSCCCCTTCTTCCEEEC
T ss_pred             cChhHcCCCCEEEccCCCcccCh-hhcccCCCCEEEccCCcCCeEc-cccCCCCCEEECcCCCCceeecCCCCcCCEEEC
Confidence            46777788889999999999887 6899999999999999988865 88999999999999988877   6788999999


Q ss_pred             ccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEee
Q 048213          440 RGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC  519 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~  519 (532)
                      ++|.+  ...+  ++.+++|++|++++|.++.+|  +     ..+++|++|++++|..++.+ +  + +.+++|++|+++
T Consensus       114 ~~N~l--~~l~--~~~l~~L~~L~l~~N~l~~l~--l-----~~l~~L~~L~l~~n~~~~~~-~--~-~~l~~L~~L~ls  178 (457)
T 3bz5_A          114 DTNKL--TKLD--VSQNPLLTYLNCARNTLTEID--V-----SHNTQLTELDCHLNKKITKL-D--V-TPQTQLTTLDCS  178 (457)
T ss_dssp             CSSCC--SCCC--CTTCTTCCEEECTTSCCSCCC--C-----TTCTTCCEEECTTCSCCCCC-C--C-TTCTTCCEEECC
T ss_pred             CCCcC--Ceec--CCCCCcCCEEECCCCccceec--c-----ccCCcCCEEECCCCCccccc-c--c-ccCCcCCEEECC
Confidence            99976  3333  788899999999999888764  2     44566666666666555544 2  2 445555555555


Q ss_pred             cC
Q 048213          520 EC  521 (532)
Q Consensus       520 ~c  521 (532)
                      +|
T Consensus       179 ~n  180 (457)
T 3bz5_A          179 FN  180 (457)
T ss_dssp             SS
T ss_pred             CC
Confidence            54

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.32  E-value=2.4e-12  Score=134.32  Aligned_cols=144  Identities=19%  Similarity=0.163  Sum_probs=89.1

Q ss_pred             hhHHhhhhcccccCCc-hhhhccccccEEEeccccccCcccccccccccEEeecccccccc-ccCCcceEEecccccc--
Q 048213          370 ARVVIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-GSSQLKHLSVRGLRAS--  445 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp-~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-~l~~Lr~L~l~~~~~~--  445 (532)
                      ..+.+++.+|.+..++ ..|+.+++|++|++++|.+.+...+..+++|++|++++|.++.+ ..++|++|++++|.+.  
T Consensus        35 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~l~~~~~L~~L~L~~N~l~~~  114 (487)
T 3oja_A           35 NVKELDLSGNPLSQISAADLAPFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRV  114 (487)
T ss_dssp             GCCEEECCSSCCCCCCGGGGTTCTTCCEEECTTSCCEEEEECTTCTTCCEEECCSSEEEEEEECTTCCEEECCSSCCCCE
T ss_pred             CccEEEeeCCcCCCCCHHHHhCCCCCCEEEeeCCCCCCCcccccCCCCCEEEecCCcCCCCCCCCCcCEEECcCCcCCCC
Confidence            3467888899888875 56899999999999999888744488889999999998887766 3345555555554330  


Q ss_pred             ------------------CCCCCcccccCCCCCEEecCCcccccccccccccccc-cCCCccEEEeccCCCCCccchhhh
Q 048213          446 ------------------APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSC-GIQNLKRLILFNCWNLTCLFTSSI  506 (532)
Q Consensus       446 ------------------~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~-~L~~L~~L~L~~c~~l~~l~p~~~  506 (532)
                                        ....+..++++++|++|+|++|.++.+++..+    + .+++|++|+|++|. +..+ |.. 
T Consensus       115 ~~~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l----~~~l~~L~~L~Ls~N~-l~~~-~~~-  187 (487)
T 3oja_A          115 SCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAEL----AASSDTLEHLNLQYNF-IYDV-KGQ-  187 (487)
T ss_dssp             EECCCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGG----GGGTTTCCEEECTTSC-CCEE-ECC-
T ss_pred             CccccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHH----hhhCCcccEEecCCCc-cccc-ccc-
Confidence                              22223344555555555555555554322211    2 35566666665533 4444 221 


Q ss_pred             hhcCCCccEEEeecC
Q 048213          507 ISSFVGLQCLEICEC  521 (532)
Q Consensus       507 ~~~L~~L~~L~l~~c  521 (532)
                       ..+++|++|+|++|
T Consensus       188 -~~l~~L~~L~Ls~N  201 (487)
T 3oja_A          188 -VVFAKLKTLDLSSN  201 (487)
T ss_dssp             -CCCTTCCEEECCSS
T ss_pred             -ccCCCCCEEECCCC
Confidence             24566666666655

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A*

Probab=99.32  E-value=4.8e-12  Score=125.14  Aligned_cols=144  Identities=16%  Similarity=0.158  Sum_probs=94.2

Q ss_pred             hHHhhhhcccccCCchh-hhccccccEEEeccccccC----cccccccccccEEeecccccccc---ccCCcceEEeccc
Q 048213          371 RVVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD----TSVLGELKILEILRLRVNELTRA---GSSQLKHLSVRGL  442 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~----~~~i~~l~~L~~L~l~~~~l~~~---~l~~Lr~L~l~~~  442 (532)
                      .+.+++.++.+..++.. +..+++|++|++++|.+..    +..+.++++|++|++++|.+..+   -.++|++|++++|
T Consensus       123 L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l~~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n  202 (330)
T 1xku_A          123 LQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGN  202 (330)
T ss_dssp             CCEEECCSSCCCBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCCTTCSEEECTTS
T ss_pred             ccEEECCCCcccccCHhHhcCCccccEEECCCCcCCccCcChhhccCCCCcCEEECCCCccccCCccccccCCEEECCCC
Confidence            34566667777666543 6777777777777777643    44567777777777777776665   2356777777777


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      .+ ....+..+..+++|++|+|++|.++.++...+    ..+++|++|+|++| .+..+ |..+ ..+++|++|++++|+
T Consensus       203 ~l-~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~----~~l~~L~~L~L~~N-~l~~l-p~~l-~~l~~L~~L~l~~N~  274 (330)
T 1xku_A          203 KI-TKVDAASLKGLNNLAKLGLSFNSISAVDNGSL----ANTPHLRELHLNNN-KLVKV-PGGL-ADHKYIQVVYLHNNN  274 (330)
T ss_dssp             CC-CEECTGGGTTCTTCCEEECCSSCCCEECTTTG----GGSTTCCEEECCSS-CCSSC-CTTT-TTCSSCCEEECCSSC
T ss_pred             cC-CccCHHHhcCCCCCCEEECCCCcCceeChhhc----cCCCCCCEEECCCC-cCccC-Chhh-ccCCCcCEEECCCCc
Confidence            65 33345566677777777777777766655321    45677777777764 36666 5555 567777777777664

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.32  E-value=2.4e-12  Score=136.57  Aligned_cols=147  Identities=22%  Similarity=0.238  Sum_probs=108.9

Q ss_pred             hhHHhhhhcccccCC-chhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEec
Q 048213          370 ARVVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       370 ~~~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      ..+.+++.++.+..+ |..++.+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|+++
T Consensus        27 ~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls  106 (549)
T 2z81_A           27 AMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLM  106 (549)
T ss_dssp             TCCEEECCSSCCCEECSSTTSSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECT
T ss_pred             CccEEECcCCccCccChhhhhcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECC
Confidence            346778888888776 4568888888888888888777  35688888888888888887776      57788888888


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCcc-cccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEee
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSIN-IERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC  519 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~-l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~  519 (532)
                      +|.+.....+..++++++|++|++++|. +..+|...+    .++++|++|++++|. +....|..+ +.+++|++|+++
T Consensus       107 ~n~l~~~~~~~~~~~l~~L~~L~L~~n~~~~~~~~~~~----~~l~~L~~L~L~~n~-l~~~~~~~l-~~l~~L~~L~l~  180 (549)
T 2z81_A          107 GNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDF----AGLTSLNELEIKALS-LRNYQSQSL-KSIRDIHHLTLH  180 (549)
T ss_dssp             TCCCSSSCSSCSCTTCTTCCEEEEEESSSCCEECTTTT----TTCCEEEEEEEEETT-CCEECTTTT-TTCSEEEEEEEE
T ss_pred             CCcccccchhhhhhccCCccEEECCCCccccccCHhhh----hcccccCeeeccCCc-ccccChhhh-hccccCceEecc
Confidence            8876212345677888888888888885 666664321    567888888888765 555436666 788888888887


Q ss_pred             cCC
Q 048213          520 ECP  522 (532)
Q Consensus       520 ~c~  522 (532)
                      ++.
T Consensus       181 ~n~  183 (549)
T 2z81_A          181 LSE  183 (549)
T ss_dssp             CSB
T ss_pred             cCc
Confidence            654

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B}

Probab=99.32  E-value=8.3e-12  Score=124.24  Aligned_cols=137  Identities=22%  Similarity=0.245  Sum_probs=91.6

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccc-cccc----ccCCcceEEeccccccC
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNE-LTRA----GSSQLKHLSVRGLRASA  446 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~-l~~~----~l~~Lr~L~l~~~~~~~  446 (532)
                      +.+++.+|.+..+| .+..+++|++|++++|.+...+.+..+++|++|++++|. +..+    .+++|++|++++|..  
T Consensus        91 ~~L~L~~n~i~~~~-~~~~l~~L~~L~l~~n~i~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~l~~L~~L~l~~~~~--  167 (347)
T 4fmz_A           91 TNLYIGTNKITDIS-ALQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESKV--  167 (347)
T ss_dssp             CEEECCSSCCCCCG-GGTTCTTCSEEECTTSCCCCCGGGTTCTTCCEEECTTCTTCCCCGGGTTCTTCCEEECCSSCC--
T ss_pred             CEEEccCCcccCch-HHcCCCcCCEEECcCCcccCchhhccCCceeEEECCCCCCcccccchhhCCCCcEEEecCCCc--
Confidence            44445555444443 245555555555555555553335555555555555552 2211    567788888888765  


Q ss_pred             CCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          447 PNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       447 ~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      ...+ .+..+++|++|++++|.+..++. +     ..+++|++|++++|. +..+++  + +.+++|++|++++|.
T Consensus       168 ~~~~-~~~~l~~L~~L~l~~n~l~~~~~-~-----~~l~~L~~L~l~~n~-l~~~~~--~-~~~~~L~~L~l~~n~  232 (347)
T 4fmz_A          168 KDVT-PIANLTDLYSLSLNYNQIEDISP-L-----ASLTSLHYFTAYVNQ-ITDITP--V-ANMTRLNSLKIGNNK  232 (347)
T ss_dssp             CCCG-GGGGCTTCSEEECTTSCCCCCGG-G-----GGCTTCCEEECCSSC-CCCCGG--G-GGCTTCCEEECCSSC
T ss_pred             CCch-hhccCCCCCEEEccCCccccccc-c-----cCCCccceeecccCC-CCCCch--h-hcCCcCCEEEccCCc
Confidence            2332 38899999999999999988876 3     578999999999854 777734  4 789999999999985

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.31  E-value=3.4e-11  Score=122.82  Aligned_cols=221  Identities=14%  Similarity=0.057  Sum_probs=130.8

Q ss_pred             ccccccchHHHHHHHHHh-c----C--CCceEEEE--EccCCCchHHHHHHHHHHhhccC-----CCCEEEEec---c--
Q 048213          105 YEAFESRMSTFNDILNAL-K----S--PDVNMLGI--YGMGGIRKTTPAKEVAIKAENEK-----LFDRVIFVE---E--  165 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l-~----~--~~~~vv~I--~G~gGiGKTtLA~~v~~~~~~~~-----~F~~~~~~~---~--  165 (532)
                      +..|+||+.+++++.+++ .    .  ...+.+.|  +|++|+||||||+.+++......     .|.......   .  
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            367999999999999988 4    2  34567777  99999999999999998754320     122222110   0  


Q ss_pred             --------------------CchhhHHHHHHHHh-ccCcEEEEEcCCCCccc--------cccccccc---CCCC--CCe
Q 048213          166 --------------------SESGRARSLCNRLK-KEKMILVILDNIWENLD--------FHAVGIPH---GDDH--KGC  211 (532)
Q Consensus       166 --------------------~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~~--------~~~l~~~~---~~~~--~gs  211 (532)
                                          +.......+.+.+. .+++++||+||++....        +..+...+   +..+  ...
T Consensus       101 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~v  180 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRI  180 (412)
T ss_dssp             HHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBE
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCceE
Confidence                                01122334444443 25789999999987432        22221111   1112  445


Q ss_pred             EEEEeecChHHhh--------hcCCCCceEEccCCCHHHHHHHHHHHh---CCCCCCcchHHHHHHHHHHcC------Cc
Q 048213          212 KVLLTARSLDVLS--------RKMDSQQDFWVGVLKEDEAWSLFKKMA---GDYIEGSEFKWVAKDVAKKCA------GL  274 (532)
Q Consensus       212 ~ilvTtr~~~v~~--------~~~~~~~~~~l~~L~~~~~~~Lf~~~~---~~~~~~~~~~~~~~~i~~~c~------gl  274 (532)
                      .+|+||+...+..        ........+.+.+++.++.+++|...+   +..  .....+....|++.|+      |.
T Consensus       181 ~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~--~~~~~~~~~~i~~~~~~~~~~~G~  258 (412)
T 1w5s_A          181 GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRD--TVWEPRHLELISDVYGEDKGGDGS  258 (412)
T ss_dssp             EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCT--TSCCHHHHHHHHHHHCGGGTSCCC
T ss_pred             EEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCC--CCCChHHHHHHHHHHHHhccCCCc
Confidence            6888887554321        001112239999999999999997654   221  1223567889999999      99


Q ss_pred             hHHHHHHHHHHc------cC---ChHHHHHHHHHhcCCCCCCCCCchhHHHHHHHhhcCCCCCchHHHHHHHHhhh
Q 048213          275 PVSIVTVARALR------NK---RLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIGYT  341 (532)
Q Consensus       275 PLai~~~~~~l~------~~---~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f~~lalF  341 (532)
                      |..+..+.....      +.   +.+.+..++.....             ...+.-++..||++ .+.++..++.+
T Consensus       259 p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~-------------~~~~~~~l~~l~~~-~~~~l~aia~l  320 (412)
T 1w5s_A          259 ARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA-------------ASIQTHELEALSIH-ELIILRLIAEA  320 (412)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC-------------------CCSSSSSCHH-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc-------------cchHHHHHHcCCHH-HHHHHHHHHHH
Confidence            976555443211      11   33444433332210             12344467789988 88888888865

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.31  E-value=1.9e-12  Score=126.86  Aligned_cols=140  Identities=14%  Similarity=0.094  Sum_probs=112.6

Q ss_pred             hHHhhhhcccccCCc-hhhhccccccEEEeccccccC------cccccccccccEEeecccccccc---------ccCCc
Q 048213          371 RVVIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQD------TSVLGELKILEILRLRVNELTRA---------GSSQL  434 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp-~~~~~l~~L~~L~l~~~~l~~------~~~i~~l~~L~~L~l~~~~l~~~---------~l~~L  434 (532)
                      .+.+++.+|.+..++ ..++.+++|++|++++|.+..      ...+.++++|++|++++|+++.+         .+++|
T Consensus       147 L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~l~~~l~~L  226 (310)
T 4glp_A          147 LKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPAIQNLALRNTGMETPTGVCAALAAAGVQP  226 (310)
T ss_dssp             CCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCCCCSCBCCSSCCCCHHHHHHHHHHHTCCC
T ss_pred             CCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCCCCEEECCCCCCCchHHHHHHHHhcCCCC
Confidence            457888899888765 568899999999999998643      22346889999999999998755         45899


Q ss_pred             ceEEeccccccCCCCCcccccC---CCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCC
Q 048213          435 KHLSVRGLRASAPNPTESEVAL---PKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFV  511 (532)
Q Consensus       435 r~L~l~~~~~~~~~~~~~~~~l---~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~  511 (532)
                      ++|+|++|++ ....|..+..+   ++|++|+|++|.++.+|..+     +  ++|++|+|++| .+..+ |. + ..++
T Consensus       227 ~~L~Ls~N~l-~~~~p~~~~~~~~~~~L~~L~Ls~N~l~~lp~~~-----~--~~L~~L~Ls~N-~l~~~-~~-~-~~l~  294 (310)
T 4glp_A          227 HSLDLSHNSL-RATVNPSAPRCMWSSALNSLNLSFAGLEQVPKGL-----P--AKLRVLDLSSN-RLNRA-PQ-P-DELP  294 (310)
T ss_dssp             SSEECTTSCC-CCCCCSCCSSCCCCTTCCCEECCSSCCCSCCSCC-----C--SCCSCEECCSC-CCCSC-CC-T-TSCC
T ss_pred             CEEECCCCCC-CccchhhHHhccCcCcCCEEECCCCCCCchhhhh-----c--CCCCEEECCCC-cCCCC-ch-h-hhCC
Confidence            9999999987 34445556555   79999999999999998876     4  79999999975 57887 44 3 6899


Q ss_pred             CccEEEeecCC
Q 048213          512 GLQCLEICECP  522 (532)
Q Consensus       512 ~L~~L~l~~c~  522 (532)
                      +|++|+|++++
T Consensus       295 ~L~~L~L~~N~  305 (310)
T 4glp_A          295 EVDNLTLDGNP  305 (310)
T ss_dssp             CCSCEECSSTT
T ss_pred             CccEEECcCCC
Confidence            99999999886

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A*

Probab=99.30  E-value=2.3e-12  Score=138.48  Aligned_cols=116  Identities=23%  Similarity=0.196  Sum_probs=55.3

Q ss_pred             HhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          373 VIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       373 ~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      .+++.++.+..+++ .|..+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|++++|.
T Consensus        36 ~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~i~~~~~~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~L~~n~  115 (606)
T 3vq2_A           36 NIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETK  115 (606)
T ss_dssp             EEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCCCCTTSSTTCTTCCEEECTTSC
T ss_pred             EEECCCCCcCEeChhhccCCccCcEEeCCCCcccccCHHHhhchhhcCEeECCCCcccccChhhcCCcccCCEEEccCCc
Confidence            44555555544433 35555555555555555444  23345555555555555544443      34455555555554


Q ss_pred             ccCCCCCcccccCCCCCEEecCCccccc--ccccccccccccCCCccEEEecc
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIER--IWQNQVAAMSCGIQNLKRLILFN  494 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~--lp~~~~~~~~~~L~~L~~L~L~~  494 (532)
                      . ....+..++++++|++|++++|.++.  +|..+     .++++|++|++++
T Consensus       116 l-~~~~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~-----~~l~~L~~L~Ls~  162 (606)
T 3vq2_A          116 L-ASLESFPIGQLITLKKLNVAHNFIHSCKLPAYF-----SNLTNLVHVDLSY  162 (606)
T ss_dssp             C-CCSSSSCCTTCTTCCEEECCSSCCCCCCCCGGG-----GTCTTCCEEECCS
T ss_pred             c-ccccccccCCCCCCCEEeCCCCcccceechHhH-----hhcCCCCEEEccC
Confidence            4 22222344555555555555554442  33333     3445555555554

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A

Probab=99.30  E-value=3.9e-12  Score=118.05  Aligned_cols=121  Identities=16%  Similarity=0.172  Sum_probs=105.9

Q ss_pred             hHHhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          371 RVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      .+.+++.++.+..+|. .|..+++|++|++++|.+..  +..+.++++|++|+|++|.++.+      .+++|++|+|++
T Consensus        34 l~~L~l~~n~i~~i~~~~~~~l~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~  113 (220)
T 2v9t_B           34 ITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNA  113 (220)
T ss_dssp             CCEEECCSSCCCEECTTSSTTCTTCCEEECCSSCCCEECTTTTTTCSSCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CCEEECCCCcCCCcCHhHhhCCCCCCEEECCCCcCCCcCHHHhhCCcCCCEEECCCCcCCccCHhHccCCCCCCEEECCC
Confidence            3578899999988876 68999999999999999987  56899999999999999999887      578999999999


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      |.+ ....+..|..+++|++|+|++|.|+.+|...+    ..+++|++|+|++++
T Consensus       114 N~l-~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~L~~N~  163 (220)
T 2v9t_B          114 NKI-NCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTF----SPLRAIQTMHLAQNP  163 (220)
T ss_dssp             SCC-CCCCTTTTTTCTTCCEEECCSSCCSCCCTTTT----TTCTTCCEEECCSSC
T ss_pred             CCC-CEeCHHHcCCCCCCCEEECCCCcCCEECHHHH----hCCCCCCEEEeCCCC
Confidence            987 55557789999999999999999999987652    468999999999854

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.30  E-value=3.9e-12  Score=136.64  Aligned_cols=143  Identities=22%  Similarity=0.201  Sum_probs=108.5

Q ss_pred             HHhhhhcccccCC-chhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      +.++++++.+..+ |..|+.+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|++++|
T Consensus        36 ~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n  115 (606)
T 3t6q_A           36 ECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQT  115 (606)
T ss_dssp             CEEECTTCCCSEECTTTSTTCTTCSEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCSEECTTTTSSCTTCCEEECTTS
T ss_pred             cEEEccCCccCcCChhHhccCccceEEECCCCccceeChhhccCccccCeeeCCCCcccccChhhhcccccccEeecccc
Confidence            5778888888876 5568888889999998888776  55688888899999988887665      5788888888888


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccccccc-cccccccccCCCccEEEeccCCCCCccchhhhhhcCCCcc--EEEee
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQ-NQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQ--CLEIC  519 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~-~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~--~L~l~  519 (532)
                      .+ ....+..++++++|++|++++|.++.++. ..     ..+++|++|+++++ .+..++|..+ +.+++|+  .|+++
T Consensus       116 ~i-~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~-----~~l~~L~~L~L~~n-~l~~~~~~~~-~~l~~L~~l~L~l~  187 (606)
T 3t6q_A          116 GI-SSIDFIPLHNQKTLESLYLGSNHISSIKLPKG-----FPTEKLKVLDFQNN-AIHYLSKEDM-SSLQQATNLSLNLN  187 (606)
T ss_dssp             CC-SCGGGSCCTTCTTCCEEECCSSCCCCCCCCTT-----CCCTTCCEEECCSS-CCCEECHHHH-HTTTTCCSEEEECT
T ss_pred             Cc-ccCCcchhccCCcccEEECCCCcccccCcccc-----cCCcccCEEEcccC-cccccChhhh-hhhcccceeEEecC
Confidence            76 33335667888888888888888877632 22     34788888888874 4666655555 7788888  77777


Q ss_pred             cCC
Q 048213          520 ECP  522 (532)
Q Consensus       520 ~c~  522 (532)
                      +|.
T Consensus       188 ~n~  190 (606)
T 3t6q_A          188 GND  190 (606)
T ss_dssp             TCC
T ss_pred             CCc
Confidence            764

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae}

Probab=99.29  E-value=3.3e-12  Score=125.58  Aligned_cols=140  Identities=17%  Similarity=0.141  Sum_probs=97.3

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc-------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA-------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~l~~~  442 (532)
                      +.+++.+|.+..++..  .+++|++|++++|.+..  +..+..+++|++|++++|.+..+       .+++|++|++++|
T Consensus       102 ~~L~l~~n~l~~~~~~--~~~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~l~~L~~L~L~~N  179 (317)
T 3o53_A          102 ETLHAANNNISRVSCS--RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYN  179 (317)
T ss_dssp             CEEECCSSCCSEEEEC--CCSSCEEEECCSSCCCSGGGBCTGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTTS
T ss_pred             CEEECCCCccCCcCcc--ccCCCCEEECCCCCCCCccchhhhccCCCCEEECCCCCCCcccHHHHhhccCcCCEEECCCC
Confidence            3455555555554432  35677788888887777  33567788888888888877765       3577888888888


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      .+  ... .....+++|++|+|++|.++.+|+.+     ..+++|++|+|++| .+..+ |..+ +.+++|++|++++|+
T Consensus       180 ~l--~~~-~~~~~l~~L~~L~Ls~N~l~~l~~~~-----~~l~~L~~L~L~~N-~l~~l-~~~~-~~l~~L~~L~l~~N~  248 (317)
T 3o53_A          180 FI--YDV-KGQVVFAKLKTLDLSSNKLAFMGPEF-----QSAAGVTWISLRNN-KLVLI-EKAL-RFSQNLEHFDLRGNG  248 (317)
T ss_dssp             CC--CEE-ECCCCCTTCCEEECCSSCCCEECGGG-----GGGTTCSEEECTTS-CCCEE-CTTC-CCCTTCCEEECTTCC
T ss_pred             cC--ccc-ccccccccCCEEECCCCcCCcchhhh-----cccCcccEEECcCC-cccch-hhHh-hcCCCCCEEEccCCC
Confidence            65  222 22334778888888888888777765     56788888888874 47777 5555 678888888888776


Q ss_pred             cc
Q 048213          523 VL  524 (532)
Q Consensus       523 ~L  524 (532)
                      -.
T Consensus       249 ~~  250 (317)
T 3o53_A          249 FH  250 (317)
T ss_dssp             CB
T ss_pred             cc
Confidence            43

>4g8a_A TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, immune system; HET: NAG LP4 LP5 DAO MYR KDO; 2.40A {Homo sapiens} PDB: 3fxi_A*

Probab=99.29  E-value=4.2e-12  Score=136.83  Aligned_cols=136  Identities=21%  Similarity=0.222  Sum_probs=111.7

Q ss_pred             hHHhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          371 RVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      .+.+++++|.++.+|+ .|..+++|++|++++|.+..  +..+.++++|++|+|++|+++.+      ++++|++|++++
T Consensus        54 ~~~LdLs~N~i~~l~~~~f~~l~~L~~L~Ls~N~i~~i~~~~f~~L~~L~~L~Ls~N~l~~l~~~~f~~L~~L~~L~Ls~  133 (635)
T 4g8a_A           54 TKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE  133 (635)
T ss_dssp             CCEEECTTSCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECGGGGTTCTTCCEEECTT
T ss_pred             CCEEEeeCCCCCCCCHHHHhCCCCCCEEECCCCcCCCcChhHhcCCCCCCEEEccCCcCCCCCHHHhcCCCCCCEEECCC
Confidence            3689999999999875 69999999999999999988  34689999999999999998877      678999999999


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccc--cccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCcc
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERI--WQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQ  514 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~l--p~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~  514 (532)
                      |++ ..-.+..|+++++|++|+|++|.++.+  |..+     ..+++|++|+|+++ .+..+++..+ +.+.++.
T Consensus       134 N~l-~~l~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~-----~~l~~L~~L~L~~N-~l~~~~~~~l-~~L~~l~  200 (635)
T 4g8a_A          134 TNL-ASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF-----SNLTNLEHLDLSSN-KIQSIYCTDL-RVLHQMP  200 (635)
T ss_dssp             SCC-CCSTTCCCTTCTTCCEEECCSSCCCCCCCCGGG-----GGCTTCCEEECCSS-CCCEECGGGG-HHHHTCT
T ss_pred             CcC-CCCChhhhhcCcccCeeccccCccccCCCchhh-----ccchhhhhhcccCc-cccccccccc-cchhhhh
Confidence            987 344445789999999999999988754  4444     67899999999985 4777756555 4544443

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.28  E-value=4e-12  Score=131.47  Aligned_cols=126  Identities=25%  Similarity=0.227  Sum_probs=105.0

Q ss_pred             ccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCCCCEEe
Q 048213          392 TNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVC  463 (532)
Q Consensus       392 ~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~  463 (532)
                      ++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|++++|.. ....+..+.++++|++|+
T Consensus       275 ~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l-~~~~~~~~~~l~~L~~L~  353 (455)
T 3v47_A          275 SGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFL-GSIDSRMFENLDKLEVLD  353 (455)
T ss_dssp             SCCCEEECCSSCCCEECTTTTTTCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECCSSCC-CEECGGGGTTCTTCCEEE
T ss_pred             cCceEEEecCccccccchhhcccCCCCCEEECCCCcccccChhHhcCcccCCEEECCCCcc-CCcChhHhcCcccCCEEE
Confidence            689999999998887  56789999999999999998876      678999999999977 444567889999999999


Q ss_pred             cCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCcc
Q 048213          464 LSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVL  524 (532)
Q Consensus       464 L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L  524 (532)
                      |++|.++.+++..+    ..+++|++|+|++| .++.+++..+ +.+++|++|+|++|+--
T Consensus       354 Ls~N~l~~~~~~~~----~~l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~l~~N~l~  408 (455)
T 3v47_A          354 LSYNHIRALGDQSF----LGLPNLKELALDTN-QLKSVPDGIF-DRLTSLQKIWLHTNPWD  408 (455)
T ss_dssp             CCSSCCCEECTTTT----TTCTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSSCBC
T ss_pred             CCCCcccccChhhc----cccccccEEECCCC-ccccCCHhHh-ccCCcccEEEccCCCcc
Confidence            99999988744331    57899999999984 5888855544 78999999999987643

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri}

Probab=99.28  E-value=3.4e-12  Score=117.32  Aligned_cols=121  Identities=26%  Similarity=0.261  Sum_probs=102.4

Q ss_pred             hHHhhhhcccccCCchh-hhccccccEEEeccccccCc--ccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          371 RVVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~~--~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      .+.+++.++.+..+|.. ++.+++|++|++++|.+...  ..+..+++|++|++++|.+..+      .+++|++|++++
T Consensus        30 l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~  109 (208)
T 2o6s_A           30 TTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNT  109 (208)
T ss_dssp             CSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCS
T ss_pred             CcEEEcCCCccCcCChhhhcccccCcEEECCCCccCccChhhcCCCCCcCEEECCCCcCCccCHhHhcCccCCCEEEcCC
Confidence            35789999999888765 78999999999999999883  3478999999999999998876      578999999999


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      |.+ ....+..+..+++|++|+|++|.++.+|...+    ..+++|++|+|++++
T Consensus       110 N~l-~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~----~~l~~L~~L~l~~N~  159 (208)
T 2o6s_A          110 NQL-QSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVF----DRLTSLQYIWLHDNP  159 (208)
T ss_dssp             SCC-CCCCTTTTTTCTTCCEEECCSSCCSCCCTTTT----TTCTTCCEEECCSCC
T ss_pred             CcC-cccCHhHhccCCcCCEEECCCCccceeCHHHh----ccCCCccEEEecCCC
Confidence            987 33344457899999999999999998887642    468999999999864

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A

Probab=99.28  E-value=2.4e-12  Score=111.57  Aligned_cols=118  Identities=19%  Similarity=0.160  Sum_probs=102.4

Q ss_pred             hHHhhhhccccc--CCchhhhccccccEEEeccccccCcccccccccccEEeeccccccc-c-----ccCCcceEEeccc
Q 048213          371 RVVIDLTYMNLL--SLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR-A-----GSSQLKHLSVRGL  442 (532)
Q Consensus       371 ~~~l~l~~~~l~--~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~-~-----~l~~Lr~L~l~~~  442 (532)
                      .+.+++.++.+.  .+|..++.+++|++|++++|.+.....+.++++|++|++++|.+.. +     .+++|++|++++|
T Consensus        19 l~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~ls~N   98 (149)
T 2je0_A           19 VKELVLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGN   98 (149)
T ss_dssp             CSEEECTTCBCBTTBCCSCCTTCTTCCEEECTTSCCCCCTTCCCCTTCCEEECCSSCCCSCTHHHHHHCTTCCEEECTTS
T ss_pred             CeEEEccCCcCChhHHHHHHhhcCCCcEEECcCCCCCCchhhhcCCCCCEEECCCCcccchHHHHhhhCCCCCEEECCCC
Confidence            367889999998  7898889999999999999999888889999999999999999988 4     5899999999999


Q ss_pred             cccCCCC--CcccccCCCCCEEecCCcccccccc---cccccccccCCCccEEEecc
Q 048213          443 RASAPNP--TESEVALPKLETVCLSSINIERIWQ---NQVAAMSCGIQNLKRLILFN  494 (532)
Q Consensus       443 ~~~~~~~--~~~~~~l~~L~~L~L~~~~l~~lp~---~~~~~~~~~L~~L~~L~L~~  494 (532)
                      .+  ...  +..+..+++|++|++++|.++.+|.   ..+    ..+++|+.|++++
T Consensus        99 ~i--~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~----~~l~~L~~L~l~d  149 (149)
T 2je0_A           99 KI--KDLSTIEPLKKLENLKSLDLFNCEVTNLNDYRENVF----KLLPQLTYLDGYD  149 (149)
T ss_dssp             CC--CSHHHHGGGGGCTTCCEEECTTCGGGGSTTHHHHHH----HHCTTCCEETTBC
T ss_pred             cC--CChHHHHHHhhCCCCCEEeCcCCcccchHHHHHHHH----HHCCCcccccCCC
Confidence            86  333  3778999999999999999998876   221    5689999998864

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.28  E-value=1.5e-12  Score=140.46  Aligned_cols=147  Identities=12%  Similarity=0.102  Sum_probs=110.0

Q ss_pred             HHHHHhhHHhhhhcccccC------------------Cchhhh--ccccccEEEeccccccC--cccccccccccEEeec
Q 048213          365 MEVARARVVIDLTYMNLLS------------------LPSSLG--LLTNLQTLCLYYCKLQD--TSVLGELKILEILRLR  422 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~------------------lp~~~~--~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~  422 (532)
                      +..+...+++++.+|.+..                  +|..++  .+++|++|++++|.+..  |..++++++|++|+++
T Consensus       202 l~~l~~L~~L~Ls~n~l~~~~~~~~~~~~~~~~~~~~ip~~l~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls  281 (636)
T 4eco_A          202 VMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVA  281 (636)
T ss_dssp             GGGCTTCCEEEEESCCCCGGGBSSSCSCTTSHHHHHHTTSCCCGGGCTTCCEEEEECCTTCSSCCTTTTTCSSCCEEECT
T ss_pred             HhcccCCCEEECcCCccccccccccccccccchhcccCchhhhhcccCCCCEEEecCCcCCccChHHHhcCCCCCEEECc
Confidence            3344456788999999988                  899988  99999999999998766  6789999999999999


Q ss_pred             ccc-ccc--c-----cc------CCcceEEeccccccCCCCCc--ccccCCCCCEEecCCcccc-cccccccccccccCC
Q 048213          423 VNE-LTR--A-----GS------SQLKHLSVRGLRASAPNPTE--SEVALPKLETVCLSSINIE-RIWQNQVAAMSCGIQ  485 (532)
Q Consensus       423 ~~~-l~~--~-----~l------~~Lr~L~l~~~~~~~~~~~~--~~~~l~~L~~L~L~~~~l~-~lp~~~~~~~~~~L~  485 (532)
                      +|+ ++.  +     .+      ++|++|++++|++  ...|.  .++++++|++|++++|.++ .+| .+     ..++
T Consensus       282 ~n~~l~~~~lp~~~~~L~~~~~l~~L~~L~L~~n~l--~~ip~~~~l~~l~~L~~L~L~~N~l~g~ip-~~-----~~l~  353 (636)
T 4eco_A          282 CNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNL--KTFPVETSLQKMKKLGMLECLYNQLEGKLP-AF-----GSEI  353 (636)
T ss_dssp             TCTTSCHHHHHHHHHHHHHSGGGGTCCEEECCSSCC--SSCCCHHHHTTCTTCCEEECCSCCCEEECC-CC-----EEEE
T ss_pred             CCCCCccccchHHHHhhhccccCCCCCEEECCCCcC--CccCchhhhccCCCCCEEeCcCCcCccchh-hh-----CCCC
Confidence            998 775  2     33      8899999999987  37777  7888889999999888887 776 43     4455


Q ss_pred             CccEEEeccCCCCCccchhhhhhcCCC-ccEEEeecCC
Q 048213          486 NLKRLILFNCWNLTCLFTSSIISSFVG-LQCLEICECP  522 (532)
Q Consensus       486 ~L~~L~L~~c~~l~~l~p~~~~~~L~~-L~~L~l~~c~  522 (532)
                      +|++|+|++|. +..+ |..+ +.+++ |++|++++|.
T Consensus       354 ~L~~L~L~~N~-l~~l-p~~l-~~l~~~L~~L~Ls~N~  388 (636)
T 4eco_A          354 KLASLNLAYNQ-ITEI-PANF-CGFTEQVENLSFAHNK  388 (636)
T ss_dssp             EESEEECCSSE-EEEC-CTTS-EEECTTCCEEECCSSC
T ss_pred             CCCEEECCCCc-cccc-cHhh-hhhcccCcEEEccCCc
Confidence            66666666533 4455 4444 45555 6666665554

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus}

Probab=99.28  E-value=7.8e-12  Score=116.77  Aligned_cols=121  Identities=22%  Similarity=0.221  Sum_probs=106.0

Q ss_pred             hhHHhhhhcccccCC-chhhhccccccEEEeccccccCc--ccccccccccEEeecccccccc------ccCCcceEEec
Q 048213          370 ARVVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       370 ~~~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~~--~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      ..+.+++.+|.+..+ |..+..+++|++|++++|.+..+  ..+..+++|++|++++|+++.+      .+++|++|+|+
T Consensus        41 ~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~N~l~~i~~~~~~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~L~Ls  120 (229)
T 3e6j_A           41 NAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMC  120 (229)
T ss_dssp             TCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECC
T ss_pred             CCCEEEcCCCccCccCHHHhhCccCCcEEECCCCCCCCcChhhcccCCCcCEEECCCCcCCccChhHhCcchhhCeEecc
Confidence            346789999999887 56699999999999999999883  4578999999999999998877      57899999999


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      +|++  ...|..+..+++|++|+|++|.|+.+|...+    ..+++|+.|+|++++
T Consensus       121 ~N~l--~~lp~~~~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~l~~N~  170 (229)
T 3e6j_A          121 CNKL--TELPRGIERLTHLTHLALDQNQLKSIPHGAF----DRLSSLTHAYLFGNP  170 (229)
T ss_dssp             SSCC--CSCCTTGGGCTTCSEEECCSSCCCCCCTTTT----TTCTTCCEEECTTSC
T ss_pred             CCcc--cccCcccccCCCCCEEECCCCcCCccCHHHH----hCCCCCCEEEeeCCC
Confidence            9987  5788889999999999999999999887652    468999999999865

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.28  E-value=3.2e-13  Score=133.90  Aligned_cols=134  Identities=19%  Similarity=0.135  Sum_probs=76.3

Q ss_pred             CchhhhccccccEEEeccccccC--cccccccccccEEeeccc-cccc--c-----ccCCcceEEeccc-cccCCC-CCc
Q 048213          384 LPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVN-ELTR--A-----GSSQLKHLSVRGL-RASAPN-PTE  451 (532)
Q Consensus       384 lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~-~l~~--~-----~l~~Lr~L~l~~~-~~~~~~-~~~  451 (532)
                      +|..+..+++|++|++++|.+.+  +..+.++++|++|++++| .++.  +     .+++|++|++++| .. ... .+.
T Consensus       110 ~~~~~~~~~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l-~~~~~~~  188 (336)
T 2ast_B          110 LHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDF-TEKHVQV  188 (336)
T ss_dssp             HHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTC-CHHHHHH
T ss_pred             HHHHHhhCCCCCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCc-ChHHHHH
Confidence            33444555555555555555443  344555566666666655 3442  1     4566666666666 43 111 233


Q ss_pred             ccccCC-CCCEEecCCcc--c--ccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCcc
Q 048213          452 SEVALP-KLETVCLSSIN--I--ERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVL  524 (532)
Q Consensus       452 ~~~~l~-~L~~L~L~~~~--l--~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L  524 (532)
                      .+..++ +|++|+|++|.  +  ..+|..+     ..+++|++|+|++|..++...+..+ +++++|++|++++|..+
T Consensus       189 ~~~~l~~~L~~L~l~~~~~~~~~~~l~~~~-----~~~~~L~~L~l~~~~~l~~~~~~~l-~~l~~L~~L~l~~~~~~  260 (336)
T 2ast_B          189 AVAHVSETITQLNLSGYRKNLQKSDLSTLV-----RRCPNLVHLDLSDSVMLKNDCFQEF-FQLNYLQHLSLSRCYDI  260 (336)
T ss_dssp             HHHHSCTTCCEEECCSCGGGSCHHHHHHHH-----HHCTTCSEEECTTCTTCCGGGGGGG-GGCTTCCEEECTTCTTC
T ss_pred             HHHhcccCCCEEEeCCCcccCCHHHHHHHH-----hhCCCCCEEeCCCCCcCCHHHHHHH-hCCCCCCEeeCCCCCCC
Confidence            455666 77777777763  2  2333333     4567888888887765543324455 67788888888888644

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.28  E-value=3.1e-12  Score=136.31  Aligned_cols=147  Identities=20%  Similarity=0.203  Sum_probs=109.3

Q ss_pred             hhHHhhhhcccccCCchhhhccccccEEEeccccccC-c--ccccccccccEEeecccccccc------ccCCcceEEec
Q 048213          370 ARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-T--SVLGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~--~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      ..+.+++.+|.+..+|..+..+++|++|++++|.+.. +  ..+.++++|++|++++|.+...      .+++|++|+++
T Consensus       374 ~L~~L~l~~n~l~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~  453 (570)
T 2z63_A          374 SLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA  453 (570)
T ss_dssp             CCCEEECCSCSEEEEEEEEETCTTCCEEECTTSEEESCTTSCTTTTCTTCCEEECTTSCCEECCTTTTTTCTTCCEEECT
T ss_pred             ccCEEECCCCccccccccccccCCCCEEEccCCccccccchhhhhcCCCCCEEeCcCCcccccchhhhhcCCcCcEEECc
Confidence            3456677777777776667778888888888887765 2  3577888888888888876654      57788888888


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCccccccc-ccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEee
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSINIERIW-QNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC  519 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp-~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~  519 (532)
                      +|.......|..+..+++|++|+|++|.++.++ ..+     ..+++|++|+|++| .+..++|..+ +.+++|++|+++
T Consensus       454 ~n~l~~~~~p~~~~~l~~L~~L~l~~n~l~~~~~~~~-----~~l~~L~~L~l~~n-~l~~~~~~~~-~~l~~L~~L~l~  526 (570)
T 2z63_A          454 GNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAF-----NSLSSLQVLNMASN-QLKSVPDGIF-DRLTSLQKIWLH  526 (570)
T ss_dssp             TCEEGGGEECSCCTTCTTCCEEECTTSCCCEECTTTT-----TTCTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECC
T ss_pred             CCcCccccchhhhhcccCCCEEECCCCccccCChhhh-----hcccCCCEEeCCCC-cCCCCCHHHh-hcccCCcEEEec
Confidence            887611346677888888889999888888773 343     56788999999885 4777755555 788999999998


Q ss_pred             cCCc
Q 048213          520 ECPV  523 (532)
Q Consensus       520 ~c~~  523 (532)
                      +|+-
T Consensus       527 ~N~~  530 (570)
T 2z63_A          527 TNPW  530 (570)
T ss_dssp             SSCB
T ss_pred             CCcc
Confidence            8763

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A

Probab=99.28  E-value=8.5e-13  Score=130.80  Aligned_cols=145  Identities=19%  Similarity=0.260  Sum_probs=112.2

Q ss_pred             hHHhhhhcccccC-CchhhhccccccEEEeccc-cccC---cccccccccccEEeeccc-ccccc-------ccC-Ccce
Q 048213          371 RVVIDLTYMNLLS-LPSSLGLLTNLQTLCLYYC-KLQD---TSVLGELKILEILRLRVN-ELTRA-------GSS-QLKH  436 (532)
Q Consensus       371 ~~~l~l~~~~l~~-lp~~~~~l~~L~~L~l~~~-~l~~---~~~i~~l~~L~~L~l~~~-~l~~~-------~l~-~Lr~  436 (532)
                      .+.+++.+|.+.. .|..++.+++|++|++++| .+.+   +..+.++++|++|++++| .++..       .++ +|++
T Consensus       120 L~~L~L~~~~l~~~~~~~l~~~~~L~~L~L~~~~~l~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~~L~~  199 (336)
T 2ast_B          120 LQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQ  199 (336)
T ss_dssp             CSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEECCCCTTCCHHHHHHHHHHSCTTCCE
T ss_pred             CCEEeCcCcccCHHHHHHHhcCCCCCEEECCCCCCCCHHHHHHHHhcCCCCCEEcCCCCCCcChHHHHHHHHhcccCCCE
Confidence            3677888888764 5777889999999999999 5664   345888999999999999 88753       678 9999


Q ss_pred             EEeccccccC--CCCCcccccCCCCCEEecCCcc-cc-cccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCC
Q 048213          437 LSVRGLRASA--PNPTESEVALPKLETVCLSSIN-IE-RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVG  512 (532)
Q Consensus       437 L~l~~~~~~~--~~~~~~~~~l~~L~~L~L~~~~-l~-~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~  512 (532)
                      |++++|....  ...+..+.++++|++|+|++|. ++ ..+..+     .++++|++|+|++|..+..-....+ +++++
T Consensus       200 L~l~~~~~~~~~~~l~~~~~~~~~L~~L~l~~~~~l~~~~~~~l-----~~l~~L~~L~l~~~~~~~~~~~~~l-~~~~~  273 (336)
T 2ast_B          200 LNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEF-----FQLNYLQHLSLSRCYDIIPETLLEL-GEIPT  273 (336)
T ss_dssp             EECCSCGGGSCHHHHHHHHHHCTTCSEEECTTCTTCCGGGGGGG-----GGCTTCCEEECTTCTTCCGGGGGGG-GGCTT
T ss_pred             EEeCCCcccCCHHHHHHHHhhCCCCCEEeCCCCCcCCHHHHHHH-----hCCCCCCEeeCCCCCCCCHHHHHHH-hcCCC
Confidence            9999994201  2234566789999999999997 54 444444     6789999999999874433212234 78999


Q ss_pred             ccEEEeecC
Q 048213          513 LQCLEICEC  521 (532)
Q Consensus       513 L~~L~l~~c  521 (532)
                      |++|++++|
T Consensus       274 L~~L~l~~~  282 (336)
T 2ast_B          274 LKTLQVFGI  282 (336)
T ss_dssp             CCEEECTTS
T ss_pred             CCEEeccCc
Confidence            999999999

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.28  E-value=5.2e-12  Score=134.39  Aligned_cols=144  Identities=19%  Similarity=0.197  Sum_probs=117.2

Q ss_pred             hhHHhhhhcccccC-CchhhhccccccEEEeccccccCc----ccccccccccEEeeccccccc-c------ccCCcceE
Q 048213          370 ARVVIDLTYMNLLS-LPSSLGLLTNLQTLCLYYCKLQDT----SVLGELKILEILRLRVNELTR-A------GSSQLKHL  437 (532)
Q Consensus       370 ~~~~l~l~~~~l~~-lp~~~~~l~~L~~L~l~~~~l~~~----~~i~~l~~L~~L~l~~~~l~~-~------~l~~Lr~L  437 (532)
                      ..+.+++.+|.+.. +|..++.+++|++|++++|.+...    ..+.++++|++|++++|.+.. +      .+++|++|
T Consensus       354 ~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~~l~~L~~L  433 (562)
T 3a79_B          354 SFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVL  433 (562)
T ss_dssp             CCCEEECCSSCCCTTTTTTCCSCSSCCEEECCSSCCCBTTHHHHTTTTCTTCCEEECTTSCCBSCCSSCCCCCCTTCCEE
T ss_pred             CceEEECCCCccccchhhhhcccCCCCEEECCCCCcCCcccchhhhcCCCCCCEEECCCCcCCCccChhhhcCcccCCEE
Confidence            34578888888877 677889999999999999988862    357889999999999998887 3      56899999


Q ss_pred             EeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEE
Q 048213          438 SVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLE  517 (532)
Q Consensus       438 ~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~  517 (532)
                      ++++|.+ ....+..+.  ++|++|+|++|.++.+|.++     +.+++|++|+|++| .++.+ |...++.+++|++|+
T Consensus       434 ~l~~n~l-~~~~~~~l~--~~L~~L~L~~N~l~~ip~~~-----~~l~~L~~L~L~~N-~l~~l-~~~~~~~l~~L~~L~  503 (562)
T 3a79_B          434 NLSSNML-TGSVFRCLP--PKVKVLDLHNNRIMSIPKDV-----THLQALQELNVASN-QLKSV-PDGVFDRLTSLQYIW  503 (562)
T ss_dssp             ECCSSCC-CGGGGSSCC--TTCSEEECCSSCCCCCCTTT-----TSSCCCSEEECCSS-CCCCC-CTTSTTTCTTCCCEE
T ss_pred             ECCCCCC-Ccchhhhhc--CcCCEEECCCCcCcccChhh-----cCCCCCCEEECCCC-CCCCC-CHHHHhcCCCCCEEE
Confidence            9999976 333333322  69999999999999999888     78899999999984 58889 554237999999999


Q ss_pred             eecCCc
Q 048213          518 ICECPV  523 (532)
Q Consensus       518 l~~c~~  523 (532)
                      +++++-
T Consensus       504 l~~N~~  509 (562)
T 3a79_B          504 LHDNPW  509 (562)
T ss_dssp             CCSCCB
T ss_pred             ecCCCc
Confidence            999873

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A*

Probab=99.28  E-value=3.6e-12  Score=131.82  Aligned_cols=129  Identities=20%  Similarity=0.178  Sum_probs=89.7

Q ss_pred             hHHhhhhcccccCC-chhhhccccccEEEeccccccC---cccccccccccEEeecccccccc------ccCCcceEEec
Q 048213          371 RVVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQD---TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       371 ~~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~---~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      .+++++.++.+..+ |..++.+++|++|++++|.+..   +..+.++++|++|++++|.+..+      .+++|++|+++
T Consensus        32 l~~L~Ls~n~i~~~~~~~~~~l~~L~~L~L~~n~~~~~i~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~  111 (455)
T 3v47_A           32 VNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLT  111 (455)
T ss_dssp             CCEEECCSSCCCEECTTTTSSCTTCCEEECCCCSTTCEECTTTTTTCTTCCEEECTTCTTCEECTTTTTTCTTCCEEECT
T ss_pred             cCEEEecCCccCcCChhHhccCccccEEECcCCcccceECcccccccccCCEEeCCCCccCccChhhccCcccCCEEeCC
Confidence            35678888888775 5568888888888888887653   34677888888888888877665      56788888888


Q ss_pred             cccccCCCCCc--ccccCCCCCEEecCCcccccccc-cccccccccCCCccEEEeccCCCCCccchhh
Q 048213          441 GLRASAPNPTE--SEVALPKLETVCLSSINIERIWQ-NQVAAMSCGIQNLKRLILFNCWNLTCLFTSS  505 (532)
Q Consensus       441 ~~~~~~~~~~~--~~~~l~~L~~L~L~~~~l~~lp~-~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~  505 (532)
                      +|.. ....+.  .+.++++|++|+|++|.++.+++ .++    .++++|++|+|++|. +..+++..
T Consensus       112 ~n~l-~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~----~~l~~L~~L~L~~n~-l~~~~~~~  173 (455)
T 3v47_A          112 QCNL-DGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFF----LNMRRFHVLDLTFNK-VKSICEED  173 (455)
T ss_dssp             TSCC-BTHHHHSSTTTTCTTCCEEECCSSBCCSCCCCGGG----GGCTTCCEEECTTCC-BSCCCTTT
T ss_pred             CCCC-CccccCcccccCcccCCEEECCCCccCccCccccc----CCCCcccEEeCCCCc-ccccChhh
Confidence            8865 222232  37778888888888887776633 321    467888888888754 44443443

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens}

Probab=99.28  E-value=5e-12  Score=134.66  Aligned_cols=142  Identities=21%  Similarity=0.216  Sum_probs=90.5

Q ss_pred             HHhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          372 VVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      +.++++++.+..++. .|..+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|++++|
T Consensus        31 ~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~i~~i~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~~L~L~~n  110 (570)
T 2z63_A           31 KNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVET  110 (570)
T ss_dssp             CEEECCSCCCCEECTTTTTTCSSCCEEECTTCCCCEECTTTTTTCTTCCEEECTTCCCCEECTTTTTTCTTCCEEECTTS
T ss_pred             cEEEccCCccCccChhHhhCCCCceEEECCCCcCCccCcccccCchhCCEEeCcCCcCCccCHhhhcCcccccccccccc
Confidence            456777777766543 47777777777777777666  34567777777777777766554      5667777777777


Q ss_pred             cccCCCCCcccccCCCCCEEecCCccccc--ccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCc----cEE
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIER--IWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGL----QCL  516 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~--lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L----~~L  516 (532)
                      .+ ....+..++++++|++|++++|.++.  +|..+     .++++|++|++++|. +..+++..+ +.+++|    .+|
T Consensus       111 ~l-~~l~~~~~~~l~~L~~L~L~~n~l~~~~lp~~~-----~~l~~L~~L~l~~n~-l~~~~~~~~-~~l~~L~~~~~~L  182 (570)
T 2z63_A          111 NL-ASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF-----SNLTNLEHLDLSSNK-IQSIYCTDL-RVLHQMPLLNLSL  182 (570)
T ss_dssp             CC-CCSTTCSCTTCTTCCEEECCSSCCCCCCCCGGG-----GGCTTCCEEECTTSC-CCEECGGGG-HHHHTCTTCCCEE
T ss_pred             cc-ccCCCccccccccccEEecCCCccceecChhhh-----cccCCCCEEeCcCCc-cceecHHHc-cchhccchhhhhc
Confidence            65 22222356777777777777776664  45555     566777777777643 555544444 555555    566


Q ss_pred             EeecC
Q 048213          517 EICEC  521 (532)
Q Consensus       517 ~l~~c  521 (532)
                      +++++
T Consensus       183 ~l~~n  187 (570)
T 2z63_A          183 DLSLN  187 (570)
T ss_dssp             ECTTC
T ss_pred             ccCCC
Confidence            66555

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus}

Probab=99.28  E-value=2e-12  Score=126.89  Aligned_cols=141  Identities=16%  Similarity=0.097  Sum_probs=65.3

Q ss_pred             HHhhhhcccccCCchhhhcc-----ccccEEEeccccccC--cccccccccccEEeecccccccc----------ccCCc
Q 048213          372 VVIDLTYMNLLSLPSSLGLL-----TNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA----------GSSQL  434 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l-----~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~----------~l~~L  434 (532)
                      +.+++.+|.+..+|..++.+     ++|++|++++|.+..  +..+.++++|++|++++|++.+.          .+++|
T Consensus       124 ~~L~Ls~N~l~~~~~~~~~l~~~~~~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~L  203 (312)
T 1wwl_A          124 NILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTL  203 (312)
T ss_dssp             SEEEEESCBCSSSSSHHHHHHTTCCTTCCEEEEESCSCCCCCTTTCCCCSSCCEEECCSCTTCHHHHHHHHSCTTSCTTC
T ss_pred             cEEEccCCCCcchhHHHHHHHHhhcCCCcEEEeeCCCCccchHHHhccCCCCCEEECCCCCcCcchHHHHHHHhccCCCC
Confidence            34455555554444444444     455555555555544  23455555555555555543221          34455


Q ss_pred             ceEEeccccccC-CCCC-cccccCCCCCEEecCCcccccccc-cccccccccCCCccEEEeccCCCCCccchhhhhhcCC
Q 048213          435 KHLSVRGLRASA-PNPT-ESEVALPKLETVCLSSINIERIWQ-NQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFV  511 (532)
Q Consensus       435 r~L~l~~~~~~~-~~~~-~~~~~l~~L~~L~L~~~~l~~lp~-~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~  511 (532)
                      ++|++++|.+.. +..+ ..+.++++|++|+|++|.++..++ ..    ...+++|++|+|++|. ++.+ |..+ .  +
T Consensus       204 ~~L~L~~N~l~~~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~----~~~l~~L~~L~Ls~N~-l~~i-p~~~-~--~  274 (312)
T 1wwl_A          204 QVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPS----CDWPSQLNSLNLSFTG-LKQV-PKGL-P--A  274 (312)
T ss_dssp             CEEECTTSCCCCHHHHHHHHHHTTCCCSEEECTTSCCCSSCCCSC----CCCCTTCCEEECTTSC-CSSC-CSSC-C--S
T ss_pred             CEEECCCCcCcchHHHHHHHHhcCCCCCEEECCCCcCCcccchhh----hhhcCCCCEEECCCCc-cChh-hhhc-c--C
Confidence            555555554300 0111 112344555555555555554331 11    0234556666665532 4555 4433 1  5


Q ss_pred             CccEEEeecC
Q 048213          512 GLQCLEICEC  521 (532)
Q Consensus       512 ~L~~L~l~~c  521 (532)
                      +|++|+++++
T Consensus       275 ~L~~L~Ls~N  284 (312)
T 1wwl_A          275 KLSVLDLSYN  284 (312)
T ss_dssp             EEEEEECCSS
T ss_pred             CceEEECCCC
Confidence            5666666554

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=99.28  E-value=4.5e-12  Score=132.17  Aligned_cols=141  Identities=17%  Similarity=0.134  Sum_probs=108.6

Q ss_pred             hHHhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc-------ccCCcceEEecc
Q 048213          371 RVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA-------GSSQLKHLSVRG  441 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~l~~  441 (532)
                      ...+++.+|.+..+|..  .+++|++|++++|.+..  +..++++++|++|++++|.+...       .+++|++|+|++
T Consensus       101 L~~L~L~~N~l~~~~~~--~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~l~~~l~~L~~L~Ls~  178 (487)
T 3oja_A          101 IETLHAANNNISRVSCS--RGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY  178 (487)
T ss_dssp             CCEEECCSSCCCCEEEC--CCSSCEEEECCSSCCCSGGGBCGGGGSSEEEEECTTSCCCEEEGGGGGGGTTTCCEEECTT
T ss_pred             cCEEECcCCcCCCCCcc--ccCCCCEEECCCCCCCCCCchhhcCCCCCCEEECCCCCCCCcChHHHhhhCCcccEEecCC
Confidence            34566666666665542  46788889998888887  44678889999999999988765       468899999999


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      |.+  ... .....+++|++|+|++|.++.+|+.+     ..+++|+.|+|++| .+..+ |..+ +.+++|++|++++|
T Consensus       179 N~l--~~~-~~~~~l~~L~~L~Ls~N~l~~~~~~~-----~~l~~L~~L~Ls~N-~l~~l-p~~l-~~l~~L~~L~l~~N  247 (487)
T 3oja_A          179 NFI--YDV-KGQVVFAKLKTLDLSSNKLAFMGPEF-----QSAAGVTWISLRNN-KLVLI-EKAL-RFSQNLEHFDLRGN  247 (487)
T ss_dssp             SCC--CEE-ECCCCCTTCCEEECCSSCCCEECGGG-----GGGTTCSEEECTTS-CCCEE-CTTC-CCCTTCCEEECTTC
T ss_pred             Ccc--ccc-cccccCCCCCEEECCCCCCCCCCHhH-----cCCCCccEEEecCC-cCccc-chhh-ccCCCCCEEEcCCC
Confidence            976  222 33446889999999999998888776     67889999999984 47778 6666 78899999999988


Q ss_pred             Ccc
Q 048213          522 PVL  524 (532)
Q Consensus       522 ~~L  524 (532)
                      +-.
T Consensus       248 ~l~  250 (487)
T 3oja_A          248 GFH  250 (487)
T ss_dssp             CBC
T ss_pred             CCc
Confidence            744

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens}

Probab=99.27  E-value=7e-12  Score=116.34  Aligned_cols=120  Identities=18%  Similarity=0.187  Sum_probs=103.2

Q ss_pred             HHhhhhcccccCCch--hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          372 VVIDLTYMNLLSLPS--SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~--~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      +.+++.+|.+..+++  .|..+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|+|++
T Consensus        35 ~~L~L~~N~l~~~~~~~~~~~l~~L~~L~L~~N~i~~i~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~  114 (220)
T 2v70_A           35 AELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRS  114 (220)
T ss_dssp             SEEECCSSCCCEECCCCCGGGCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCCCCCGGGGTTCSSCCEEECTT
T ss_pred             CEEEcCCCcCCccCchhhhccCCCCCEEECCCCcCCEECHHHhCCCCCCCEEECCCCccCccCHhHhcCCcCCCEEECCC
Confidence            468899999988743  38999999999999999988  34799999999999999998877      678999999999


Q ss_pred             ccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          442 LRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       442 ~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      |.+ ....+..+..+++|++|+|++|.++.+++..+    ..+++|++|+|++++
T Consensus       115 N~l-~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~L~~N~  164 (220)
T 2v70_A          115 NRI-TCVGNDSFIGLSSVRLLSLYDNQITTVAPGAF----DTLHSLSTLNLLANP  164 (220)
T ss_dssp             SCC-CCBCTTSSTTCTTCSEEECTTSCCCCBCTTTT----TTCTTCCEEECCSCC
T ss_pred             CcC-CeECHhHcCCCccCCEEECCCCcCCEECHHHh----cCCCCCCEEEecCcC
Confidence            987 45557789999999999999999998854432    578999999999865

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A*

Probab=99.27  E-value=5e-12  Score=134.08  Aligned_cols=149  Identities=17%  Similarity=0.177  Sum_probs=112.3

Q ss_pred             HHHHhhHHhhhhcccccCCc-hhhhccccccEEEeccccccC-cc-cccccccccEEeecccccccc-------ccCCcc
Q 048213          366 EVARARVVIDLTYMNLLSLP-SSLGLLTNLQTLCLYYCKLQD-TS-VLGELKILEILRLRVNELTRA-------GSSQLK  435 (532)
Q Consensus       366 ~~~~~~~~l~l~~~~l~~lp-~~~~~l~~L~~L~l~~~~l~~-~~-~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr  435 (532)
                      ..+...+++++.+|.+..++ ..|+.+++|++|++++|.+.. ++ .++++++|++|++++|.+..+       .+++|+
T Consensus        47 ~~l~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~~l~~L~  126 (549)
T 2z81_A           47 RACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQ  126 (549)
T ss_dssp             SSCTTCCEEECTTSCCCEECTTTTTTCTTCCEEECTTSCCCSCCHHHHTTCTTCCEEECTTCCCSSSCSSCSCTTCTTCC
T ss_pred             hcCCcccEEECCCCCcCccChhhccccccCCEEECCCCccCccCHHHhccCCCCcEEECCCCcccccchhhhhhccCCcc
Confidence            34455577888888887765 568888899999999888887 33 488888999999988887743       567889


Q ss_pred             eEEeccccccCCCCC-cccccCCCCCEEecCCcccccc-cccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCc
Q 048213          436 HLSVRGLRASAPNPT-ESEVALPKLETVCLSSINIERI-WQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGL  513 (532)
Q Consensus       436 ~L~l~~~~~~~~~~~-~~~~~l~~L~~L~L~~~~l~~l-p~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L  513 (532)
                      +|++++|.. ....+ ..+.++++|++|++++|.++.. |..+     ..+++|++|+++++. +..+ |..+.+.+++|
T Consensus       127 ~L~L~~n~~-~~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~l-----~~l~~L~~L~l~~n~-~~~~-~~~~~~~l~~L  198 (549)
T 2z81_A          127 TLRIGNVET-FSEIRRIDFAGLTSLNELEIKALSLRNYQSQSL-----KSIRDIHHLTLHLSE-SAFL-LEIFADILSSV  198 (549)
T ss_dssp             EEEEEESSS-CCEECTTTTTTCCEEEEEEEEETTCCEECTTTT-----TTCSEEEEEEEECSB-STTH-HHHHHHSTTTB
T ss_pred             EEECCCCcc-ccccCHhhhhcccccCeeeccCCcccccChhhh-----hccccCceEecccCc-cccc-chhhHhhcccc
Confidence            999988864 23333 5678888899999998887763 4444     567888999988754 5666 55554678899


Q ss_pred             cEEEeecCC
Q 048213          514 QCLEICECP  522 (532)
Q Consensus       514 ~~L~l~~c~  522 (532)
                      ++|++++|.
T Consensus       199 ~~L~L~~n~  207 (549)
T 2z81_A          199 RYLELRDTN  207 (549)
T ss_dssp             SEEEEESCB
T ss_pred             cEEEccCCc
Confidence            999988874

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.27  E-value=7.9e-12  Score=123.69  Aligned_cols=142  Identities=18%  Similarity=0.183  Sum_probs=81.7

Q ss_pred             hHHhhhhcccccCCchh-hhccccccEEEeccccccC----cccccccccccEEeecccccccc---ccCCcceEEeccc
Q 048213          371 RVVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD----TSVLGELKILEILRLRVNELTRA---GSSQLKHLSVRGL  442 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~----~~~i~~l~~L~~L~l~~~~l~~~---~l~~Lr~L~l~~~  442 (532)
                      .+.+++.+|.+..+|.. +..+++|++|++++|.+..    +..+..+ +|++|++++|.+..+   -.++|++|++++|
T Consensus       125 L~~L~l~~n~i~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~~~l-~L~~L~l~~n~l~~l~~~~~~~L~~L~l~~n  203 (332)
T 2ft3_A          125 LVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL-KLNYLRISEAKLTGIPKDLPETLNELHLDHN  203 (332)
T ss_dssp             CCEEECCSSCCCCCCSGGGSSCSSCCEEECCSCCCBGGGSCTTSSCSC-CCSCCBCCSSBCSSCCSSSCSSCSCCBCCSS
T ss_pred             CCEEECCCCccCccCHhHhCCCccCCEEECCCCccccCCCCcccccCC-ccCEEECcCCCCCccCccccCCCCEEECCCC
Confidence            34566666666666543 6677777777777776642    3344444 555666655555544   1245666666666


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      .. ....+..+..+++|++|+|++|.++.++...+    ..+++|+.|+|++| .+..+ |..+ +.+++|++|++++|
T Consensus       204 ~i-~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~L~~N-~l~~l-p~~l-~~l~~L~~L~l~~N  274 (332)
T 2ft3_A          204 KI-QAIELEDLLRYSKLYRLGLGHNQIRMIENGSL----SFLPTLRELHLDNN-KLSRV-PAGL-PDLKLLQVVYLHTN  274 (332)
T ss_dssp             CC-CCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGG----GGCTTCCEEECCSS-CCCBC-CTTG-GGCTTCCEEECCSS
T ss_pred             cC-CccCHHHhcCCCCCCEEECCCCcCCcCChhHh----hCCCCCCEEECCCC-cCeec-Chhh-hcCccCCEEECCCC
Confidence            54 23333455666666666666666665554321    34566666666653 35566 4444 56666666666655

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.26  E-value=1.3e-11  Score=134.52  Aligned_cols=147  Identities=21%  Similarity=0.232  Sum_probs=113.8

Q ss_pred             hhHHhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEec
Q 048213          370 ARVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      ..+.+++.++.+..+|. .|+.+++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|+++
T Consensus        26 ~l~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~  105 (680)
T 1ziw_A           26 NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLM  105 (680)
T ss_dssp             TCSEEECCSSCCCCCCGGGGGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECC
T ss_pred             CCcEEECCCCCCCCcCHHHHhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEEECC
Confidence            34678888888888765 48889999999999988877  45688899999999999887776      57889999999


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhh-hcCCCccEEEee
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSII-SSFVGLQCLEIC  519 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~-~~L~~L~~L~l~  519 (532)
                      +|.+ ....+..++++++|++|+|++|.++..+...+    .++++|++|++++|. +..+++..+. ..+++|++|+++
T Consensus       106 ~n~l-~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~----~~l~~L~~L~L~~n~-l~~~~~~~~~~~~~~~L~~L~L~  179 (680)
T 1ziw_A          106 SNSI-QKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQ----VQLENLQELLLSNNK-IQALKSEELDIFANSSLKKLELS  179 (680)
T ss_dssp             SSCC-CCCCSCTTTTCTTCCEEECCSSCCSCCCCCSS----SCCTTCCEEECCSSC-CCCBCHHHHGGGTTCEESEEECT
T ss_pred             CCcc-CccChhHccccCCCCEEECCCCcccccCchhh----cccccCCEEEccCCc-ccccCHHHhhccccccccEEECC
Confidence            9876 44445678889999999999998877655432    578899999998754 6667455441 245889999998


Q ss_pred             cCC
Q 048213          520 ECP  522 (532)
Q Consensus       520 ~c~  522 (532)
                      +|.
T Consensus       180 ~n~  182 (680)
T 1ziw_A          180 SNQ  182 (680)
T ss_dssp             TCC
T ss_pred             CCc
Confidence            873

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.26  E-value=1.5e-11  Score=111.54  Aligned_cols=115  Identities=19%  Similarity=0.191  Sum_probs=73.2

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc------ccCCcceEEecccccc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRAS  445 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~  445 (532)
                      ++++.++.+..+|..+.  ++|++|++++|.+.. +..+.++++|++|++++|.++.+      .+++|++|+|++|++ 
T Consensus        14 ~l~~~~~~l~~ip~~~~--~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~l-   90 (193)
T 2wfh_A           14 VVRCSNKGLKVLPKGIP--RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRL-   90 (193)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC-
T ss_pred             EEEcCCCCCCcCCCCCC--CCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcCCEeCHhHccCCCCCCEEECCCCcc-
Confidence            45666777777776543  577888888887776 45677777777777777776655      455666666666655 


Q ss_pred             CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEecc
Q 048213          446 APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFN  494 (532)
Q Consensus       446 ~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~  494 (532)
                      ....+..|..+++|++|+|++|.|+.+|...+    ..+++|+.|+|++
T Consensus        91 ~~i~~~~f~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~L~~  135 (193)
T 2wfh_A           91 RCIPPRTFDGLKSLRLLSLHGNDISVVPEGAF----NDLSALSHLAIGA  135 (193)
T ss_dssp             CBCCTTTTTTCTTCCEEECCSSCCCBCCTTTT----TTCTTCCEEECCS
T ss_pred             CEeCHHHhCCCCCCCEEECCCCCCCeeChhhh----hcCccccEEEeCC
Confidence            33334455666666666666666666655431    2456666666665

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A*

Probab=99.25  E-value=1.5e-11  Score=133.91  Aligned_cols=153  Identities=17%  Similarity=0.162  Sum_probs=113.5

Q ss_pred             HHHHHhhHHhhhhcccccCC-chhhhccccccEEEeccccccCc-c-cccccccccEEeecccccccc------ccCCcc
Q 048213          365 MEVARARVVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQDT-S-VLGELKILEILRLRVNELTRA------GSSQLK  435 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~~-~-~i~~l~~L~~L~l~~~~l~~~------~l~~Lr  435 (532)
                      +......+.+++.++.+..+ |..++.+++|++|++++|.+... + .+.++++|++|++++|.+..+      .+++|+
T Consensus        45 ~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~L~~n~l~~l~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~~l~~L~  124 (680)
T 1ziw_A           45 FTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLI  124 (680)
T ss_dssp             GGGGTTCSEEECCSSCCCCCCTTHHHHCTTCCEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCSCTTTTCTTCC
T ss_pred             HhCCCcCcEEECCCCccCccCHHHHhcccCcCEEECCCCccCccChhhhccCCCCCEEECCCCccCccChhHccccCCCC
Confidence            44445567788888888776 55688888888888888888773 2 488888888888888877766      567888


Q ss_pred             eEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccE
Q 048213          436 HLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQC  515 (532)
Q Consensus       436 ~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~  515 (532)
                      +|++++|.. ....+..++++++|++|++++|.++.++...+.  ...+++|++|++++| .+..++|..+ +.+++|+.
T Consensus       125 ~L~Ls~n~l-~~~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~~--~~~~~~L~~L~L~~n-~l~~~~~~~~-~~l~~L~~  199 (680)
T 1ziw_A          125 TLDLSHNGL-SSTKLGTQVQLENLQELLLSNNKIQALKSEELD--IFANSSLKKLELSSN-QIKEFSPGCF-HAIGRLFG  199 (680)
T ss_dssp             EEECCSSCC-SCCCCCSSSCCTTCCEEECCSSCCCCBCHHHHG--GGTTCEESEEECTTC-CCCCBCTTGG-GGSSEECE
T ss_pred             EEECCCCcc-cccCchhhcccccCCEEEccCCcccccCHHHhh--ccccccccEEECCCC-cccccChhhh-hhhhhhhh
Confidence            888888876 455566778888888888888888877665321  124578888888875 4666656555 77888888


Q ss_pred             EEeecCC
Q 048213          516 LEICECP  522 (532)
Q Consensus       516 L~l~~c~  522 (532)
                      |+++++.
T Consensus       200 L~l~~~~  206 (680)
T 1ziw_A          200 LFLNNVQ  206 (680)
T ss_dssp             EECTTCC
T ss_pred             hhccccc
Confidence            8887764

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.25  E-value=2.4e-11  Score=110.19  Aligned_cols=117  Identities=24%  Similarity=0.261  Sum_probs=76.2

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccCc-c--cccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT-S--VLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~-~--~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      .+++.++.+..+|..+..  ++++|++++|.+... +  .+.++++|++|++++|+++.+      .+++|++|+|++|+
T Consensus        12 ~l~~s~~~l~~ip~~~~~--~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~   89 (192)
T 1w8a_A           12 TVDCTGRGLKEIPRDIPL--HTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             EEECTTSCCSSCCSCCCT--TCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             EEEcCCCCcCcCccCCCC--CCCEEECCCCcCCccCCccccccCCCCCEEECCCCCCCCcCHhHcCCcccCCEEECCCCc
Confidence            466777777777776543  788888888887773 2  377788888888887777665      45666677776666


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      + ....+..+.++++|++|+|++|.++.+++..+    ..+++|++|+|++++
T Consensus        90 l-~~~~~~~~~~l~~L~~L~L~~N~l~~~~~~~~----~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           90 I-KEISNKMFLGLHQLKTLNLYDNQISCVMPGSF----EHLNSLTSLNLASNP  137 (192)
T ss_dssp             C-CEECSSSSTTCTTCCEEECCSSCCCEECTTSS----TTCTTCCEEECTTCC
T ss_pred             C-CccCHHHhcCCCCCCEEECCCCcCCeeCHHHh----hcCCCCCEEEeCCCC
Confidence            5 33334446666667777777666665533321    356666667666644

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697}

Probab=99.24  E-value=1.7e-11  Score=132.27  Aligned_cols=129  Identities=17%  Similarity=0.117  Sum_probs=75.5

Q ss_pred             ccccccEEEeccccccC-ccc-ccccccccEEeecccccccc------cc-------CCcceEEeccccccCCCCCcccc
Q 048213          390 LLTNLQTLCLYYCKLQD-TSV-LGELKILEILRLRVNELTRA------GS-------SQLKHLSVRGLRASAPNPTESEV  454 (532)
Q Consensus       390 ~l~~L~~L~l~~~~l~~-~~~-i~~l~~L~~L~l~~~~l~~~------~l-------~~Lr~L~l~~~~~~~~~~~~~~~  454 (532)
                      .+.+|++|++++|.+.. +.. +..+++|++|++++|.+..+      ..       ++|++|+|++|.+  ...|..+.
T Consensus       431 ~~~~L~~L~Ls~N~l~~lp~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~~~~~~~~l~~L~~L~Ls~N~l--~~lp~~~~  508 (636)
T 4eco_A          431 KGINVSSINLSNNQISKFPKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKL--TKLSDDFR  508 (636)
T ss_dssp             CCCCEEEEECCSSCCCSCCTHHHHTTCCCSEEECCSSCCSBCCSSSSEETTEECTTGGGCCEEECCSSCC--CBCCGGGS
T ss_pred             cCCCCCEEECcCCccCcCCHHHHccCCCCCEEECCCCCCCCcCHHHhccccccccccCCccEEECcCCcC--CccChhhh
Confidence            34455555555555544 222 33455666666666655544      11       1667777777665  35555555


Q ss_pred             --cCCCCCEEecCCcccccccccccccccccCCCccEEEecc------CCCCCccchhhhhhcCCCccEEEeecCCcccc
Q 048213          455 --ALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFN------CWNLTCLFTSSIISSFVGLQCLEICECPVLKE  526 (532)
Q Consensus       455 --~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~------c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~  526 (532)
                        .+++|++|+|++|.++.+|..+     +.+++|++|+|++      +...+.+ |..+ +.+++|++|+|++|.- ..
T Consensus       509 ~~~l~~L~~L~Ls~N~l~~ip~~~-----~~l~~L~~L~Ls~N~~ls~N~l~~~~-p~~l-~~l~~L~~L~Ls~N~l-~~  580 (636)
T 4eco_A          509 ATTLPYLVGIDLSYNSFSKFPTQP-----LNSSTLKGFGIRNQRDAQGNRTLREW-PEGI-TLCPSLTQLQIGSNDI-RK  580 (636)
T ss_dssp             TTTCTTCCEEECCSSCCSSCCCGG-----GGCSSCCEEECCSCBCTTCCBCCCCC-CTTG-GGCSSCCEEECCSSCC-CB
T ss_pred             hccCCCcCEEECCCCCCCCcChhh-----hcCCCCCEEECCCCcccccCcccccC-hHHH-hcCCCCCEEECCCCcC-Cc
Confidence              6777777777777777666665     5667777777743      3334445 5555 5677777777777653 44


Q ss_pred             cc
Q 048213          527 II  528 (532)
Q Consensus       527 i~  528 (532)
                      |+
T Consensus       581 ip  582 (636)
T 4eco_A          581 VN  582 (636)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.24  E-value=7.5e-11  Score=109.10  Aligned_cols=179  Identities=9%  Similarity=0.001  Sum_probs=114.8

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEecc---CchhhHHHHHHHHh-
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEE---SESGRARSLCNRLK-  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~---~~~~~~~~l~~~l~-  179 (532)
                      ...++||++.++.+.+++.....+.+.|+|++|+|||++|+.+++...... ..........   ........+..... 
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (226)
T 2chg_A           16 LDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFART   95 (226)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHHHHHHHHTS
T ss_pred             HHHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHHHHHHHhcc
Confidence            457899999999999999877666699999999999999999988643221 0111111111   11122223333332 


Q ss_pred             ----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          180 ----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       180 ----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                          .+++.+||+||++...  .++.+...+.....+..+|+||+..... .........+.+.+++.++..+++...+.
T Consensus        96 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~~~l~~~~~  175 (226)
T 2chg_A           96 APIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICE  175 (226)
T ss_dssp             CCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cCCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHHHHHHHHHH
Confidence                2578999999998652  3334433333334577888888865422 11112234889999999999999988764


Q ss_pred             CCCCCcchHHHHHHHHHHcCCchHHHHHHHHH
Q 048213          253 DYIEGSEFKWVAKDVAKKCAGLPVSIVTVARA  284 (532)
Q Consensus       253 ~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~  284 (532)
                      .... .-..+....+++.++|.|..+..+...
T Consensus       176 ~~~~-~~~~~~~~~l~~~~~g~~r~l~~~l~~  206 (226)
T 2chg_A          176 KEGV-KITEDGLEALIYISGGDFRKAINALQG  206 (226)
T ss_dssp             HHTC-CBCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HcCC-CCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            1111 122566788999999999866554443

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens}

Probab=99.24  E-value=4.5e-11  Score=108.41  Aligned_cols=119  Identities=18%  Similarity=0.161  Sum_probs=99.4

Q ss_pred             cEEEeccccccC-cccccccccccEEeecccccccc-----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcc
Q 048213          395 QTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSIN  468 (532)
Q Consensus       395 ~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~  468 (532)
                      ++++++++.+.. |..+  .++|++|++++|+++.+     .+++|++|+|++|.+ ....+..|.++++|++|+|++|.
T Consensus        13 ~~l~~~~~~l~~ip~~~--~~~l~~L~L~~n~i~~ip~~~~~l~~L~~L~Ls~N~i-~~i~~~~f~~l~~L~~L~Ls~N~   89 (193)
T 2wfh_A           13 TVVRCSNKGLKVLPKGI--PRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRI-STLSNQSFSNMTQLLTLILSYNR   89 (193)
T ss_dssp             TEEECTTSCCSSCCSCC--CTTCCEEECCSSCCCSCCGGGGGCTTCCEEECCSSCC-CCCCTTTTTTCTTCCEEECCSSC
T ss_pred             CEEEcCCCCCCcCCCCC--CCCCCEEECCCCcCchhHHHhhcccCCCEEECCCCcC-CEeCHhHccCCCCCCEEECCCCc
Confidence            678888888887 4334  36899999999998877     678999999999987 44555679999999999999999


Q ss_pred             cccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          469 IERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       469 l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      |+.+|+..+    ..+++|++|+|++ +.+..+++..+ ..+++|++|+|++++
T Consensus        90 l~~i~~~~f----~~l~~L~~L~L~~-N~l~~~~~~~~-~~l~~L~~L~L~~N~  137 (193)
T 2wfh_A           90 LRCIPPRTF----DGLKSLRLLSLHG-NDISVVPEGAF-NDLSALSHLAIGANP  137 (193)
T ss_dssp             CCBCCTTTT----TTCTTCCEEECCS-SCCCBCCTTTT-TTCTTCCEEECCSSC
T ss_pred             cCEeCHHHh----CCCCCCCEEECCC-CCCCeeChhhh-hcCccccEEEeCCCC
Confidence            999887642    5789999999998 56888944445 789999999999876

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.23  E-value=2e-11  Score=128.77  Aligned_cols=141  Identities=19%  Similarity=0.090  Sum_probs=103.3

Q ss_pred             hhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc--ccCCcceEEeccccccCC
Q 048213          370 ARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA--GSSQLKHLSVRGLRASAP  447 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~--~l~~Lr~L~l~~~~~~~~  447 (532)
                      ..+.+++.+|.+..+|. +..  +|++|++++|.+..++.  .+++|++|++++|.++.+  .+++|++|+|++|.+  .
T Consensus       101 ~L~~L~Ls~N~l~~ip~-l~~--~L~~L~Ls~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~~l~~L~~L~Ls~N~L--~  173 (571)
T 3cvr_A          101 SLEYLDACDNRLSTLPE-LPA--SLKHLDVDNNQLTMLPE--LPALLEYINADNNQLTMLPELPTSLEVLSVRNNQL--T  173 (571)
T ss_dssp             TCCEEECCSSCCSCCCC-CCT--TCCEEECCSSCCSCCCC--CCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCC--S
T ss_pred             CCCEEEccCCCCCCcch-hhc--CCCEEECCCCcCCCCCC--cCccccEEeCCCCccCcCCCcCCCcCEEECCCCCC--C
Confidence            34567777777777777 554  78888888888777444  678888888888888776  467899999999976  3


Q ss_pred             CCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCcc
Q 048213          448 NPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVL  524 (532)
Q Consensus       448 ~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L  524 (532)
                      ..|. +.  ++|++|+|++|.|+.+|. +.+......+.|++|+|++| .++.+ |..+ ..+++|++|+|++|+--
T Consensus       174 ~lp~-l~--~~L~~L~Ls~N~L~~lp~-~~~~L~~~~~~L~~L~Ls~N-~l~~l-p~~l-~~l~~L~~L~L~~N~l~  243 (571)
T 3cvr_A          174 FLPE-LP--ESLEALDVSTNLLESLPA-VPVRNHHSEETEIFFRCREN-RITHI-PENI-LSLDPTCTIILEDNPLS  243 (571)
T ss_dssp             CCCC-CC--TTCCEEECCSSCCSSCCC-CC--------CCEEEECCSS-CCCCC-CGGG-GGSCTTEEEECCSSSCC
T ss_pred             Ccch-hh--CCCCEEECcCCCCCchhh-HHHhhhcccccceEEecCCC-cceec-CHHH-hcCCCCCEEEeeCCcCC
Confidence            4555 55  899999999999998888 51100001123399999984 58899 7776 57999999999998743

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.23  E-value=3.9e-11  Score=124.50  Aligned_cols=137  Identities=22%  Similarity=0.282  Sum_probs=78.4

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEeccccccCC
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAP  447 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~  447 (532)
                      +.+++.+|.+..++ .+..+++|++|++++|.+.....+..+++|+.|++++|.+..+    .+++|++|++++|..  .
T Consensus       224 ~~L~l~~n~l~~~~-~l~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l--~  300 (466)
T 1o6v_A          224 DELSLNGNQLKDIG-TLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQL--E  300 (466)
T ss_dssp             CEEECCSSCCCCCG-GGGGCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCC--S
T ss_pred             CEEECCCCCcccch-hhhcCCCCCEEECCCCccccchhhhcCCCCCEEECCCCccCccccccCCCccCeEEcCCCcc--c
Confidence            44455555554443 3555556666666666555543455566666666666655544    455666666666654  2


Q ss_pred             CCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          448 NPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       448 ~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      ..+ .+..+++|++|+|++|.++.+++ +     ..+++|+.|++++| .+..+ + .+ +.+++|++|++++|+
T Consensus       301 ~~~-~~~~l~~L~~L~L~~n~l~~~~~-~-----~~l~~L~~L~l~~n-~l~~~-~-~l-~~l~~L~~L~l~~n~  364 (466)
T 1o6v_A          301 DIS-PISNLKNLTYLTLYFNNISDISP-V-----SSLTKLQRLFFYNN-KVSDV-S-SL-ANLTNINWLSAGHNQ  364 (466)
T ss_dssp             CCG-GGGGCTTCSEEECCSSCCSCCGG-G-----GGCTTCCEEECCSS-CCCCC-G-GG-TTCTTCCEEECCSSC
T ss_pred             Cch-hhcCCCCCCEEECcCCcCCCchh-h-----ccCccCCEeECCCC-ccCCc-h-hh-ccCCCCCEEeCCCCc
Confidence            222 25666666666666666665543 2     35567777777765 35555 2 23 567777777777664

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A*

Probab=99.23  E-value=3e-11  Score=129.70  Aligned_cols=148  Identities=20%  Similarity=0.128  Sum_probs=95.2

Q ss_pred             HhhHHhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeeccccccc-c------ccCCcceEEe
Q 048213          369 RARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTR-A------GSSQLKHLSV  439 (532)
Q Consensus       369 ~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~-~------~l~~Lr~L~l  439 (532)
                      ...+.+++.++.+..+|..+..+++|++|++++|.+..  +..+.++++|++|++++|.+.. +      .+++|++|++
T Consensus       278 ~~L~~L~l~~n~l~~lp~~l~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~l~~L~~L~l  357 (606)
T 3t6q_A          278 SGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDL  357 (606)
T ss_dssp             TTCSEEECTTSCCSCCCSSCCSCTTCCEEECTTCCCSBGGGGCGGGCTTCSEEECCSCSSCCBCCSSTTTTCTTCCEEEC
T ss_pred             cCCCEEeccCCccCCCChhhcccccCCEEECccCCcCcCchhhhhccCcCCEEECCCCCcccccchhhhhccCcCCEEEC
Confidence            34456667777776777767777777777777776665  3456677777777777765542 1      5667777777


Q ss_pred             ccccccCCCC--CcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEE
Q 048213          440 RGLRASAPNP--TESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLE  517 (532)
Q Consensus       440 ~~~~~~~~~~--~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~  517 (532)
                      ++|.. ....  +..+..+++|++|++++|.+..+++..+    ..+++|++|++++|. +....+...++.+++|++|+
T Consensus       358 ~~n~l-~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~----~~l~~L~~L~l~~n~-l~~~~~~~~~~~l~~L~~L~  431 (606)
T 3t6q_A          358 SHDDI-ETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAF----KECPQLELLDLAFTR-LKVKDAQSPFQNLHLLKVLN  431 (606)
T ss_dssp             CSSCC-CEEEESTTTTTTCTTCCEEECCSCSCEEECTTTT----TTCTTCSEEECTTCC-EECCTTCCTTTTCTTCCEEE
T ss_pred             CCCcc-ccccCcchhcccCCCCCEEECCCCcCCcCCHHHh----cCCccCCeEECCCCc-CCCcccchhhhCcccCCEEE
Confidence            77755 2211  4556777777777777777666544331    457788888887755 33332333236788888888


Q ss_pred             eecCC
Q 048213          518 ICECP  522 (532)
Q Consensus       518 l~~c~  522 (532)
                      +++|.
T Consensus       432 l~~n~  436 (606)
T 3t6q_A          432 LSHSL  436 (606)
T ss_dssp             CTTCC
T ss_pred             CCCCc
Confidence            88774

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4

Probab=99.22  E-value=8.7e-12  Score=111.37  Aligned_cols=118  Identities=13%  Similarity=0.134  Sum_probs=102.1

Q ss_pred             hHHhhhhcccccCCchhhhccc-cccEEEeccccccCcccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          371 RVVIDLTYMNLLSLPSSLGLLT-NLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~~~~l~-~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      .+.+++.+|.+..+|. +..+. +|++|++++|.+..++.+..+++|++|++++|.+..+      .+++|++|++++|.
T Consensus        21 L~~L~l~~n~l~~i~~-~~~~~~~L~~L~Ls~N~l~~~~~l~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~N~   99 (176)
T 1a9n_A           21 DRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNS   99 (176)
T ss_dssp             CEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCC
T ss_pred             ceEEEeeCCCCchhHH-hhhcCCCCCEEECCCCCCCcccccccCCCCCEEECCCCcccccCcchhhcCCCCCEEECCCCc
Confidence            3578899999988865 55555 9999999999998888899999999999999998876      57899999999997


Q ss_pred             ccCCCCCc--ccccCCCCCEEecCCccccccccc----ccccccccCCCccEEEeccCC
Q 048213          444 ASAPNPTE--SEVALPKLETVCLSSINIERIWQN----QVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       444 ~~~~~~~~--~~~~l~~L~~L~L~~~~l~~lp~~----~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      +  ...+.  .+..+++|++|++++|.+..+|..    +     ..+++|++|+++++.
T Consensus       100 i--~~~~~~~~l~~l~~L~~L~l~~N~i~~~~~~~~~~~-----~~l~~L~~Ld~~~n~  151 (176)
T 1a9n_A          100 L--VELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVI-----YKVPQVRVLDFQKVK  151 (176)
T ss_dssp             C--CCGGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHH-----HHCTTCSEETTEECC
T ss_pred             C--CcchhhHhhhcCCCCCEEEecCCCCCCcHhHHHHHH-----HHCCccceeCCCcCC
Confidence            6  55555  788999999999999999988875    4     578999999999865

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.22  E-value=1.2e-11  Score=135.20  Aligned_cols=115  Identities=17%  Similarity=0.003  Sum_probs=74.8

Q ss_pred             CchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc-----ccCCcceEEeccccccCCCCCcccccCC
Q 048213          384 LPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRASAPNPTESEVALP  457 (532)
Q Consensus       384 lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~  457 (532)
                      .|..+..+.+|+.|++++|.+.. +..+.++++|++|+|++|.++.+     .+++|++|+|++|.+  ..+|..+++++
T Consensus       216 ~~~~~~~l~~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l--~~lp~~~~~l~  293 (727)
T 4b8c_D          216 PKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRL--TSLPAELGSCF  293 (727)
T ss_dssp             ------CCCCCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCC--SSCCSSGGGGT
T ss_pred             ChhhhccCCCCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcC--CccChhhcCCC
Confidence            45556777777777777777766 44566777777777777776655     566777777777765  35666777777


Q ss_pred             CCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhh
Q 048213          458 KLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSI  506 (532)
Q Consensus       458 ~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~  506 (532)
                      +|++|+|++|.|+.+|.++     .+|++|++|+|++|+ +...+|..+
T Consensus       294 ~L~~L~L~~N~l~~lp~~~-----~~l~~L~~L~L~~N~-l~~~~p~~~  336 (727)
T 4b8c_D          294 QLKYFYFFDNMVTTLPWEF-----GNLCNLQFLGVEGNP-LEKQFLKIL  336 (727)
T ss_dssp             TCSEEECCSSCCCCCCSST-----TSCTTCCCEECTTSC-CCSHHHHHH
T ss_pred             CCCEEECCCCCCCccChhh-----hcCCCccEEeCCCCc-cCCCChHHH
Confidence            7777777777777776665     667777777777644 444434444

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron}

Probab=99.22  E-value=3e-11  Score=133.46  Aligned_cols=107  Identities=15%  Similarity=0.089  Sum_probs=65.7

Q ss_pred             ccccccEEeecccccccc-----c--------cCCcceEEeccccccCCCCCcccc--cCCCCCEEecCCcccccccccc
Q 048213          412 ELKILEILRLRVNELTRA-----G--------SSQLKHLSVRGLRASAPNPTESEV--ALPKLETVCLSSINIERIWQNQ  476 (532)
Q Consensus       412 ~l~~L~~L~l~~~~l~~~-----~--------l~~Lr~L~l~~~~~~~~~~~~~~~--~l~~L~~L~L~~~~l~~lp~~~  476 (532)
                      .+++|+.|++++|.+..+     .        +++|++|+|++|++  ...|..+.  .+++|+.|+|++|.++.+|..+
T Consensus       695 ~l~~L~~L~Ls~N~L~~ip~~~~~~~~~~l~nl~~L~~L~Ls~N~L--~~lp~~l~~~~l~~L~~L~Ls~N~L~~lp~~l  772 (876)
T 4ecn_A          695 TGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKL--TSLSDDFRATTLPYLSNMDVSYNCFSSFPTQP  772 (876)
T ss_dssp             TTCCCSEEECCSCCCSCCCTTSSSCTTSCCTTGGGCCEEECCSSCC--CCCCGGGSTTTCTTCCEEECCSSCCSSCCCGG
T ss_pred             cCCCCCEEECCCCcCCccChHHhccccccccccCCccEEECCCCCC--ccchHHhhhccCCCcCEEEeCCCCCCccchhh
Confidence            455666666666655544     1        11677777777765  35555555  6777777777777777666665


Q ss_pred             cccccccCCCccEEEecc------CCCCCccchhhhhhcCCCccEEEeecCCcccccc
Q 048213          477 VAAMSCGIQNLKRLILFN------CWNLTCLFTSSIISSFVGLQCLEICECPVLKEII  528 (532)
Q Consensus       477 ~~~~~~~L~~L~~L~L~~------c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i~  528 (532)
                           +.+++|+.|+|++      |.....+ |..+ +.+++|++|+|++|.- ..|+
T Consensus       773 -----~~L~~L~~L~Ls~N~~ls~N~l~~~i-p~~l-~~L~~L~~L~Ls~N~L-~~Ip  822 (876)
T 4ecn_A          773 -----LNSSQLKAFGIRHQRDAEGNRILRQW-PTGI-TTCPSLIQLQIGSNDI-RKVD  822 (876)
T ss_dssp             -----GGCTTCCEEECCCCBCTTCCBCCCCC-CTTG-GGCSSCCEEECCSSCC-CBCC
T ss_pred             -----hcCCCCCEEECCCCCCcccccccccC-hHHH-hcCCCCCEEECCCCCC-CccC
Confidence                 5667777777755      3333444 5555 5677777777777653 4443

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A

Probab=99.21  E-value=3.9e-11  Score=124.55  Aligned_cols=142  Identities=18%  Similarity=0.177  Sum_probs=120.2

Q ss_pred             HHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEeccc
Q 048213          367 VARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGL  442 (532)
Q Consensus       367 ~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~  442 (532)
                      .+...+.+++.+|.+..+++ +..+++|++|++++|.+...+.+..+++|++|++++|.+..+    .+++|++|++++|
T Consensus       241 ~l~~L~~L~l~~n~l~~~~~-~~~l~~L~~L~l~~n~l~~~~~~~~l~~L~~L~L~~n~l~~~~~~~~l~~L~~L~L~~n  319 (466)
T 1o6v_A          241 SLTNLTDLDLANNQISNLAP-LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFN  319 (466)
T ss_dssp             GCTTCSEEECCSSCCCCCGG-GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSS
T ss_pred             cCCCCCEEECCCCccccchh-hhcCCCCCEEECCCCccCccccccCCCccCeEEcCCCcccCchhhcCCCCCCEEECcCC
Confidence            33455778999999988876 899999999999999999866699999999999999998877    6889999999999


Q ss_pred             cccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      ..  ...+ .+..+++|++|++++|.++.++ .+     ..+++|+.|++++|. +..++|  + +.+++|++|++++|+
T Consensus       320 ~l--~~~~-~~~~l~~L~~L~l~~n~l~~~~-~l-----~~l~~L~~L~l~~n~-l~~~~~--~-~~l~~L~~L~l~~n~  386 (466)
T 1o6v_A          320 NI--SDIS-PVSSLTKLQRLFFYNNKVSDVS-SL-----ANLTNINWLSAGHNQ-ISDLTP--L-ANLTRITQLGLNDQA  386 (466)
T ss_dssp             CC--SCCG-GGGGCTTCCEEECCSSCCCCCG-GG-----TTCTTCCEEECCSSC-CCBCGG--G-TTCTTCCEEECCCEE
T ss_pred             cC--CCch-hhccCccCCEeECCCCccCCch-hh-----ccCCCCCEEeCCCCc-cCccch--h-hcCCCCCEEeccCCc
Confidence            76  3333 3789999999999999998874 33     578999999999876 666645  4 789999999999985

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7

Probab=99.21  E-value=2.7e-11  Score=109.78  Aligned_cols=119  Identities=19%  Similarity=0.246  Sum_probs=93.9

Q ss_pred             cEEEeccccccC-cccccccccccEEeecccccccc-------ccCCcceEEeccccccCCCCCcccccCCCCCEEecCC
Q 048213          395 QTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA-------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSS  466 (532)
Q Consensus       395 ~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~  466 (532)
                      ++++++++.+.. |..+.  .+|++|++++|++..+       .+++|++|+|++|.+ ....+..|.++++|++|+|++
T Consensus        11 ~~l~~s~~~l~~ip~~~~--~~l~~L~l~~n~i~~~~~~~~~~~l~~L~~L~Ls~N~l-~~~~~~~~~~l~~L~~L~Ls~   87 (192)
T 1w8a_A           11 TTVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQL-TGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCC-CCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEcCCCCcCcCccCCC--CCCCEEECCCCcCCccCCccccccCCCCCEEECCCCCC-CCcCHhHcCCcccCCEEECCC
Confidence            678888888877 43343  3889999999987765       567899999999987 444577888999999999999


Q ss_pred             cccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          467 INIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       467 ~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      |.|+.++...+    ..+++|++|+|+++ .+..++|..+ +.+++|++|+|++++
T Consensus        88 N~l~~~~~~~~----~~l~~L~~L~L~~N-~l~~~~~~~~-~~l~~L~~L~L~~N~  137 (192)
T 1w8a_A           88 NKIKEISNKMF----LGLHQLKTLNLYDN-QISCVMPGSF-EHLNSLTSLNLASNP  137 (192)
T ss_dssp             CCCCEECSSSS----TTCTTCCEEECCSS-CCCEECTTSS-TTCTTCCEEECTTCC
T ss_pred             CcCCccCHHHh----cCCCCCCEEECCCC-cCCeeCHHHh-hcCCCCCEEEeCCCC
Confidence            99988877642    46889999999974 5777756666 789999999998876

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus}

Probab=99.21  E-value=1.9e-11  Score=120.97  Aligned_cols=146  Identities=17%  Similarity=0.147  Sum_probs=108.1

Q ss_pred             hHHhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccc
Q 048213          371 RVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGL  442 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~  442 (532)
                      .+.+++.++.+..+|..+.  ++|++|++++|.+..  +..+.++++|++|++++|.+..+      .+++|++|++++|
T Consensus       174 L~~L~l~~n~l~~l~~~~~--~~L~~L~l~~n~i~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~l~~L~~L~L~~N  251 (332)
T 2ft3_A          174 LNYLRISEAKLTGIPKDLP--ETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNN  251 (332)
T ss_dssp             CSCCBCCSSBCSSCCSSSC--SSCSCCBCCSSCCCCCCTTSSTTCTTCSCCBCCSSCCCCCCTTGGGGCTTCCEEECCSS
T ss_pred             cCEEECcCCCCCccCcccc--CCCCEEECCCCcCCccCHHHhcCCCCCCEEECCCCcCCcCChhHhhCCCCCCEEECCCC
Confidence            4567788888888877654  688888898888877  35688888999999998887766      5678999999988


Q ss_pred             cccCCCCCcccccCCCCCEEecCCccccccccccccccc--ccCCCccEEEeccCCCCC--ccchhhhhhcCCCccEEEe
Q 048213          443 RASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMS--CGIQNLKRLILFNCWNLT--CLFTSSIISSFVGLQCLEI  518 (532)
Q Consensus       443 ~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~--~~L~~L~~L~L~~c~~l~--~l~p~~~~~~L~~L~~L~l  518 (532)
                      .+  ...|..+..+++|++|++++|.++.+|...+....  ....+|+.|++++++ +.  .++|..+ ..+++|+.|++
T Consensus       252 ~l--~~lp~~l~~l~~L~~L~l~~N~l~~~~~~~~~~~~~~~~~~~l~~L~l~~N~-~~~~~~~~~~~-~~l~~L~~l~l  327 (332)
T 2ft3_A          252 KL--SRVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNP-VPYWEVQPATF-RCVTDRLAIQF  327 (332)
T ss_dssp             CC--CBCCTTGGGCTTCCEEECCSSCCCBCCTTSSSCSSCCSSSCCBSEEECCSSS-SCGGGSCGGGG-TTBCCSTTEEC
T ss_pred             cC--eecChhhhcCccCCEEECCCCCCCccChhHccccccccccccccceEeecCc-ccccccCcccc-cccchhhhhhc
Confidence            76  46777788889999999999988888776532211  124678889998866 43  4545555 78889999998


Q ss_pred             ecCC
Q 048213          519 CECP  522 (532)
Q Consensus       519 ~~c~  522 (532)
                      ++|.
T Consensus       328 ~~n~  331 (332)
T 2ft3_A          328 GNYK  331 (332)
T ss_dssp             ----
T ss_pred             cccc
Confidence            8875

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.20  E-value=3.9e-11  Score=127.07  Aligned_cols=117  Identities=18%  Similarity=0.114  Sum_probs=93.3

Q ss_pred             cccEEEeccccccCcccccccccccEEeecccccccc-----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCc
Q 048213          393 NLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSI  467 (532)
Q Consensus       393 ~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~  467 (532)
                      .|++|++++|.+..++.++++++|++|++++|.++.+     .+++|++|+|++|++  ..+| .++++++|++|+|++|
T Consensus       442 ~L~~L~Ls~n~l~~lp~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l--~~lp-~l~~l~~L~~L~Ls~N  518 (567)
T 1dce_A          442 DVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNAL--ENVD-GVANLPRLQELLLCNN  518 (567)
T ss_dssp             TCSEEECTTSCCSSCCCGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCC--CCCG-GGTTCSSCCEEECCSS
T ss_pred             CceEEEecCCCCCCCcCccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCC--CCCc-ccCCCCCCcEEECCCC
Confidence            5888999999888865688888999999999888766     678899999998876  3455 7889999999999999


Q ss_pred             ccccc--cccccccccccCCCccEEEeccCCCCCccchh--hhhhcCCCccEEEe
Q 048213          468 NIERI--WQNQVAAMSCGIQNLKRLILFNCWNLTCLFTS--SIISSFVGLQCLEI  518 (532)
Q Consensus       468 ~l~~l--p~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~--~~~~~L~~L~~L~l  518 (532)
                      .|+.+  |..+     ..|++|++|+|++++ +..++|.  .+...+++|+.|++
T Consensus       519 ~l~~~~~p~~l-----~~l~~L~~L~L~~N~-l~~~~~~~~~l~~~lp~L~~L~l  567 (567)
T 1dce_A          519 RLQQSAAIQPL-----VSCPRLVLLNLQGNS-LCQEEGIQERLAEMLPSVSSILT  567 (567)
T ss_dssp             CCCSSSTTGGG-----GGCTTCCEEECTTSG-GGGSSSCTTHHHHHCTTCSEEEC
T ss_pred             CCCCCCCcHHH-----hcCCCCCEEEecCCc-CCCCccHHHHHHHHCcccCccCC
Confidence            99888  6666     788999999999854 6666342  22345889998864

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.19  E-value=3.7e-11  Score=134.04  Aligned_cols=143  Identities=17%  Similarity=0.117  Sum_probs=85.3

Q ss_pred             HHhhhhcccccCC-chhhhccccccEEEeccccccC---cccccccccccEEeecccccccc------ccCCcceEEecc
Q 048213          372 VVIDLTYMNLLSL-PSSLGLLTNLQTLCLYYCKLQD---TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRG  441 (532)
Q Consensus       372 ~~l~l~~~~l~~l-p~~~~~l~~L~~L~l~~~~l~~---~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~  441 (532)
                      +.+++++|.+..+ |..|..+++|++|++++|....   +..+.++++|++|+|++|.+..+      .+++|++|+|++
T Consensus        27 ~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~  106 (844)
T 3j0a_A           27 ERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYF  106 (844)
T ss_dssp             CEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCCCEECTTSSCSCSSCCCEECTT
T ss_pred             CEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcCcccCHhHccCCcccCEeeCcC
Confidence            4566666666554 4456667777777776664332   34566677777777777666554      566677777776


Q ss_pred             ccccCCCCCcc--cccCCCCCEEecCCcccccccc--cccccccccCCCccEEEeccCCCCCccchhhhhhcC--CCccE
Q 048213          442 LRASAPNPTES--EVALPKLETVCLSSINIERIWQ--NQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSF--VGLQC  515 (532)
Q Consensus       442 ~~~~~~~~~~~--~~~l~~L~~L~L~~~~l~~lp~--~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L--~~L~~  515 (532)
                      |.. ....+..  ++++++|++|+|++|.++.++.  .+     .+|++|++|+|+++. +..+.+..+ +.+  ++|++
T Consensus       107 n~l-~~~~~~~~~~~~L~~L~~L~Ls~N~l~~~~~~~~~-----~~L~~L~~L~Ls~N~-i~~~~~~~l-~~l~~~~L~~  178 (844)
T 3j0a_A          107 CGL-SDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSF-----GKLNSLKSIDFSSNQ-IFLVCEHEL-EPLQGKTLSF  178 (844)
T ss_dssp             CCC-SSCCSTTCCCSSCSSCCEEEEESCCCCCCCCCGGG-----GTCSSCCEEEEESSC-CCCCCSGGG-HHHHHCSSCC
T ss_pred             CCC-CcccccCccccccCCCCEEECCCCcccccccchhH-----hhCCCCCEEECCCCc-CCeeCHHHc-ccccCCccce
Confidence            655 2223332  6666777777777776655432  22     456677777776643 444434444 444  66777


Q ss_pred             EEeecCC
Q 048213          516 LEICECP  522 (532)
Q Consensus       516 L~l~~c~  522 (532)
                      |++++|.
T Consensus       179 L~L~~n~  185 (844)
T 3j0a_A          179 FSLAANS  185 (844)
T ss_dssp             CEECCSB
T ss_pred             EECCCCc
Confidence            7766654

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens}

Probab=99.19  E-value=2.6e-11  Score=127.64  Aligned_cols=136  Identities=18%  Similarity=0.144  Sum_probs=98.3

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccCc--ccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~--~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      +.++++++.++.+|..+.  ++|++|++++|.+...  ..+.++++|++|++++|++..+      .+++|++|+|++|.
T Consensus         3 ~~l~ls~n~l~~ip~~~~--~~L~~L~Ls~n~i~~~~~~~~~~l~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~   80 (520)
T 2z7x_B            3 FLVDRSKNGLIHVPKDLS--QKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNK   80 (520)
T ss_dssp             CEEECTTSCCSSCCCSCC--TTCSEEECCSSCCCCCCHHHHTTCTTCCEEECCSSCCCEEEGGGGTTCTTCCEEECCSSC
T ss_pred             ceEecCCCCccccccccc--ccccEEECCCCcccccChhhccccccccEEecCCCccCCcChHHhhcccCCCEEecCCCc
Confidence            356777888888887665  7888888888887772  4678888888888888877765      56788888888886


Q ss_pred             ccCCCCCcccccCCCCCEEecCCccccc--ccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCc--cEEEee
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIER--IWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGL--QCLEIC  519 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~--lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L--~~L~l~  519 (532)
                      +  ...|..  .+++|++|+|++|.++.  +|..+     .++++|++|++++|. +..   ..+ +.+++|  ++|+++
T Consensus        81 l--~~lp~~--~l~~L~~L~L~~N~l~~~~~p~~~-----~~l~~L~~L~L~~n~-l~~---~~~-~~l~~L~L~~L~l~  146 (520)
T 2z7x_B           81 L--VKISCH--PTVNLKHLDLSFNAFDALPICKEF-----GNMSQLKFLGLSTTH-LEK---SSV-LPIAHLNISKVLLV  146 (520)
T ss_dssp             C--CEEECC--CCCCCSEEECCSSCCSSCCCCGGG-----GGCTTCCEEEEEESS-CCG---GGG-GGGTTSCEEEEEEE
T ss_pred             e--eecCcc--ccCCccEEeccCCccccccchhhh-----ccCCcceEEEecCcc-cch---hhc-cccccceeeEEEee
Confidence            6  344444  67888888888887775  34555     677888888888754 443   233 566777  888888


Q ss_pred             cCCc
Q 048213          520 ECPV  523 (532)
Q Consensus       520 ~c~~  523 (532)
                      +|..
T Consensus       147 ~n~l  150 (520)
T 2z7x_B          147 LGET  150 (520)
T ss_dssp             ECTT
T ss_pred             cccc
Confidence            7753

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.19  E-value=2.5e-11  Score=135.39  Aligned_cols=140  Identities=16%  Similarity=0.190  Sum_probs=87.5

Q ss_pred             hhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeeccccc-ccc------ccCCcceEEeccccc
Q 048213          374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNEL-TRA------GSSQLKHLSVRGLRA  444 (532)
Q Consensus       374 l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l-~~~------~l~~Lr~L~l~~~~~  444 (532)
                      .+.++++++.+|.   ..+++++|++++|.+..  +..+.++++|++|++++|.. ..+      .+++|++|+|++|.+
T Consensus         9 ~dcs~~~L~~vP~---lp~~l~~LdLs~N~i~~i~~~~~~~l~~L~~LdLs~n~~~~~i~~~~f~~L~~L~~L~Ls~N~l   85 (844)
T 3j0a_A            9 AFYRFCNLTQVPQ---VLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKI   85 (844)
T ss_dssp             EEESCCCSSCCCS---SCTTCCEEEEESCCCCEECSSSCSSCCSCSEEEECTTCCCCEECTTTTSSCTTCCEEECTTCCC
T ss_pred             EEccCCCCCCCCC---CCCCcCEEECCCCcCCccChhHCcccccCeEEeCCCCCCccccCHHHhcCCCCCCEEECCCCcC
Confidence            3445566666765   34677777777777665  45677777777777777732 221      566777777777765


Q ss_pred             cCCCCCcccccCCCCCEEecCCccccc-ccccccccccccCCCccEEEeccCCCCCccch-hhhhhcCCCccEEEeecCC
Q 048213          445 SAPNPTESEVALPKLETVCLSSINIER-IWQNQVAAMSCGIQNLKRLILFNCWNLTCLFT-SSIISSFVGLQCLEICECP  522 (532)
Q Consensus       445 ~~~~~~~~~~~l~~L~~L~L~~~~l~~-lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p-~~~~~~L~~L~~L~l~~c~  522 (532)
                       ....|..|+++++|++|+|++|.++. +|...   ...+|++|++|+|++|. +..+++ ..+ ++|++|++|+|++|.
T Consensus        86 -~~~~p~~~~~l~~L~~L~Ls~n~l~~~~~~~~---~~~~L~~L~~L~Ls~N~-l~~~~~~~~~-~~L~~L~~L~Ls~N~  159 (844)
T 3j0a_A           86 -YFLHPDAFQGLFHLFELRLYFCGLSDAVLKDG---YFRNLKALTRLDLSKNQ-IRSLYLHPSF-GKLNSLKSIDFSSNQ  159 (844)
T ss_dssp             -CEECTTSSCSCSSCCCEECTTCCCSSCCSTTC---CCSSCSSCCEEEEESCC-CCCCCCCGGG-GTCSSCCEEEEESSC
T ss_pred             -cccCHhHccCCcccCEeeCcCCCCCcccccCc---cccccCCCCEEECCCCc-ccccccchhH-hhCCCCCEEECCCCc
Confidence             34456667777777777777776664 23320   01466777777777654 444423 334 677777777777653

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes}

Probab=99.19  E-value=6.2e-11  Score=122.45  Aligned_cols=127  Identities=18%  Similarity=0.099  Sum_probs=109.9

Q ss_pred             chhhhccccccEEEeccccccCcccccccccccEEeecccccccc---ccCCcceEEeccccccCCCCCcccccCCCCCE
Q 048213          385 PSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA---GSSQLKHLSVRGLRASAPNPTESEVALPKLET  461 (532)
Q Consensus       385 p~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~---~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~  461 (532)
                      +..++.+++|++|++++|.+.+.+.+..+++|++|++++|+++.+   .+++|++|++++|.+  ...  +++++++|++
T Consensus        35 ~~~~~~l~~L~~L~Ls~n~l~~~~~l~~l~~L~~L~Ls~n~l~~~~~~~l~~L~~L~Ls~N~l--~~~--~~~~l~~L~~  110 (457)
T 3bz5_A           35 TISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLDLSQNTNLTYLACDSNKL--TNL--DVTPLTKLTY  110 (457)
T ss_dssp             EEEHHHHTTCCEEECCSSCCCCCTTGGGCTTCSEEECCSSCCSCCCCTTCTTCSEEECCSSCC--SCC--CCTTCTTCCE
T ss_pred             ccChhHcCCCCEEEccCCCcccChhhcccCCCCEEEccCCcCCeEccccCCCCCEEECcCCCC--cee--ecCCCCcCCE
Confidence            446889999999999999999977899999999999999999887   678999999999987  333  3889999999


Q ss_pred             EecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCccccc
Q 048213          462 VCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEI  527 (532)
Q Consensus       462 L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i  527 (532)
                      |++++|.++.+|  +     ..+++|++|++++|. ++.+ +  + +.+++|++|++++|..+..+
T Consensus       111 L~L~~N~l~~l~--~-----~~l~~L~~L~l~~N~-l~~l-~--l-~~l~~L~~L~l~~n~~~~~~  164 (457)
T 3bz5_A          111 LNCDTNKLTKLD--V-----SQNPLLTYLNCARNT-LTEI-D--V-SHNTQLTELDCHLNKKITKL  164 (457)
T ss_dssp             EECCSSCCSCCC--C-----TTCTTCCEEECTTSC-CSCC-C--C-TTCTTCCEEECTTCSCCCCC
T ss_pred             EECCCCcCCeec--C-----CCCCcCCEEECCCCc-ccee-c--c-ccCCcCCEEECCCCCccccc
Confidence            999999999875  3     678999999999854 7777 4  3 78999999999999766554

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.18  E-value=1.4e-10  Score=103.58  Aligned_cols=115  Identities=20%  Similarity=0.231  Sum_probs=60.0

Q ss_pred             hhhhcccccCCchhhhccccccEEEeccccccCc--ccccccccccEEeecccccccc------ccCCcceEEecccccc
Q 048213          374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRAS  445 (532)
Q Consensus       374 l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~--~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~  445 (532)
                      +++.++.+..+|..+  .++|++|++++|.+...  ..+..+++|++|++++|.+..+      .+++|++|++++|.+ 
T Consensus        12 l~~~~~~l~~~p~~~--~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~N~l-   88 (177)
T 2o6r_A           12 IRCNSKGLTSVPTGI--PSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKL-   88 (177)
T ss_dssp             EECCSSCCSSCCTTC--CTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC-
T ss_pred             EEecCCCCccCCCCC--CCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcceEeChhHccCCCccCEEECCCCCc-
Confidence            445555566666443  25667777777666652  2356666666666666655544      344555555555544 


Q ss_pred             CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccC
Q 048213          446 APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC  495 (532)
Q Consensus       446 ~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c  495 (532)
                      ....+..+..+++|++|+|++|.++.+|...+    ..+++|++|+|+++
T Consensus        89 ~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~----~~l~~L~~L~l~~N  134 (177)
T 2o6r_A           89 QSLPNGVFDKLTQLKELALDTNQLKSVPDGIF----DRLTSLQKIWLHTN  134 (177)
T ss_dssp             CCCCTTTTTTCTTCCEEECCSSCCSCCCTTTT----TTCTTCCEEECCSS
T ss_pred             cccCHHHhhCCcccCEEECcCCcceEeCHHHh----cCCcccCEEEecCC
Confidence            22222234455555555555555555444431    23455555555543

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus}

Probab=99.18  E-value=5.6e-11  Score=126.41  Aligned_cols=136  Identities=20%  Similarity=0.214  Sum_probs=110.7

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      +.+++.++.++.+|..+.  ++|++|++++|.+..  +..+.++++|++|++++|+++.+      .+++|++|++++|.
T Consensus        34 ~~l~ls~~~L~~ip~~~~--~~L~~L~Ls~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~  111 (562)
T 3a79_B           34 SMVDYSNRNLTHVPKDLP--PRTKALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNR  111 (562)
T ss_dssp             CEEECTTSCCCSCCTTSC--TTCCEEECCSSCCCCCCGGGTTTCTTCCEEECCSCCCCEECTTTTTTCTTCCEEECTTSC
T ss_pred             cEEEcCCCCCccCCCCCC--CCcCEEECCCCCccccChhhhccCCCccEEECCCCCCCcCCHHHhCCCCCCCEEECCCCc
Confidence            578999999999998764  799999999999988  35799999999999999988877      67899999999998


Q ss_pred             ccCCCCCcccccCCCCCEEecCCccccccc--ccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCc--cEEEee
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIW--QNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGL--QCLEIC  519 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp--~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L--~~L~l~  519 (532)
                      +  ...|..  .+++|++|+|++|.++.+|  ..+     .++++|++|+|+++. +...   .+ +.+++|  ++|+++
T Consensus       112 l--~~lp~~--~l~~L~~L~Ls~N~l~~l~~p~~~-----~~l~~L~~L~L~~n~-l~~~---~~-~~l~~L~L~~L~L~  177 (562)
T 3a79_B          112 L--QNISCC--PMASLRHLDLSFNDFDVLPVCKEF-----GNLTKLTFLGLSAAK-FRQL---DL-LPVAHLHLSCILLD  177 (562)
T ss_dssp             C--CEECSC--CCTTCSEEECCSSCCSBCCCCGGG-----GGCTTCCEEEEECSB-CCTT---TT-GGGTTSCEEEEEEE
T ss_pred             C--CccCcc--ccccCCEEECCCCCccccCchHhh-----cccCcccEEecCCCc-cccC---ch-hhhhhceeeEEEee
Confidence            7  345544  7999999999999998875  444     688999999999844 5543   22 455666  999999


Q ss_pred             cCCc
Q 048213          520 ECPV  523 (532)
Q Consensus       520 ~c~~  523 (532)
                      +|..
T Consensus       178 ~n~l  181 (562)
T 3a79_B          178 LVSY  181 (562)
T ss_dssp             ESSC
T ss_pred             cccc
Confidence            8854

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=99.17  E-value=3.9e-11  Score=119.59  Aligned_cols=150  Identities=16%  Similarity=0.140  Sum_probs=100.4

Q ss_pred             HHhhhhcccccCCchh-hhccccccEEEeccccccC---cccccccccccE-Eeecccccccc------ccCCcceEEec
Q 048213          372 VVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD---TSVLGELKILEI-LRLRVNELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~---~~~i~~l~~L~~-L~l~~~~l~~~------~l~~Lr~L~l~  440 (532)
                      +.+++.+|.++.+|.. |..+++|++|++++|.+.+   ...+.++++|.. +.+.+|++..+      .+++|++|+++
T Consensus        33 ~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~l~~l~~~~f~~l~~L~~L~l~  112 (350)
T 4ay9_X           33 IELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLIS  112 (350)
T ss_dssp             SEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETTCCEECTTSBCCCTTCCEEEEE
T ss_pred             CEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCcccccCchhhhhcccccccccc
Confidence            4678888888888764 7888889999988887644   234566666554 44555666555      45667777777


Q ss_pred             ccccc-----------------------CCC-CCcccccC-CCCCEEecCCcccccccccccccccccCCCccEEEeccC
Q 048213          441 GLRAS-----------------------APN-PTESEVAL-PKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC  495 (532)
Q Consensus       441 ~~~~~-----------------------~~~-~~~~~~~l-~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c  495 (532)
                      +|...                       +.. .+..|..+ ..|++|+|++|.|+.+|...     +...+|+.|++.++
T Consensus       113 ~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~N~i~~i~~~~-----f~~~~L~~l~l~~~  187 (350)
T 4ay9_X          113 NTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSA-----FNGTQLDELNLSDN  187 (350)
T ss_dssp             EECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTS-----STTEEEEEEECTTC
T ss_pred             ccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhccccccccCCChhh-----ccccchhHHhhccC
Confidence            66441                       000 01122333 35778888888888888776     66677888888877


Q ss_pred             CCCCccchhhhhhcCCCccEEEeecCCcccccc
Q 048213          496 WNLTCLFTSSIISSFVGLQCLEICECPVLKEII  528 (532)
Q Consensus       496 ~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i~  528 (532)
                      +.++.+++..| +.+++|++|+|+++ +|+.++
T Consensus       188 n~l~~i~~~~f-~~l~~L~~LdLs~N-~l~~lp  218 (350)
T 4ay9_X          188 NNLEELPNDVF-HGASGPVILDISRT-RIHSLP  218 (350)
T ss_dssp             TTCCCCCTTTT-TTEECCSEEECTTS-CCCCCC
T ss_pred             CcccCCCHHHh-ccCcccchhhcCCC-CcCccC
Confidence            88888844344 77888888888876 355554

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.17  E-value=2.1e-12  Score=117.77  Aligned_cols=129  Identities=18%  Similarity=0.207  Sum_probs=105.6

Q ss_pred             ccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc-----ccCCcceEEeccccccCCCCCccccc
Q 048213          381 LLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRASAPNPTESEVA  455 (532)
Q Consensus       381 l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~~~~~~~~~~~~  455 (532)
                      +..+|..++.+++|++|++++|.+..++.+.++++|++|++++|.+..+     .+++|++|++++|.+  ...+ .+..
T Consensus        37 l~~l~~~~~~l~~L~~L~ls~n~l~~l~~~~~l~~L~~L~l~~n~l~~l~~~~~~~~~L~~L~L~~N~l--~~l~-~~~~  113 (198)
T 1ds9_A           37 IEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQI--ASLS-GIEK  113 (198)
T ss_dssp             CCCCHHHHHHTTTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEEECSCSSHHHHHHHCSEEEEEEEEC--CCHH-HHHH
T ss_pred             HhhhhHHHhcCCCCCEEECCCCCCccccccccCCCCCEEECCCCCcccccchhhcCCcCCEEECcCCcC--CcCC-cccc
Confidence            3445668999999999999999999966999999999999999998877     458999999999976  3344 6889


Q ss_pred             CCCCCEEecCCcccccccc--cccccccccCCCccEEEeccCCCCCccchh---------hhhhcCCCccEEEe
Q 048213          456 LPKLETVCLSSINIERIWQ--NQVAAMSCGIQNLKRLILFNCWNLTCLFTS---------SIISSFVGLQCLEI  518 (532)
Q Consensus       456 l~~L~~L~L~~~~l~~lp~--~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~---------~~~~~L~~L~~L~l  518 (532)
                      +++|++|++++|.++.+|.  .+     ..+++|++|++++|+ +....|.         ..+..+++|++|+-
T Consensus       114 l~~L~~L~l~~N~i~~~~~~~~l-----~~l~~L~~L~l~~N~-l~~~~~~~~~~~~~~~~~~~~l~~L~~Ld~  181 (198)
T 1ds9_A          114 LVNLRVLYMSNNKITNWGEIDKL-----AALDKLEDLLLAGNP-LYNDYKENNATSEYRIEVVKRLPNLKKLDG  181 (198)
T ss_dssp             HHHSSEEEESEEECCCHHHHHHH-----TTTTTCSEEEECSCH-HHHHHHTTTTHHHHHHHHHHHCSSCSEECC
T ss_pred             CCCCCEEECCCCcCCchhHHHHH-----hcCCCCCEEEecCCc-cccccccccchHHHHHHHHHhCCCcEEECC
Confidence            9999999999999998765  33     578999999999865 4333232         22378999999973

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.15  E-value=4.4e-10  Score=113.41  Aligned_cols=219  Identities=13%  Similarity=0.042  Sum_probs=129.8

Q ss_pred             ccccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhhcc----C---CCCEEEEecc----C---
Q 048213          105 YEAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENE----K---LFDRVIFVEE----S---  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~----~---~F~~~~~~~~----~---  166 (532)
                      +..|+||+++++++.+++.    ....+.+.|+|++|+|||+||+.+++.....    .   .+........    +   
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   98 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQA   98 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHH
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHH
Confidence            3679999999999987775    3456789999999999999999999875322    0   1222222111    1   


Q ss_pred             --------------------chhhHHHHHHHHhccCcEEEEEcCCCCccc--cccc-ccccCCCCCCeEEEEeecChHHh
Q 048213          167 --------------------ESGRARSLCNRLKKEKMILVILDNIWENLD--FHAV-GIPHGDDHKGCKVLLTARSLDVL  223 (532)
Q Consensus       167 --------------------~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~--~~~l-~~~~~~~~~gs~ilvTtr~~~v~  223 (532)
                                          .......+.+.+.. ++.+|||||++....  +..+ ...+.....+..+|+||+.....
T Consensus        99 ~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~~  177 (384)
T 2qby_B           99 VLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRN-IRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVR  177 (384)
T ss_dssp             HHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSS-SCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTTT
T ss_pred             HHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhcc-CCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCchH
Confidence                                11223444455553 445999999986532  1122 12221112678889998875321


Q ss_pred             ----hhc-CCCCceEEccCCCHHHHHHHHHHHhC-CCCCCcchHHHHHHHHHHcC---CchH-HHHHHHHHH--c---cC
Q 048213          224 ----SRK-MDSQQDFWVGVLKEDEAWSLFKKMAG-DYIEGSEFKWVAKDVAKKCA---GLPV-SIVTVARAL--R---NK  288 (532)
Q Consensus       224 ----~~~-~~~~~~~~l~~L~~~~~~~Lf~~~~~-~~~~~~~~~~~~~~i~~~c~---glPL-ai~~~~~~l--~---~~  288 (532)
                          ... ......+.+.+++.++..++|...+. ......-.++..+.+++.|+   |.|. |+..+-...  +   ..
T Consensus       178 ~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~~~a~~~~~  257 (384)
T 2qby_B          178 DYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGI  257 (384)
T ss_dssp             TTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTSSSC
T ss_pred             hhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCc
Confidence                000 11123899999999999999998753 11111122345677778887   8876 444433332  1   12


Q ss_pred             -ChHHHHHHHHHhcCCCCCCCCCchhHHHHHHHhhcCCCCCchHHHHHHHHh
Q 048213          289 -RLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG  339 (532)
Q Consensus       289 -~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f~~la  339 (532)
                       +.+.+..++....              ...+.-++..|+++ .+..+..++
T Consensus       258 i~~~~v~~~~~~~~--------------~~~~~~~~~~l~~~-~~~~l~al~  294 (384)
T 2qby_B          258 IRKEHVDKAIVDYE--------------QERLIEAVKALPFH-YKLALRSLI  294 (384)
T ss_dssp             CCHHHHHHHHHHHH--------------HHHHHHHHHSSCHH-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHh--------------cchHHHHHHcCCHH-HHHHHHHHH
Confidence             6677766665543              12345566778776 455444444

>4glp_A Monocyte differentiation antigen CD14; alpha beta BENT solenoid, LRR, lipopolysaccharide, serum, CD leucine-rich repeat, pattern recognition; 4.00A {Homo sapiens}

Probab=99.15  E-value=1.9e-11  Score=119.75  Aligned_cols=140  Identities=15%  Similarity=0.082  Sum_probs=103.0

Q ss_pred             hHHhhhhcccccCC-c----hhhhccccccEEEeccccccC--cccccccccccEEeeccccccc---c-------ccCC
Q 048213          371 RVVIDLTYMNLLSL-P----SSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTR---A-------GSSQ  433 (532)
Q Consensus       371 ~~~l~l~~~~l~~l-p----~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~---~-------~l~~  433 (532)
                      .+.+++.+|.+... |    ..+..+++|++|++++|.+..  +..+..+++|++|++++|++..   +       .+++
T Consensus       119 L~~L~Ls~n~i~~~~~~~~~~~~~~~~~L~~L~Ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~~~~~~~~~~~l~~  198 (310)
T 4glp_A          119 LSSLRLRNVSWATGRSWLAELQQWLKPGLKVLSIAQAHSPAFSCEQVRAFPALTSLDLSDNPGLGERGLMAALCPHKFPA  198 (310)
T ss_dssp             CSSCEEESCCCSSTTSSHHHHHTTBCSCCCEEEEECCSSCCCCTTSCCCCTTCCEEECCSCTTCHHHHHHTTSCTTSSCC
T ss_pred             CCEEEeecccccchhhhhHHHHhhhccCCCEEEeeCCCcchhhHHHhccCCCCCEEECCCCCCccchhhhHHHhhhcCCC
Confidence            45678888877652 2    234568888999998888877  3567888899999999887643   1       5778


Q ss_pred             cceEEeccccccCCCCCc----ccccCCCCCEEecCCcccccc-cccccccccccC---CCccEEEeccCCCCCccchhh
Q 048213          434 LKHLSVRGLRASAPNPTE----SEVALPKLETVCLSSINIERI-WQNQVAAMSCGI---QNLKRLILFNCWNLTCLFTSS  505 (532)
Q Consensus       434 Lr~L~l~~~~~~~~~~~~----~~~~l~~L~~L~L~~~~l~~l-p~~~~~~~~~~L---~~L~~L~L~~c~~l~~l~p~~  505 (532)
                      |++|++++|+.  ...+.    .+.++++|++|+|++|.++.+ |+.+     +.+   ++|++|+|++| .++.+ |..
T Consensus       199 L~~L~Ls~N~l--~~l~~~~~~l~~~l~~L~~L~Ls~N~l~~~~p~~~-----~~~~~~~~L~~L~Ls~N-~l~~l-p~~  269 (310)
T 4glp_A          199 IQNLALRNTGM--ETPTGVCAALAAAGVQPHSLDLSHNSLRATVNPSA-----PRCMWSSALNSLNLSFA-GLEQV-PKG  269 (310)
T ss_dssp             CCSCBCCSSCC--CCHHHHHHHHHHHTCCCSSEECTTSCCCCCCCSCC-----SSCCCCTTCCCEECCSS-CCCSC-CSC
T ss_pred             CCEEECCCCCC--CchHHHHHHHHhcCCCCCEEECCCCCCCccchhhH-----HhccCcCcCCEEECCCC-CCCch-hhh
Confidence            89999988866  22222    246788999999999988876 5555     443   68999999874 57788 665


Q ss_pred             hhhcCCCccEEEeecCC
Q 048213          506 IISSFVGLQCLEICECP  522 (532)
Q Consensus       506 ~~~~L~~L~~L~l~~c~  522 (532)
                      +   .++|++|+|++|.
T Consensus       270 ~---~~~L~~L~Ls~N~  283 (310)
T 4glp_A          270 L---PAKLRVLDLSSNR  283 (310)
T ss_dssp             C---CSCCSCEECCSCC
T ss_pred             h---cCCCCEEECCCCc
Confidence            4   3789999998874

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.14  E-value=9.9e-10  Score=110.68  Aligned_cols=220  Identities=16%  Similarity=0.123  Sum_probs=129.0

Q ss_pred             ccccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhhccC--CCCEEEEecc-------------
Q 048213          105 YEAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK--LFDRVIFVEE-------------  165 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~--~F~~~~~~~~-------------  165 (532)
                      +..|+||+.+++.+.+++.    ......+.|+|++|+||||||+.+++......  .+........             
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~   98 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLL   98 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHH
Confidence            4679999999999999887    44567899999999999999999998754321  1222221100             


Q ss_pred             ------------CchhhHHHHHHHHhc-cCcEEEEEcCCCCccc------ccccccccCC-CCCCeEEEEeecChHHhhh
Q 048213          166 ------------SESGRARSLCNRLKK-EKMILVILDNIWENLD------FHAVGIPHGD-DHKGCKVLLTARSLDVLSR  225 (532)
Q Consensus       166 ------------~~~~~~~~l~~~l~~-~k~~LlVlDdv~~~~~------~~~l~~~~~~-~~~gs~ilvTtr~~~v~~~  225 (532)
                                  +.......+.+.+.. +++.+||+|+++....      +..+...+.. ...+..+|+||+.......
T Consensus        99 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~~~  178 (386)
T 2qby_A           99 ESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDL  178 (386)
T ss_dssp             TTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGGGG
T ss_pred             HHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChHhh
Confidence                        112234445555543 3489999999976431      2222111111 2345667888886643211


Q ss_pred             cC-----CC-CceEEccCCCHHHHHHHHHHHhCC-CCCCcchHHHHHHHHHHcC---CchHHHHH-HHHHHc-----c--
Q 048213          226 KM-----DS-QQDFWVGVLKEDEAWSLFKKMAGD-YIEGSEFKWVAKDVAKKCA---GLPVSIVT-VARALR-----N--  287 (532)
Q Consensus       226 ~~-----~~-~~~~~l~~L~~~~~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~c~---glPLai~~-~~~~l~-----~--  287 (532)
                      ..     .. ...+.+.+++.++..+++...+.. .....-..+..+.+++.++   |.|..+.. +.....     +  
T Consensus       179 ~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~a~~~~~~  258 (386)
T 2qby_A          179 LDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERMKDT  258 (386)
T ss_dssp             CTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCS
T ss_pred             hCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCCC
Confidence            10     11 147999999999999999886431 1111223556777777777   98874433 332211     1  


Q ss_pred             C-ChHHHHHHHHHhcCCCCCCCCCchhHHHHHHHhhcCCCCCchHHHHHHHHh
Q 048213          288 K-RLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG  339 (532)
Q Consensus       288 ~-~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f~~la  339 (532)
                      . +.+.+..++....              ...+.-++..+|.. .+..+..++
T Consensus       259 ~i~~~~v~~a~~~~~--------------~~~~~~~~~~l~~~-~~~il~ai~  296 (386)
T 2qby_A          259 KVKEEYVYMAKEEIE--------------RDRVRDIILTLPFH-SKLVLMAVV  296 (386)
T ss_dssp             SCCHHHHHHHHHHHH--------------HHHHHHHHHTSCHH-HHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHh--------------hchHHHHHHcCCHH-HHHHHHHHH
Confidence            1 4555555444332              12344456677776 555555554

>2o6r_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 2.30A {Eptatretus burgeri}

Probab=99.14  E-value=1.2e-10  Score=103.88  Aligned_cols=122  Identities=19%  Similarity=0.124  Sum_probs=98.0

Q ss_pred             ccEEEeccccccCcccccccccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCc
Q 048213          394 LQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSI  467 (532)
Q Consensus       394 L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~  467 (532)
                      .+.+++.++.+..++ ....++|++|++++|++..+      .+++|++|++++|.+ ....+..+..+++|++|+|++|
T Consensus         9 ~~~l~~~~~~l~~~p-~~~~~~l~~L~l~~n~l~~~~~~~~~~l~~L~~L~l~~n~l-~~~~~~~~~~l~~L~~L~l~~N   86 (177)
T 2o6r_A            9 GTEIRCNSKGLTSVP-TGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQI-QSLPDGVFDKLTKLTILYLHEN   86 (177)
T ss_dssp             TTEEECCSSCCSSCC-TTCCTTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCC-CCCCTTTTTTCTTCCEEECCSS
T ss_pred             CCEEEecCCCCccCC-CCCCCCCcEEEeCCCcccEeCHHHhcCcccccEEECCCCcc-eEeChhHccCCCccCEEECCCC
Confidence            567888888887733 22347899999999998876      578999999999987 3334445789999999999999


Q ss_pred             ccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCc
Q 048213          468 NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPV  523 (532)
Q Consensus       468 ~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~  523 (532)
                      .++.+|...+    ..+++|++|+|+++ .++.+++..+ +.+++|++|++++++-
T Consensus        87 ~l~~~~~~~~----~~l~~L~~L~l~~N-~l~~~~~~~~-~~l~~L~~L~l~~N~~  136 (177)
T 2o6r_A           87 KLQSLPNGVF----DKLTQLKELALDTN-QLKSVPDGIF-DRLTSLQKIWLHTNPW  136 (177)
T ss_dssp             CCCCCCTTTT----TTCTTCCEEECCSS-CCSCCCTTTT-TTCTTCCEEECCSSCB
T ss_pred             CccccCHHHh----hCCcccCEEECcCC-cceEeCHHHh-cCCcccCEEEecCCCe
Confidence            9999887652    46899999999985 6888944444 7899999999999873

>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C}

Probab=99.13  E-value=2e-11  Score=133.31  Aligned_cols=105  Identities=18%  Similarity=0.150  Sum_probs=83.8

Q ss_pred             hhHHhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc-----ccCCcceEEecccc
Q 048213          370 ARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLR  443 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~  443 (532)
                      ..+.|++.+|.+..+|..+..+++|++|+|++|.+.. |..++++++|++|+|++|.++.+     .+++|++|+|++|.
T Consensus       225 ~L~~L~Ls~n~l~~l~~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~L~~N~  304 (727)
T 4b8c_D          225 LWHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNM  304 (727)
T ss_dssp             CCCEEECTTSCCSCCCGGGGGCCSCSCCBCTTSCCSCCCGGGGGGTTCCEEECTTSCCSSCCSSGGGGTTCSEEECCSSC
T ss_pred             CCcEEECCCCCCCCCChhhcCCCCCCEEEeeCCcCcccChhhhCCCCCCEEeCcCCcCCccChhhcCCCCCCEEECCCCC
Confidence            3467788888888888888888888888888888877 56688888888888888888766     56788888888887


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccc
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQ  476 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~  476 (532)
                      +  ..+|..|+++++|++|+|++|.|+..++..
T Consensus       305 l--~~lp~~~~~l~~L~~L~L~~N~l~~~~p~~  335 (727)
T 4b8c_D          305 V--TTLPWEFGNLCNLQFLGVEGNPLEKQFLKI  335 (727)
T ss_dssp             C--CCCCSSTTSCTTCCCEECTTSCCCSHHHHH
T ss_pred             C--CccChhhhcCCCccEEeCCCCccCCCChHH
Confidence            6  567777888888888888888887655544

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=99.12  E-value=1e-10  Score=123.77  Aligned_cols=119  Identities=20%  Similarity=0.200  Sum_probs=102.3

Q ss_pred             hHHhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeecccccccc----ccCCcceEEecccccc
Q 048213          371 RVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRAS  445 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~  445 (532)
                      .+.+++++|.++.+|. ++.+++|++|++++|.+.. |..++++++|++|+|++|.++++    .+++|++|+|++|++ 
T Consensus       443 L~~L~Ls~n~l~~lp~-~~~l~~L~~L~Ls~N~l~~lp~~~~~l~~L~~L~Ls~N~l~~lp~l~~l~~L~~L~Ls~N~l-  520 (567)
T 1dce_A          443 VRVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRL-  520 (567)
T ss_dssp             CSEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCC-
T ss_pred             ceEEEecCCCCCCCcC-ccccccCcEeecCcccccccchhhhcCCCCCEEECCCCCCCCCcccCCCCCCcEEECCCCCC-
Confidence            4578999999999997 9999999999999999998 67899999999999999998887    688999999999987 


Q ss_pred             CCCC-CcccccCCCCCEEecCCcccccccccccccccccCCCccEEEe
Q 048213          446 APNP-TESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLIL  492 (532)
Q Consensus       446 ~~~~-~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L  492 (532)
                      .... |..++.+++|++|+|++|.++.+|+... .....+++|++|++
T Consensus       521 ~~~~~p~~l~~l~~L~~L~L~~N~l~~~~~~~~-~l~~~lp~L~~L~l  567 (567)
T 1dce_A          521 QQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQE-RLAEMLPSVSSILT  567 (567)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTSGGGGSSSCTT-HHHHHCTTCSEEEC
T ss_pred             CCCCCcHHHhcCCCCCEEEecCCcCCCCccHHH-HHHHHCcccCccCC
Confidence            3333 8899999999999999999999887541 11123789999875

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.12  E-value=1.5e-10  Score=119.52  Aligned_cols=133  Identities=15%  Similarity=0.116  Sum_probs=86.4

Q ss_pred             hHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc--ccCCcceEEeccccccCCC
Q 048213          371 RVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA--GSSQLKHLSVRGLRASAPN  448 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~--~l~~Lr~L~l~~~~~~~~~  448 (532)
                      .+.+++.+|.+..+|..   .++|++|++++|.+..++.++++++|++|++++|+++.+  ..++|++|++++|..  ..
T Consensus       113 L~~L~l~~n~l~~l~~~---~~~L~~L~L~~n~l~~lp~~~~l~~L~~L~l~~N~l~~lp~~~~~L~~L~L~~n~l--~~  187 (454)
T 1jl5_A          113 LKSLLVDNNNLKALSDL---PPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQL--EE  187 (454)
T ss_dssp             CCEEECCSSCCSCCCSC---CTTCCEEECCSSCCSSCCCCTTCTTCCEEECCSSCCSCCCCCCTTCCEEECCSSCC--SS
T ss_pred             CcEEECCCCccCcccCC---CCCCCEEECcCCCCCCCcccCCCCCCCEEECCCCcCcccCCCcccccEEECcCCcC--Cc
Confidence            34556666666555432   157777888777777755677788888888888877765  345788888887765  33


Q ss_pred             CCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          449 PTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       449 ~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      .| .++++++|++|++++|.++.+|...        .+|++|++++| .+..+ |. + +.+++|++|++++|
T Consensus       188 l~-~~~~l~~L~~L~l~~N~l~~l~~~~--------~~L~~L~l~~n-~l~~l-p~-~-~~l~~L~~L~l~~N  247 (454)
T 1jl5_A          188 LP-ELQNLPFLTAIYADNNSLKKLPDLP--------LSLESIVAGNN-ILEEL-PE-L-QNLPFLTTIYADNN  247 (454)
T ss_dssp             CC-CCTTCTTCCEEECCSSCCSSCCCCC--------TTCCEEECCSS-CCSSC-CC-C-TTCTTCCEEECCSS
T ss_pred             Cc-cccCCCCCCEEECCCCcCCcCCCCc--------CcccEEECcCC-cCCcc-cc-c-CCCCCCCEEECCCC
Confidence            44 5777777777777777777665532        45666666654 35555 32 3 56666666666655

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.11  E-value=1.9e-10  Score=122.72  Aligned_cols=115  Identities=23%  Similarity=0.169  Sum_probs=84.8

Q ss_pred             ccccEEEeccccccCcccccccccccEEeecccccccc--ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCccc
Q 048213          392 TNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA--GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINI  469 (532)
Q Consensus       392 ~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~--~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l  469 (532)
                      ++|++|++++|.+..++.  .+++|+.|++++|.++.+  .+++|+.|++++|.+  ...|   ..+++|++|+|++|.|
T Consensus       181 ~~L~~L~Ls~N~l~~l~~--~~~~L~~L~L~~N~l~~l~~~~~~L~~L~Ls~N~L--~~lp---~~l~~L~~L~Ls~N~L  253 (622)
T 3g06_A          181 SGLQELSVSDNQLASLPT--LPSELYKLWAYNNRLTSLPALPSGLKELIVSGNRL--TSLP---VLPSELKELMVSGNRL  253 (622)
T ss_dssp             TTCCEEECCSSCCSCCCC--CCTTCCEEECCSSCCSSCCCCCTTCCEEECCSSCC--SCCC---CCCTTCCEEECCSSCC
T ss_pred             CCCcEEECCCCCCCCCCC--ccchhhEEECcCCcccccCCCCCCCCEEEccCCcc--CcCC---CCCCcCcEEECCCCCC
Confidence            566666776666665332  235667777777766665  446788888888865  3344   4568899999999988


Q ss_pred             ccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCcc
Q 048213          470 ERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVL  524 (532)
Q Consensus       470 ~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L  524 (532)
                      +.+|..        +++|++|+|++| .+..+ |..+ +++++|+.|+|++|+--
T Consensus       254 ~~lp~~--------~~~L~~L~Ls~N-~L~~l-p~~l-~~l~~L~~L~L~~N~l~  297 (622)
T 3g06_A          254 TSLPML--------PSGLLSLSVYRN-QLTRL-PESL-IHLSSETTVNLEGNPLS  297 (622)
T ss_dssp             SCCCCC--------CTTCCEEECCSS-CCCSC-CGGG-GGSCTTCEEECCSCCCC
T ss_pred             CcCCcc--------cccCcEEeCCCC-CCCcC-CHHH-hhccccCEEEecCCCCC
Confidence            887762        388999999985 58889 7776 79999999999998743

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.10  E-value=3.3e-11  Score=121.81  Aligned_cols=149  Identities=15%  Similarity=0.097  Sum_probs=91.7

Q ss_pred             hHHhhhhcccccC-----Cchhhhcc---------ccccEEEeccccccC--c----ccccccccccEEeeccccccc--
Q 048213          371 RVVIDLTYMNLLS-----LPSSLGLL---------TNLQTLCLYYCKLQD--T----SVLGELKILEILRLRVNELTR--  428 (532)
Q Consensus       371 ~~~l~l~~~~l~~-----lp~~~~~l---------~~L~~L~l~~~~l~~--~----~~i~~l~~L~~L~l~~~~l~~--  428 (532)
                      .+.+++.+|.+..     ++..+..+         ++|++|++++|.+..  .    ..+..+++|++|++++|.+..  
T Consensus       124 L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~g  203 (386)
T 2ca6_A          124 LEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEG  203 (386)
T ss_dssp             CCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHH
T ss_pred             CCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcHHHHHHHHHHHhCCCcCEEECcCCCCCHhH
Confidence            3556666666642     23333444         677777777777653  2    245567777777777777662  


Q ss_pred             --------c-ccCCcceEEeccccccC----CCCCcccccCCCCCEEecCCccccccccccccccc--ccCCCccEEEec
Q 048213          429 --------A-GSSQLKHLSVRGLRASA----PNPTESEVALPKLETVCLSSINIERIWQNQVAAMS--CGIQNLKRLILF  493 (532)
Q Consensus       429 --------~-~l~~Lr~L~l~~~~~~~----~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~--~~L~~L~~L~L~  493 (532)
                              + .+++|++|+|++|.+ .    ...+..+..+++|++|+|++|.++......++...  +++++|++|+|+
T Consensus       204 ~~~l~~~~l~~~~~L~~L~Ls~n~l-~~~g~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~~~L~~L~L~  282 (386)
T 2ca6_A          204 IEHLLLEGLAYCQELKVLDLQDNTF-THLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQ  282 (386)
T ss_dssp             HHHHHHTTGGGCTTCCEEECCSSCC-HHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECC
T ss_pred             HHHHHHHHhhcCCCccEEECcCCCC-CcHHHHHHHHHHccCCCcCEEECCCCCCchhhHHHHHHHHhhccCCCeEEEECc
Confidence                    1 566777777777754 1    23345567777788888888776643111111111  226788888888


Q ss_pred             cCCCCCc-----cchhhhhhcCCCccEEEeecCC
Q 048213          494 NCWNLTC-----LFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       494 ~c~~l~~-----l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      +|. +..     + |..+.+++++|++|++++|+
T Consensus       283 ~n~-i~~~g~~~l-~~~l~~~l~~L~~L~l~~N~  314 (386)
T 2ca6_A          283 YNE-IELDAVRTL-KTVIDEKMPDLLFLELNGNR  314 (386)
T ss_dssp             SSC-CBHHHHHHH-HHHHHHHCTTCCEEECTTSB
T ss_pred             CCc-CCHHHHHHH-HHHHHhcCCCceEEEccCCc
Confidence            755 554     6 55554567888888888775

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium}

Probab=99.09  E-value=2.2e-10  Score=122.30  Aligned_cols=67  Identities=24%  Similarity=0.220  Sum_probs=32.9

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc--ccCCcceEEecccc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA--GSSQLKHLSVRGLR  443 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~--~l~~Lr~L~l~~~~  443 (532)
                      .+++.++.+..+|..+.  ++|++|++++|.+..++.  .+++|++|++++|+++.+  .+++|++|++++|.
T Consensus        44 ~L~ls~n~L~~lp~~l~--~~L~~L~L~~N~l~~lp~--~l~~L~~L~Ls~N~l~~lp~~l~~L~~L~Ls~N~  112 (622)
T 3g06_A           44 VLNVGESGLTTLPDCLP--AHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPVLPPGLLELSIFSNP  112 (622)
T ss_dssp             EEECCSSCCSCCCSCCC--TTCSEEEECSCCCSCCCC--CCTTCCEEEECSCCCSCCCCCCTTCCEEEECSCC
T ss_pred             EEEecCCCcCccChhhC--CCCcEEEecCCCCCCCCC--cCCCCCEEEcCCCcCCcCCCCCCCCCEEECcCCc
Confidence            34555555555554443  455555555555544322  344555555555554444  34445555554443

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A}

Probab=99.07  E-value=3e-10  Score=119.79  Aligned_cols=133  Identities=20%  Similarity=0.153  Sum_probs=83.8

Q ss_pred             hHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc--ccCCcceEEeccccccCCC
Q 048213          371 RVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA--GSSQLKHLSVRGLRASAPN  448 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~--~l~~Lr~L~l~~~~~~~~~  448 (532)
                      .+.+++.+|.+..+|   ..+++|++|++++|.+..++.+.+  +|++|++++|+++.+  .+++|++|++++|.+  ..
T Consensus        82 L~~L~Ls~N~l~~ip---~~l~~L~~L~Ls~N~l~~ip~l~~--~L~~L~Ls~N~l~~lp~~l~~L~~L~Ls~N~l--~~  154 (571)
T 3cvr_A           82 ITVLEITQNALISLP---ELPASLEYLDACDNRLSTLPELPA--SLKHLDVDNNQLTMLPELPALLEYINADNNQL--TM  154 (571)
T ss_dssp             CSEEECCSSCCSCCC---CCCTTCCEEECCSSCCSCCCCCCT--TCCEEECCSSCCSCCCCCCTTCCEEECCSSCC--SC
T ss_pred             CCEEECcCCCCcccc---cccCCCCEEEccCCCCCCcchhhc--CCCEEECCCCcCCCCCCcCccccEEeCCCCcc--Cc
Confidence            345666666666666   345667777777776666333433  677777777766655  456677777777765  33


Q ss_pred             CCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCc-------cEEEeecC
Q 048213          449 PTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGL-------QCLEICEC  521 (532)
Q Consensus       449 ~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L-------~~L~l~~c  521 (532)
                      .|.   .+++|++|+|++|.|+.+|. +     .  ++|++|+|++| .++.+ |. + ..  +|       ++|+|++|
T Consensus       155 lp~---~l~~L~~L~Ls~N~L~~lp~-l-----~--~~L~~L~Ls~N-~L~~l-p~-~-~~--~L~~~~~~L~~L~Ls~N  217 (571)
T 3cvr_A          155 LPE---LPTSLEVLSVRNNQLTFLPE-L-----P--ESLEALDVSTN-LLESL-PA-V-PV--RNHHSEETEIFFRCREN  217 (571)
T ss_dssp             CCC---CCTTCCEEECCSSCCSCCCC-C-----C--TTCCEEECCSS-CCSSC-CC-C-C----------CCEEEECCSS
T ss_pred             CCC---cCCCcCEEECCCCCCCCcch-h-----h--CCCCEEECcCC-CCCch-hh-H-HH--hhhcccccceEEecCCC
Confidence            333   45677777777777777766 4     3  77888888864 47777 44 4 32  56       88888776


Q ss_pred             Ccccccc
Q 048213          522 PVLKEII  528 (532)
Q Consensus       522 ~~L~~i~  528 (532)
                      . |+.|+
T Consensus       218 ~-l~~lp  223 (571)
T 3cvr_A          218 R-ITHIP  223 (571)
T ss_dssp             C-CCCCC
T ss_pred             c-ceecC
Confidence            3 44443

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.06  E-value=8.3e-10  Score=108.46  Aligned_cols=178  Identities=12%  Similarity=0.012  Sum_probs=114.1

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEeccC--chhhHHHHHHHHh--
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEES--ESGRARSLCNRLK--  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~~--~~~~~~~l~~~l~--  179 (532)
                      ...++|++..++.+.+++..+..+.+.|+|++|+|||++|+.+++...... .+........+  ..+....+.+.+.  
T Consensus        20 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~   99 (323)
T 1sxj_B           20 LSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQK   99 (323)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHB
T ss_pred             HHHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHHHHHHHHHHhc
Confidence            457999999999999999877666699999999999999999998742211 12222122211  1122222223222  


Q ss_pred             -----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          180 -----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       180 -----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                           .+++.++|+||++..  ..++.+...+.....++.+|+||+...-. .........+.+.+++.++..+++...+
T Consensus       100 ~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~  179 (323)
T 1sxj_B          100 KLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQII  179 (323)
T ss_dssp             CCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             cccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHHHHHHHHH
Confidence                 345899999999864  33444443333334567888888764321 1112223489999999999999998865


Q ss_pred             CCCCCCcchHHHHHHHHHHcCCchHH-HHHHHH
Q 048213          252 GDYIEGSEFKWVAKDVAKKCAGLPVS-IVTVAR  283 (532)
Q Consensus       252 ~~~~~~~~~~~~~~~i~~~c~glPLa-i~~~~~  283 (532)
                      .... ..-.++....|++.|+|.|.. +..+..
T Consensus       180 ~~~~-~~~~~~~~~~l~~~~~G~~r~a~~~l~~  211 (323)
T 1sxj_B          180 KLED-VKYTNDGLEAIIFTAEGDMRQAINNLQS  211 (323)
T ss_dssp             HHHT-CCBCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            4111 112256678999999999954 444443

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A

Probab=99.05  E-value=1.2e-11  Score=112.62  Aligned_cols=106  Identities=21%  Similarity=0.211  Sum_probs=89.7

Q ss_pred             cccccccccEEeecccccccc----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccC
Q 048213          409 VLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGI  484 (532)
Q Consensus       409 ~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L  484 (532)
                      .+.++++|++|++++|.+..+    .+++|++|++++|.+  ...|..+..+++|++|++++|.++.+| .+     ..+
T Consensus        43 ~~~~l~~L~~L~ls~n~l~~l~~~~~l~~L~~L~l~~n~l--~~l~~~~~~~~~L~~L~L~~N~l~~l~-~~-----~~l  114 (198)
T 1ds9_A           43 TLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLI--KKIENLDAVADTLEELWISYNQIASLS-GI-----EKL  114 (198)
T ss_dssp             HHHHTTTCSEEECSEEEESCCCCHHHHTTCCEEEEEEEEE--CSCSSHHHHHHHCSEEEEEEEECCCHH-HH-----HHH
T ss_pred             HHhcCCCCCEEECCCCCCccccccccCCCCCEEECCCCCc--ccccchhhcCCcCCEEECcCCcCCcCC-cc-----ccC
Confidence            789999999999999988877    678999999999987  467777788899999999999999887 34     577


Q ss_pred             CCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCc
Q 048213          485 QNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPV  523 (532)
Q Consensus       485 ~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~  523 (532)
                      ++|++|+|++| .+..+++...++.+++|++|++++|+-
T Consensus       115 ~~L~~L~l~~N-~i~~~~~~~~l~~l~~L~~L~l~~N~l  152 (198)
T 1ds9_A          115 VNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNPL  152 (198)
T ss_dssp             HHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSCHH
T ss_pred             CCCCEEECCCC-cCCchhHHHHHhcCCCCCEEEecCCcc
Confidence            99999999985 478774323337999999999999863

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A

Probab=99.02  E-value=1.2e-10  Score=120.11  Aligned_cols=143  Identities=21%  Similarity=0.144  Sum_probs=96.6

Q ss_pred             HHHHHhhHHhhhhccccc-CCchhhhccccc-------------cEEEeccccccCcccccccccccEEeecccccccc-
Q 048213          365 MEVARARVVIDLTYMNLL-SLPSSLGLLTNL-------------QTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-  429 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~-~lp~~~~~l~~L-------------~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-  429 (532)
                      +..+...+++++.++.+. .+|.+++.+.+|             ++|++++|.+...+.+  .++|++|++++|.++++ 
T Consensus        30 i~~L~~L~~L~l~~n~~~~~~p~~~~~l~~L~~l~l~~c~~~~l~~L~l~~~~l~~lp~~--~~~L~~L~l~~n~l~~lp  107 (454)
T 1jl5_A           30 AENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLSSLPEL--PPHLESLVASCNSLTELP  107 (454)
T ss_dssp             ----CCHHHHHHHHHHHHHTSCTTSCCCHHHHHHHHHHHHHHTCSEEECTTSCCSCCCSC--CTTCSEEECCSSCCSSCC
T ss_pred             HhcccchhhhhccCCcccccCCcccccchhcchhhhhhhhccCCCEEEecCCccccCCCC--cCCCCEEEccCCcCCccc
Confidence            444555577777777765 467777776654             7777777777764433  36788888888877766 


Q ss_pred             -ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhh
Q 048213          430 -GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIIS  508 (532)
Q Consensus       430 -~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~  508 (532)
                       .+++|++|++++|..  ...+..   .++|++|++++|.++.+| ++     .++++|++|++++| .++.+ |..   
T Consensus       108 ~~~~~L~~L~l~~n~l--~~l~~~---~~~L~~L~L~~n~l~~lp-~~-----~~l~~L~~L~l~~N-~l~~l-p~~---  171 (454)
T 1jl5_A          108 ELPQSLKSLLVDNNNL--KALSDL---PPLLEYLGVSNNQLEKLP-EL-----QNSSFLKIIDVDNN-SLKKL-PDL---  171 (454)
T ss_dssp             CCCTTCCEEECCSSCC--SCCCSC---CTTCCEEECCSSCCSSCC-CC-----TTCTTCCEEECCSS-CCSCC-CCC---
T ss_pred             cccCCCcEEECCCCcc--CcccCC---CCCCCEEECcCCCCCCCc-cc-----CCCCCCCEEECCCC-cCccc-CCC---
Confidence             346788888888865  222211   158888999988888877 34     67888999999875 46777 543   


Q ss_pred             cCCCccEEEeecCCccccc
Q 048213          509 SFVGLQCLEICECPVLKEI  527 (532)
Q Consensus       509 ~L~~L~~L~l~~c~~L~~i  527 (532)
                       .++|++|++++|. ++.+
T Consensus       172 -~~~L~~L~L~~n~-l~~l  188 (454)
T 1jl5_A          172 -PPSLEFIAAGNNQ-LEEL  188 (454)
T ss_dssp             -CTTCCEEECCSSC-CSSC
T ss_pred             -cccccEEECcCCc-CCcC
Confidence             3588889888873 4443

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A

Probab=99.02  E-value=9.2e-11  Score=118.57  Aligned_cols=146  Identities=20%  Similarity=0.118  Sum_probs=105.7

Q ss_pred             hhHHhhhhcccccC-----CchhhhccccccEEEeccccccC--cc----ccccc---------ccccEEeecccccccc
Q 048213          370 ARVVIDLTYMNLLS-----LPSSLGLLTNLQTLCLYYCKLQD--TS----VLGEL---------KILEILRLRVNELTRA  429 (532)
Q Consensus       370 ~~~~l~l~~~~l~~-----lp~~~~~l~~L~~L~l~~~~l~~--~~----~i~~l---------~~L~~L~l~~~~l~~~  429 (532)
                      ..+.+++++|.+..     +|..+..+++|++|++++|.+..  +.    .+..+         ++|++|++++|.+...
T Consensus        95 ~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~l~~~~~~~~~~~L~~L~L~~n~l~~~  174 (386)
T 2ca6_A           95 KLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENG  174 (386)
T ss_dssp             TCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGG
T ss_pred             cccEEECCCCcCCHHHHHHHHHHHHhCCCCCEEECcCCCCCHHHHHHHHHHHHHHhhhhhcccCCCCcEEECCCCCCCcH
Confidence            33677888888866     67778888999999999988764  22    23344         8899999999888632


Q ss_pred             ----------ccCCcceEEeccccccCC-----CCCcccccCCCCCEEecCCccc-----ccccccccccccccCCCccE
Q 048213          430 ----------GSSQLKHLSVRGLRASAP-----NPTESEVALPKLETVCLSSINI-----ERIWQNQVAAMSCGIQNLKR  489 (532)
Q Consensus       430 ----------~l~~Lr~L~l~~~~~~~~-----~~~~~~~~l~~L~~L~L~~~~l-----~~lp~~~~~~~~~~L~~L~~  489 (532)
                                .+++|++|++++|++ ..     ..+..+..+++|++|+|++|.+     ..+|..+     ..+++|++
T Consensus       175 ~~~~l~~~l~~~~~L~~L~L~~n~l-~~~g~~~l~~~~l~~~~~L~~L~Ls~n~l~~~g~~~l~~~l-----~~~~~L~~  248 (386)
T 2ca6_A          175 SMKEWAKTFQSHRLLHTVKMVQNGI-RPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIAL-----KSWPNLRE  248 (386)
T ss_dssp             GHHHHHHHHHHCTTCCEEECCSSCC-CHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHG-----GGCTTCCE
T ss_pred             HHHHHHHHHHhCCCcCEEECcCCCC-CHhHHHHHHHHHhhcCCCccEEECcCCCCCcHHHHHHHHHH-----ccCCCcCE
Confidence                      567899999999865 11     1223677889999999999987     4566655     67789999


Q ss_pred             EEeccCCCCCccc----hhhhh-hcCCCccEEEeecCC
Q 048213          490 LILFNCWNLTCLF----TSSII-SSFVGLQCLEICECP  522 (532)
Q Consensus       490 L~L~~c~~l~~l~----p~~~~-~~L~~L~~L~l~~c~  522 (532)
                      |+|++|. +....    +..+. +.+++|++|+|++|.
T Consensus       249 L~L~~n~-i~~~~~~~l~~~l~~~~~~~L~~L~L~~n~  285 (386)
T 2ca6_A          249 LGLNDCL-LSARGAAAVVDAFSKLENIGLQTLRLQYNE  285 (386)
T ss_dssp             EECTTCC-CCHHHHHHHHHHHHTCSSCCCCEEECCSSC
T ss_pred             EECCCCC-CchhhHHHHHHHHhhccCCCeEEEECcCCc
Confidence            9999876 54431    33331 238899999999886

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=99.01  E-value=1.2e-09  Score=96.77  Aligned_cols=82  Identities=11%  Similarity=0.045  Sum_probs=37.4

Q ss_pred             CcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCC
Q 048213          433 QLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVG  512 (532)
Q Consensus       433 ~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~  512 (532)
                      +|++|+|++|.+ ....+..|.++++|++|+|++|.|+.+|+..+    ..+++|++|+|++ +.+..+++..+ +.+++
T Consensus        31 ~l~~L~L~~N~i-~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f----~~l~~L~~L~L~~-N~l~~~~~~~~-~~l~~  103 (170)
T 3g39_A           31 TTQVLYLYDNQI-TKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVF----DKLTQLTQLSLND-NQLKSIPRGAF-DNLKS  103 (170)
T ss_dssp             TCSEEECCSSCC-CCCCTTTTTTCTTCSEEECCSSCCCCCCTTTT----TTCTTCCEEECCS-SCCCCCCTTTT-TTCTT
T ss_pred             CCcEEEcCCCcC-CccChhhhcCcccCCEEECCCCCcCccChhhc----cCCCCCCEEECCC-CccCEeCHHHh-cCCCC
Confidence            344444444443 22223344455555555555555555444431    2345555555554 23444422223 44555


Q ss_pred             ccEEEeecC
Q 048213          513 LQCLEICEC  521 (532)
Q Consensus       513 L~~L~l~~c  521 (532)
                      |++|+|+++
T Consensus       104 L~~L~L~~N  112 (170)
T 3g39_A          104 LTHIWLLNN  112 (170)
T ss_dssp             CCEEECCSS
T ss_pred             CCEEEeCCC
Confidence            555555544

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.00  E-value=3.2e-09  Score=107.00  Aligned_cols=220  Identities=15%  Similarity=0.092  Sum_probs=127.1

Q ss_pred             ccccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhhccC-----CCCEEEEeccC---------
Q 048213          105 YEAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-----LFDRVIFVEES---------  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-----~F~~~~~~~~~---------  166 (532)
                      +..|+||+.+++++..++.    ....+.+.|+|++|+||||+|+.+++......     .+.........         
T Consensus        18 p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   97 (387)
T 2v1u_A           18 PDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVAS   97 (387)
T ss_dssp             CSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHH
Confidence            3679999999999999884    34567899999999999999999998753210     12222211110         


Q ss_pred             ----------------chhhHHHHHHHHh-ccCcEEEEEcCCCCcccc----ccc---ccccCCC--CCCeEEEEeecCh
Q 048213          167 ----------------ESGRARSLCNRLK-KEKMILVILDNIWENLDF----HAV---GIPHGDD--HKGCKVLLTARSL  220 (532)
Q Consensus       167 ----------------~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~~~----~~l---~~~~~~~--~~gs~ilvTtr~~  220 (532)
                                      .......+.+.+. .+++.+||||+++.....    +.+   .......  ..+..+|.||+..
T Consensus        98 ~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~~~  177 (387)
T 2v1u_A           98 AIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSL  177 (387)
T ss_dssp             HHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECSCS
T ss_pred             HHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEECCC
Confidence                            1222344555553 246889999999865321    222   1111111  3456777777765


Q ss_pred             HHh----hh-cCCCC-ceEEccCCCHHHHHHHHHHHhCC-CCCCcchHHHHHHHHHHcC---CchH-HHHHHHHHHc---
Q 048213          221 DVL----SR-KMDSQ-QDFWVGVLKEDEAWSLFKKMAGD-YIEGSEFKWVAKDVAKKCA---GLPV-SIVTVARALR---  286 (532)
Q Consensus       221 ~v~----~~-~~~~~-~~~~l~~L~~~~~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~c~---glPL-ai~~~~~~l~---  286 (532)
                      ...    .. ..... ..+.+.+++.++..+++...+.. .....-.++..+.+++.++   |.|. ++..+.....   
T Consensus       178 ~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l~~a~~~a~  257 (387)
T 2v1u_A          178 GFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIAE  257 (387)
T ss_dssp             TTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHHHHHHHHHH
T ss_pred             chHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHH
Confidence            221    00 01112 47899999999999999887531 0011112345667777777   9994 3333332221   


Q ss_pred             --c--C-ChHHHHHHHHHhcCCCCCCCCCchhHHHHHHHhhcCCCCCchHHHHHHHHh
Q 048213          287 --N--K-RLFDWKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIFLLIG  339 (532)
Q Consensus       287 --~--~-~~~~w~~~l~~~~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f~~la  339 (532)
                        +  . +.+.+..++....              ...+.-++..|+.+ .+..+..++
T Consensus       258 ~~~~~~i~~~~v~~a~~~~~--------------~~~~~~~~~~l~~~-~~~~l~a~~  300 (387)
T 2v1u_A          258 RRREERVRREHVYSARAEIE--------------RDRVSEVVRTLPLH-AKLVLLSIM  300 (387)
T ss_dssp             HTTCSCBCHHHHHHHHHHHH--------------HHHHHHHHHSSCHH-HHHHHHHHH
T ss_pred             HcCCCCcCHHHHHHHHHHHh--------------hchHHHHHHcCCHH-HHHHHHHHH
Confidence              1  1 5666666655432              12344466778887 555555444

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=99.00  E-value=1.6e-10  Score=115.76  Aligned_cols=149  Identities=19%  Similarity=0.186  Sum_probs=94.4

Q ss_pred             hhHHhhhhcccccCC-chhhhcc-----ccccEEEeccccccC--ccc----cccc-ccccEEeecccccccc-------
Q 048213          370 ARVVIDLTYMNLLSL-PSSLGLL-----TNLQTLCLYYCKLQD--TSV----LGEL-KILEILRLRVNELTRA-------  429 (532)
Q Consensus       370 ~~~~l~l~~~~l~~l-p~~~~~l-----~~L~~L~l~~~~l~~--~~~----i~~l-~~L~~L~l~~~~l~~~-------  429 (532)
                      ..+.+++++|.+... +..+..+     ++|++|++++|.+.+  +..    +..+ ++|++|++++|.++..       
T Consensus        52 ~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~  131 (362)
T 3goz_A           52 SVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAIPFTITVLDLGWNDFSSKSSSEFKQ  131 (362)
T ss_dssp             TCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHH
T ss_pred             ceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHHHHhCCCCccEEECcCCcCCcHHHHHHHH
Confidence            345677777777664 4445554     778888888887765  222    3344 7788888888877665       


Q ss_pred             ---c-cCCcceEEeccccccCCCC----CcccccCC-CCCEEecCCcccccccccccccccccC-CCccEEEeccCCCCC
Q 048213          430 ---G-SSQLKHLSVRGLRASAPNP----TESEVALP-KLETVCLSSINIERIWQNQVAAMSCGI-QNLKRLILFNCWNLT  499 (532)
Q Consensus       430 ---~-l~~Lr~L~l~~~~~~~~~~----~~~~~~l~-~L~~L~L~~~~l~~lp~~~~~~~~~~L-~~L~~L~L~~c~~l~  499 (532)
                         . .++|++|+|++|.+ ....    +..+..++ +|++|+|++|.++..+...+......+ ++|++|+|++|. ++
T Consensus       132 ~l~~~~~~L~~L~Ls~N~l-~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~-i~  209 (362)
T 3goz_A          132 AFSNLPASITSLNLRGNDL-GIKSSDELIQILAAIPANVNSLNLRGNNLASKNCAELAKFLASIPASVTSLDLSANL-LG  209 (362)
T ss_dssp             HHTTSCTTCCEEECTTSCG-GGSCHHHHHHHHHTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSC-GG
T ss_pred             HHHhCCCceeEEEccCCcC-CHHHHHHHHHHHhcCCccccEeeecCCCCchhhHHHHHHHHHhCCCCCCEEECCCCC-CC
Confidence               1 25788888888866 2222    22334454 888888888877755443221111234 488888888754 66


Q ss_pred             c-----cchhhhhhc-CCCccEEEeecCC
Q 048213          500 C-----LFTSSIISS-FVGLQCLEICECP  522 (532)
Q Consensus       500 ~-----l~p~~~~~~-L~~L~~L~l~~c~  522 (532)
                      .     + +..+ .. .++|++|+|++|.
T Consensus       210 ~~~~~~l-~~~l-~~~~~~L~~L~Ls~N~  236 (362)
T 3goz_A          210 LKSYAEL-AYIF-SSIPNHVVSLNLCLNC  236 (362)
T ss_dssp             GSCHHHH-HHHH-HHSCTTCCEEECCSSC
T ss_pred             hhHHHHH-HHHH-hcCCCCceEEECcCCC
Confidence            5     5 4444 34 4588888888874

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=99.00  E-value=1.4e-09  Score=96.61  Aligned_cols=101  Identities=15%  Similarity=0.127  Sum_probs=47.5

Q ss_pred             cEEEeccccccC-cccccccccccEEeeccccccccccCCcceEEeccccccCCCCCcccccCCCCCEEecCCccccccc
Q 048213          395 QTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIW  473 (532)
Q Consensus       395 ~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp  473 (532)
                      +.++++++.+.. |..+.  ++|++|++++|++..+                   .+..|.++++|++|+|++|.|+.+|
T Consensus        15 ~~l~~~~n~l~~iP~~~~--~~L~~L~Ls~N~l~~~-------------------~~~~~~~l~~L~~L~Ls~N~l~~i~   73 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKL-------------------EPGVFDHLVNLQQLYFNSNKLTAIP   73 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCC-------------------CTTTTTTCTTCCEEECCSSCCCCCC
T ss_pred             cEEEeCCCCCCccCCCcC--CCCcEEEeCCCCcccc-------------------CHHHhcCCcCCCEEECCCCCCCccC
Confidence            455555555554 22232  4555555555554443                   2334445555555555555555544


Q ss_pred             ccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          474 QNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       474 ~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      ..++    .++++|++|+|++ +.+..+++..+ +.+++|++|+|++++
T Consensus        74 ~~~~----~~l~~L~~L~L~~-N~l~~l~~~~~-~~l~~L~~L~L~~N~  116 (174)
T 2r9u_A           74 TGVF----DKLTQLTQLDLND-NHLKSIPRGAF-DNLKSLTHIYLYNNP  116 (174)
T ss_dssp             TTTT----TTCTTCCEEECCS-SCCCCCCTTTT-TTCTTCSEEECCSSC
T ss_pred             hhHh----CCcchhhEEECCC-CccceeCHHHh-ccccCCCEEEeCCCC
Confidence            4431    2345555555554 33444422223 445555555555443

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C*

Probab=98.95  E-value=1.3e-09  Score=108.65  Aligned_cols=149  Identities=17%  Similarity=0.133  Sum_probs=99.9

Q ss_pred             hhhhcccccCCchhhhccccccEEEeccccccCc--ccccccccccEEeecccccccc-------ccCCcce-EEecccc
Q 048213          374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDT--SVLGELKILEILRLRVNELTRA-------GSSQLKH-LSVRGLR  443 (532)
Q Consensus       374 l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~--~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~-L~l~~~~  443 (532)
                      ++..+++++++|..+  .+++++|++++|+++.+  ..+.++++|++|+|++|++.+.       .+++|+. +.+.+|+
T Consensus        14 v~C~~~~Lt~iP~~l--~~~l~~L~Ls~N~i~~i~~~~f~~l~~L~~L~Ls~N~i~~~i~~~~f~~L~~l~~~l~~~~N~   91 (350)
T 4ay9_X           14 FLCQESKVTEIPSDL--PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANN   91 (350)
T ss_dssp             EEEESTTCCSCCTTC--CTTCSEEEEESCCCSEECTTSSTTCTTCCEEEEECCTTCCEECTTSBCSCTTCCEEEEEEETT
T ss_pred             EEecCCCCCccCcCc--CCCCCEEEccCCcCCCcCHHHHcCCCCCCEEECcCCCCCCccChhHhhcchhhhhhhcccCCc
Confidence            455667788999876  46899999999999983  3589999999999999987543       4666665 4455565


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccccc--------------------cccc-cC-CCccEEEeccCCCCCcc
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQVA--------------------AMSC-GI-QNLKRLILFNCWNLTCL  501 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~--------------------~~~~-~L-~~L~~L~L~~c~~l~~l  501 (532)
                      . ..-.+..|.++++|++|++++|.++.+|+....                    ...+ .+ ..|++|+|++ +.++.+
T Consensus        92 l-~~l~~~~f~~l~~L~~L~l~~n~l~~~~~~~~~~~~~l~~l~l~~~~~i~~l~~~~f~~~~~~l~~L~L~~-N~i~~i  169 (350)
T 4ay9_X           92 L-LYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK-NGIQEI  169 (350)
T ss_dssp             C-CEECTTSBCCCTTCCEEEEEEECCSSCCCCTTCCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCS-SCCCEE
T ss_pred             c-cccCchhhhhccccccccccccccccCCchhhcccchhhhhhhccccccccccccchhhcchhhhhhcccc-ccccCC
Confidence            5 344567789999999999999999887764310                    0000 11 2355555554 335555


Q ss_pred             chhhhhhcCCCccEEEeecCCcccccc
Q 048213          502 FTSSIISSFVGLQCLEICECPVLKEII  528 (532)
Q Consensus       502 ~p~~~~~~L~~L~~L~l~~c~~L~~i~  528 (532)
                       |... ....+|++|++++++.++.|.
T Consensus       170 -~~~~-f~~~~L~~l~l~~~n~l~~i~  194 (350)
T 4ay9_X          170 -HNSA-FNGTQLDELNLSDNNNLEELP  194 (350)
T ss_dssp             -CTTS-STTEEEEEEECTTCTTCCCCC
T ss_pred             -Chhh-ccccchhHHhhccCCcccCCC
Confidence             3322 134556666666666666554

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp}

Probab=98.94  E-value=3.8e-10  Score=113.01  Aligned_cols=150  Identities=15%  Similarity=0.131  Sum_probs=104.9

Q ss_pred             hHHhhhhcccccCCc-----hhhhccc-cccEEEeccccccC--ccccccc-----ccccEEeecccccccc--------
Q 048213          371 RVVIDLTYMNLLSLP-----SSLGLLT-NLQTLCLYYCKLQD--TSVLGEL-----KILEILRLRVNELTRA--------  429 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp-----~~~~~l~-~L~~L~l~~~~l~~--~~~i~~l-----~~L~~L~l~~~~l~~~--------  429 (532)
                      .+.+++++|.+...+     ..+..++ +|++|++++|.+.+  +..+..+     ++|++|++++|.++..        
T Consensus        24 L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~l~~~~~~~l~~~  103 (362)
T 3goz_A           24 VTSLDLSLNNLYSISTVELIQAFANTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKT  103 (362)
T ss_dssp             CCEEECTTSCGGGSCHHHHHHHHHTCCTTCCEEECCSSCGGGSCHHHHHHHHHTSCTTCCEEECCSSCGGGSCHHHHHHH
T ss_pred             ceEEEccCCCCChHHHHHHHHHHHhCCCceeEEECcCCCCCHHHHHHHHHHHhccCCCccEEECcCCcCChHHHHHHHHH
Confidence            356788888887765     4577788 89999999998877  4455554     8999999999988765        


Q ss_pred             --cc-CCcceEEeccccccCCCCCccc----ccC-CCCCEEecCCcccccccccccccccccCC-CccEEEeccCCCCCc
Q 048213          430 --GS-SQLKHLSVRGLRASAPNPTESE----VAL-PKLETVCLSSINIERIWQNQVAAMSCGIQ-NLKRLILFNCWNLTC  500 (532)
Q Consensus       430 --~l-~~Lr~L~l~~~~~~~~~~~~~~----~~l-~~L~~L~L~~~~l~~lp~~~~~~~~~~L~-~L~~L~L~~c~~l~~  500 (532)
                        .+ ++|++|++++|.+ ....+..+    ..+ ++|++|+|++|.++......++.....++ +|++|+|++|. ++.
T Consensus       104 l~~~~~~L~~L~Ls~N~l-~~~~~~~l~~~l~~~~~~L~~L~Ls~N~l~~~~~~~l~~~l~~~~~~L~~L~Ls~n~-l~~  181 (362)
T 3goz_A          104 LAAIPFTITVLDLGWNDF-SSKSSSEFKQAFSNLPASITSLNLRGNDLGIKSSDELIQILAAIPANVNSLNLRGNN-LAS  181 (362)
T ss_dssp             HHTSCTTCCEEECCSSCG-GGSCHHHHHHHHTTSCTTCCEEECTTSCGGGSCHHHHHHHHHTSCTTCCEEECTTSC-GGG
T ss_pred             HHhCCCCccEEECcCCcC-CcHHHHHHHHHHHhCCCceeEEEccCCcCCHHHHHHHHHHHhcCCccccEeeecCCC-Cch
Confidence              23 7899999999977 33333332    332 58999999999887322221111113444 89999999865 665


Q ss_pred             cchhhhh---hcC-CCccEEEeecCC
Q 048213          501 LFTSSII---SSF-VGLQCLEICECP  522 (532)
Q Consensus       501 l~p~~~~---~~L-~~L~~L~l~~c~  522 (532)
                      ..+..+.   ..+ ++|++|+|++|.
T Consensus       182 ~~~~~l~~~l~~~~~~L~~L~Ls~N~  207 (362)
T 3goz_A          182 KNCAELAKFLASIPASVTSLDLSANL  207 (362)
T ss_dssp             SCHHHHHHHHHTSCTTCCEEECTTSC
T ss_pred             hhHHHHHHHHHhCCCCCCEEECCCCC
Confidence            5454331   344 599999999886

>2r9u_A Variable lymphocyte receptor; adaptive immunity, VLR, leucine-rich repeat, LRR, system; 2.10A {Petromyzon marinus}

Probab=98.93  E-value=1.6e-09  Score=96.32  Aligned_cols=100  Identities=20%  Similarity=0.232  Sum_probs=76.7

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      ..+++.++.+..+|..+.  ++|++|++++|.+..  +..+.++++|++|+|++|+++.+      .+++|++|+|++|+
T Consensus        15 ~~l~~~~n~l~~iP~~~~--~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~Ls~N~l~~i~~~~~~~l~~L~~L~L~~N~   92 (174)
T 2r9u_A           15 TLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNH   92 (174)
T ss_dssp             SEEECCSSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSC
T ss_pred             cEEEeCCCCCCccCCCcC--CCCcEEEeCCCCccccCHHHhcCCcCCCEEECCCCCCCccChhHhCCcchhhEEECCCCc
Confidence            357888889999998764  899999999999988  45688999999999999988776      45677777777776


Q ss_pred             ccCCCCCc-ccccCCCCCEEecCCccccccccc
Q 048213          444 ASAPNPTE-SEVALPKLETVCLSSINIERIWQN  475 (532)
Q Consensus       444 ~~~~~~~~-~~~~l~~L~~L~L~~~~l~~lp~~  475 (532)
                      +  ...+. .+..+++|++|+|++|.+...|..
T Consensus        93 l--~~l~~~~~~~l~~L~~L~L~~N~~~c~~~~  123 (174)
T 2r9u_A           93 L--KSIPRGAFDNLKSLTHIYLYNNPWDCECRD  123 (174)
T ss_dssp             C--CCCCTTTTTTCTTCSEEECCSSCBCTTBGG
T ss_pred             c--ceeCHHHhccccCCCEEEeCCCCccccccc
Confidence            5  33333 467777777777777777665543

>3g39_A Variable lymphocyte receptor VLRB.2D; antibody, X-RAY, crystallography, immune system; 1.55A {Petromyzon marinus} PDB: 3g3a_A 3g3b_A 3twi_D

Probab=98.92  E-value=2.1e-09  Score=95.20  Aligned_cols=97  Identities=26%  Similarity=0.279  Sum_probs=56.2

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEeccccc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRA  444 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~  444 (532)
                      .++++++.+..+|..+.  ++|++|++++|.+..  +..+..+++|++|+|++|+++.+      .+++|++|+|++|++
T Consensus        13 ~l~~s~n~l~~ip~~~~--~~l~~L~L~~N~i~~~~~~~~~~l~~L~~L~Ls~N~l~~l~~~~f~~l~~L~~L~L~~N~l   90 (170)
T 3g39_A           13 TVDCSGKSLASVPTGIP--TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQL   90 (170)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCSEEECCSSCCCCCCTTTTTTCTTCSEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             EEEeCCCCcCccCccCC--CCCcEEEcCCCcCCccChhhhcCcccCCEEECCCCCcCccChhhccCCCCCCEEECCCCcc
Confidence            35666666767776553  667777777777766  33466677777777776666554      345555555555544


Q ss_pred             cCCCCCcccccCCCCCEEecCCcccccc
Q 048213          445 SAPNPTESEVALPKLETVCLSSINIERI  472 (532)
Q Consensus       445 ~~~~~~~~~~~l~~L~~L~L~~~~l~~l  472 (532)
                       ....+..+.++++|++|+|++|.+...
T Consensus        91 -~~~~~~~~~~l~~L~~L~L~~N~~~c~  117 (170)
T 3g39_A           91 -KSIPRGAFDNLKSLTHIWLLNNPWDCA  117 (170)
T ss_dssp             -CCCCTTTTTTCTTCCEEECCSSCBCTT
T ss_pred             -CEeCHHHhcCCCCCCEEEeCCCCCCCC
Confidence             222222355555555555555544433

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.91  E-value=5.2e-09  Score=102.94  Aligned_cols=180  Identities=11%  Similarity=0.025  Sum_probs=113.8

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEeccCc---hhhHHHHHHHHh-
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEESE---SGRARSLCNRLK-  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~~~---~~~~~~l~~~l~-  179 (532)
                      ...++|+++.++.+.+++..+..+.+.++|++|+||||+|+.+++...... .+........+.   ......+.+... 
T Consensus        24 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (327)
T 1iqp_A           24 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFART  103 (327)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHHHHS
T ss_pred             HHHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHHHHHHHHhh
Confidence            356899999999999998877666699999999999999999998743211 011111221111   111122222221 


Q ss_pred             ----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          180 ----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       180 ----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                          .+++.++|+||++..  ..++.+...+.....++++|+||...... .........+.+.+++.++..+++...+.
T Consensus       104 ~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~~~l~~~~~  183 (327)
T 1iqp_A          104 KPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAE  183 (327)
T ss_dssp             CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             CCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHHHHHHHHHH
Confidence                146789999999865  33444433333334577888888765321 11111224789999999999999988764


Q ss_pred             CCCCCcchHHHHHHHHHHcCCchHHHHHHHHHH
Q 048213          253 DYIEGSEFKWVAKDVAKKCAGLPVSIVTVARAL  285 (532)
Q Consensus       253 ~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  285 (532)
                      ... ..-..+....|++.++|.|..+..+...+
T Consensus       184 ~~~-~~~~~~~~~~l~~~~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          184 NEG-LELTEEGLQAILYIAEGDMRRAINILQAA  215 (327)
T ss_dssp             TTT-CEECHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hcC-CCCCHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            221 11235677889999999998665544433

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=98.82  E-value=2.7e-09  Score=87.08  Aligned_cols=45  Identities=9%  Similarity=-0.023  Sum_probs=39.6

Q ss_pred             ccccccchhhhcc-ccchHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 048213            4 SKESEVDEPKRRE-EEIEEYVEKCRASVNDVIDEAEKFIGVDARAN   48 (532)
Q Consensus         4 r~q~~l~~a~~~~-~~~~~~~~~Wl~~l~~~ayd~ed~ld~~~~~~   48 (532)
                      .||++|.||+.+. ...+++++.|++++|++|||+||+||+|.+..
T Consensus        37 ~m~a~L~da~~~~~~~~d~~vk~W~~~vrdlaYD~ED~iD~f~~~~   82 (115)
T 3qfl_A           37 SMNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVVDKFLVQV   82 (115)
T ss_dssp             HHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5899999998873 35789999999999999999999999997643

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.79  E-value=5.1e-08  Score=98.24  Aligned_cols=176  Identities=13%  Similarity=0.103  Sum_probs=108.5

Q ss_pred             cccccchHHHHHHHHHhcC----CCce--EEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccC-------------
Q 048213          106 EAFESRMSTFNDILNALKS----PDVN--MLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEES-------------  166 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~----~~~~--vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~-------------  166 (532)
                      ..++||+.+++++..++..    ....  .+.|+|++|+||||||+.+++.......+.........             
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~   96 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIAR   96 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHHHHHH
Confidence            6799999999999988863    3334  89999999999999999999876543123322211111             


Q ss_pred             ------------chhhHHHHHHHHh-ccCcEEEEEcCCCCc--ccccccccccCC-CC---CCeEEEEeecChHHhhhcC
Q 048213          167 ------------ESGRARSLCNRLK-KEKMILVILDNIWEN--LDFHAVGIPHGD-DH---KGCKVLLTARSLDVLSRKM  227 (532)
Q Consensus       167 ------------~~~~~~~l~~~l~-~~k~~LlVlDdv~~~--~~~~~l~~~~~~-~~---~gs~ilvTtr~~~v~~~~~  227 (532)
                                  .......+.+.+. .+++.+||+|+++..  .....+...+.. ..   .+..+|++|+.........
T Consensus        97 ~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~~~l~  176 (389)
T 1fnn_A           97 SLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLD  176 (389)
T ss_dssp             HTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSC
T ss_pred             HhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHHHHhC
Confidence                        1112233333333 246789999999875  223333222211 11   4677888887764332111


Q ss_pred             C------CCceEEccCCCHHHHHHHHHHHhCC-CCCCcchHHHHHHHHHHc---------CCchHHHHHH
Q 048213          228 D------SQQDFWVGVLKEDEAWSLFKKMAGD-YIEGSEFKWVAKDVAKKC---------AGLPVSIVTV  281 (532)
Q Consensus       228 ~------~~~~~~l~~L~~~~~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~c---------~glPLai~~~  281 (532)
                      .      ....+.+.+++.++..+++...+.. .....-.++....+++.+         +|.|..+..+
T Consensus       177 ~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~  246 (389)
T 1fnn_A          177 PSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDI  246 (389)
T ss_dssp             HHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHH
T ss_pred             HHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHH
Confidence            0      1136999999999999999887531 001122356778889988         7877544433

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=98.77  E-value=1.2e-09  Score=112.86  Aligned_cols=147  Identities=20%  Similarity=0.155  Sum_probs=90.7

Q ss_pred             HHhhhhcccccCC-----chh-hhccccccEEEeccccccC------cccccccccccEEeecccccccc----------
Q 048213          372 VVIDLTYMNLLSL-----PSS-LGLLTNLQTLCLYYCKLQD------TSVLGELKILEILRLRVNELTRA----------  429 (532)
Q Consensus       372 ~~l~l~~~~l~~l-----p~~-~~~l~~L~~L~l~~~~l~~------~~~i~~l~~L~~L~l~~~~l~~~----------  429 (532)
                      +.+++.+|.+...     ++. +..+++|++|++++|.+..      +..+.++++|++|++++|.+...          
T Consensus       230 ~~L~Ls~n~l~~~~~~~l~~~~~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~  309 (461)
T 1z7x_W          230 RELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLL  309 (461)
T ss_dssp             CEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHT
T ss_pred             cEEeccCCcCChHHHHHHHHHHhcCCCCceEEECcCCCCCHHHHHHHHHHHhhCCCcceEECCCCCCchHHHHHHHHHhc
Confidence            4556666655331     122 2346777778877777665      23455677788888887776543          


Q ss_pred             -ccCCcceEEeccccccCCC----CCcccccCCCCCEEecCCcccccccccccccccc-cCCCccEEEeccCCCCC----
Q 048213          430 -GSSQLKHLSVRGLRASAPN----PTESEVALPKLETVCLSSINIERIWQNQVAAMSC-GIQNLKRLILFNCWNLT----  499 (532)
Q Consensus       430 -~l~~Lr~L~l~~~~~~~~~----~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~-~L~~L~~L~L~~c~~l~----  499 (532)
                       ..++|++|++++|.+ ...    .+..+..+++|++|+|++|.++......+..... ..++|++|+|++|. +.    
T Consensus       310 ~~~~~L~~L~L~~n~l-~~~~~~~l~~~l~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~-i~~~~~  387 (461)
T 1z7x_W          310 EPGCQLESLWVKSCSF-TAACCSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCD-VSDSSC  387 (461)
T ss_dssp             STTCCCCEEECTTSCC-BGGGHHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSC-CCHHHH
T ss_pred             cCCccceeeEcCCCCC-chHHHHHHHHHHhhCCCccEEEccCCccccccHHHHHHHHcCCCCceEEEECCCCC-CChhhH
Confidence             225788888888765 222    2344566788888888888766542221111001 14688888888764 55    


Q ss_pred             -ccchhhhhhcCCCccEEEeecCC
Q 048213          500 -CLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       500 -~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                       .+ |..+ ..+++|++|++++|+
T Consensus       388 ~~l-~~~l-~~~~~L~~L~l~~N~  409 (461)
T 1z7x_W          388 SSL-AATL-LANHSLRELDLSNNC  409 (461)
T ss_dssp             HHH-HHHH-HHCCCCCEEECCSSS
T ss_pred             HHH-HHHH-HhCCCccEEECCCCC
Confidence             45 5555 678888888888875

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I

Probab=98.76  E-value=2.2e-09  Score=110.91  Aligned_cols=148  Identities=20%  Similarity=0.149  Sum_probs=65.5

Q ss_pred             HHhhhhccccc-----CCchhhhccccccEEEeccccccC--cccc-cccc----cccEEeecccccccc----------
Q 048213          372 VVIDLTYMNLL-----SLPSSLGLLTNLQTLCLYYCKLQD--TSVL-GELK----ILEILRLRVNELTRA----------  429 (532)
Q Consensus       372 ~~l~l~~~~l~-----~lp~~~~~l~~L~~L~l~~~~l~~--~~~i-~~l~----~L~~L~l~~~~l~~~----------  429 (532)
                      +.+++.+|.+.     .++..+..+++|++|++++|.+.+  +..+ ..++    +|++|++++|.+...          
T Consensus        31 ~~L~L~~~~l~~~~~~~l~~~l~~~~~L~~L~Ls~n~l~~~~~~~l~~~l~~~~~~L~~L~L~~n~i~~~~~~~l~~~l~  110 (461)
T 1z7x_W           31 QVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLR  110 (461)
T ss_dssp             SEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCBGGGHHHHHHHTT
T ss_pred             cEEEccCCCCCHHHHHHHHHHHHhCCCcCEEeCCCCcCChHHHHHHHHHHhhCCCceeEEEccCCCCCHHHHHHHHHHHc
Confidence            44555555544     234445555555555555555443  2111 1233    455555555555421          


Q ss_pred             ccCCcceEEeccccccCCCCCccc-----ccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchh
Q 048213          430 GSSQLKHLSVRGLRASAPNPTESE-----VALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTS  504 (532)
Q Consensus       430 ~l~~Lr~L~l~~~~~~~~~~~~~~-----~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~  504 (532)
                      .+++|++|++++|.+ ....+..+     ...++|++|+|++|.++......++.....+++|++|++++|. +....+.
T Consensus       111 ~~~~L~~L~Ls~n~i-~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~-i~~~~~~  188 (461)
T 1z7x_W          111 TLPTLQELHLSDNLL-GDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNND-INEAGVR  188 (461)
T ss_dssp             SCTTCCEEECCSSBC-HHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGGHHHHHHHHHHCTTCCEEECCSSB-CHHHHHH
T ss_pred             cCCceeEEECCCCcC-chHHHHHHHHHHhcCCCcceEEECCCCCCCHHHHHHHHHHHhhCCCCCEEECcCCC-cchHHHH
Confidence            445555555555543 11111111     1233455556555554432211111111344566666666544 3332122


Q ss_pred             hhhh----cCCCccEEEeecC
Q 048213          505 SIIS----SFVGLQCLEICEC  521 (532)
Q Consensus       505 ~~~~----~L~~L~~L~l~~c  521 (532)
                      .+..    .+++|++|++++|
T Consensus       189 ~l~~~l~~~~~~L~~L~L~~n  209 (461)
T 1z7x_W          189 VLCQGLKDSPCQLEALKLESC  209 (461)
T ss_dssp             HHHHHHHHSCCCCCEEECTTS
T ss_pred             HHHHHHhcCCCCceEEEccCC
Confidence            2211    2446666666666

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.74  E-value=1.4e-07  Score=92.18  Aligned_cols=178  Identities=9%  Similarity=-0.012  Sum_probs=112.7

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEecc---CchhhHHHHHHHH--
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEE---SESGRARSLCNRL--  178 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~---~~~~~~~~l~~~l--  178 (532)
                      ...++|++..++.+.+++..+..+.+.++|++|+|||++|+.+++...... .+........   ........+....  
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (319)
T 2chq_A           16 LDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFART   95 (319)
T ss_dssp             GGGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHHHHHHHS
T ss_pred             HHHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHHHHHHhc
Confidence            456899999999999988877666699999999999999999988642110 0111111111   1111112222222  


Q ss_pred             ---hccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          179 ---KKEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       179 ---~~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                         ..+++.++|+|+++..  ...+.+...+.....++.+|+||....-. .........+.+.+++.++..+++...+.
T Consensus        96 ~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~l~~~~~  175 (319)
T 2chq_A           96 APIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICE  175 (319)
T ss_dssp             CCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHHHHHHHH
T ss_pred             CCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHHHHHHHH
Confidence               1246789999999765  33444544444344577888888765421 11122234899999999999999987764


Q ss_pred             CCCCCcchHHHHHHHHHHcCCchHHHHHHHH
Q 048213          253 DYIEGSEFKWVAKDVAKKCAGLPVSIVTVAR  283 (532)
Q Consensus       253 ~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  283 (532)
                      .... .-..+....++..++|.+..+.....
T Consensus       176 ~~~~-~i~~~~l~~l~~~~~G~~r~~~~~l~  205 (319)
T 2chq_A          176 KEGV-KITEDGLEALIYISGGDFRKAINALQ  205 (319)
T ss_dssp             TTCC-CBCHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             HcCC-CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            2211 12356678889999999876554443

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.73  E-value=1.4e-07  Score=94.52  Aligned_cols=177  Identities=12%  Similarity=0.127  Sum_probs=112.6

Q ss_pred             cccccchHHHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhccCC--------------------CCEEEEec
Q 048213          106 EAFESRMSTFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENEKL--------------------FDRVIFVE  164 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~--------------------F~~~~~~~  164 (532)
                      ..++|++..++.+.+++..+. ...+.|+|+.|+||||+|+.+++.......                    .+......
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDA   95 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCSSCEEEET
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCCceEEecc
Confidence            468999999999999887554 357899999999999999999886543211                    11111111


Q ss_pred             c--CchhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChHH-hhhcCCCCceEEc
Q 048213          165 E--SESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLDV-LSRKMDSQQDFWV  235 (532)
Q Consensus       165 ~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~v-~~~~~~~~~~~~l  235 (532)
                      .  ...+....+.+.+.    .+++.++|+||++..  ..++.+...+.....+..+|++|....- ..........+.+
T Consensus        96 ~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~sr~~~i~~  175 (373)
T 1jr3_A           96 ASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHL  175 (373)
T ss_dssp             TCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHTTSEEEEC
T ss_pred             cccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHhheeEeeC
Confidence            1  11123344444443    246789999999764  2344443333333446677777765432 1112223368899


Q ss_pred             cCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHH
Q 048213          236 GVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVAR  283 (532)
Q Consensus       236 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  283 (532)
                      .+++.++..+++...+.... ..-..+....|++.++|.|..+..+..
T Consensus       176 ~~l~~~~~~~~l~~~~~~~~-~~~~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          176 KALDVEQIRHQLEHILNEEH-IAHEPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             CCCCHHHHHHHHHHHHHHHT-CCBCHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            99999999999987653111 112255678899999999987766543

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.70  E-value=1.4e-07  Score=92.48  Aligned_cols=175  Identities=11%  Similarity=0.038  Sum_probs=109.1

Q ss_pred             ccccccchHHHHHHHHHhc-----CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHh
Q 048213          105 YEAFESRMSTFNDILNALK-----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLK  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~-----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~  179 (532)
                      ...|+|++..++.+..++.     ......+.|+|++|+|||++|+.+++.....  |  ..... ........+...+.
T Consensus        11 ~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~--~--~~~~~-~~~~~~~~l~~~l~   85 (324)
T 1hqc_A           11 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN--L--RVTSG-PAIEKPGDLAAILA   85 (324)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCC--E--EEECT-TTCCSHHHHHHHHT
T ss_pred             HHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCC--E--EEEec-cccCChHHHHHHHH
Confidence            4579999999988888775     2345678999999999999999999865422  2  21111 11112334444444


Q ss_pred             c--cCcEEEEEcCCCCcc--cccccccccCC------------------CCCCeEEEEeecChHHh-hhcC-CCCceEEc
Q 048213          180 K--EKMILVILDNIWENL--DFHAVGIPHGD------------------DHKGCKVLLTARSLDVL-SRKM-DSQQDFWV  235 (532)
Q Consensus       180 ~--~k~~LlVlDdv~~~~--~~~~l~~~~~~------------------~~~gs~ilvTtr~~~v~-~~~~-~~~~~~~l  235 (532)
                      .  .+..+|++|++....  ....+...+..                  ...+..+|.||...... .... .....+.+
T Consensus        86 ~~~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l  165 (324)
T 1hqc_A           86 NSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHL  165 (324)
T ss_dssp             TTCCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEEC
T ss_pred             HhccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEec
Confidence            3  466899999998652  11111100000                  01235567666644321 1111 12358999


Q ss_pred             cCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHH
Q 048213          236 GVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARAL  285 (532)
Q Consensus       236 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  285 (532)
                      .+++.++..+++...+.... ..-..+....++..++|.|..+..+...+
T Consensus       166 ~~~~~~e~~~~l~~~~~~~~-~~~~~~~~~~l~~~~~G~~r~l~~~l~~~  214 (324)
T 1hqc_A          166 EYYTPEELAQGVMRDARLLG-VRITEEAALEIGRRSRGTMRVAKRLFRRV  214 (324)
T ss_dssp             CCCCHHHHHHHHHHHHHTTT-CCCCHHHHHHHHHHSCSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            99999999999988764221 12235678899999999998877666544

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.66  E-value=3.6e-08  Score=88.48  Aligned_cols=142  Identities=13%  Similarity=0.120  Sum_probs=83.0

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC------CCCEEEEec-------cCchh--
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK------LFDRVIFVE-------ESESG--  169 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~------~F~~~~~~~-------~~~~~--  169 (532)
                      ...++||+++++++.+++.....+.+.|+|++|+|||++|+.+++......      .........       .....  
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (195)
T 1jbk_A           21 LDPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFE  100 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHH
T ss_pred             ccccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhccCCccccHH
Confidence            456899999999999999877777889999999999999999998753210      122121110       01111  


Q ss_pred             -hHHHHHHHH-hccCcEEEEEcCCCCcc---------cccccccccCCCCCCeEEEEeecChHHh------hhcCCCCce
Q 048213          170 -RARSLCNRL-KKEKMILVILDNIWENL---------DFHAVGIPHGDDHKGCKVLLTARSLDVL------SRKMDSQQD  232 (532)
Q Consensus       170 -~~~~l~~~l-~~~k~~LlVlDdv~~~~---------~~~~l~~~~~~~~~gs~ilvTtr~~~v~------~~~~~~~~~  232 (532)
                       ....+.+.+ ..++..+||+||++...         .+..+...+.. ..+..+|.||......      .........
T Consensus       101 ~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~-~~~~~~i~~~~~~~~~~~~~~~~~l~~r~~~  179 (195)
T 1jbk_A          101 ERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-RGELHCVGATTLDEYRQYIEKDAALERRFQK  179 (195)
T ss_dssp             HHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-TTSCCEEEEECHHHHHHHTTTCHHHHTTEEE
T ss_pred             HHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhc-cCCeEEEEeCCHHHHHHHHhcCHHHHHHhce
Confidence             122233323 23567899999997642         11111111111 2244567766654421      111122236


Q ss_pred             EEccCCCHHHHHHHH
Q 048213          233 FWVGVLKEDEAWSLF  247 (532)
Q Consensus       233 ~~l~~L~~~~~~~Lf  247 (532)
                      +.+.+++.++..+++
T Consensus       180 i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          180 VFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EECCCCCHHHHHTTC
T ss_pred             eecCCCCHHHHHHHh
Confidence            788888887776543

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.66  E-value=2.8e-09  Score=106.75  Aligned_cols=148  Identities=14%  Similarity=0.072  Sum_probs=95.6

Q ss_pred             HHhhhhcccccCCc-hhhhc-----cccccEEEeccccccC--cc-cccccccccEEeecccccccc-----------cc
Q 048213          372 VVIDLTYMNLLSLP-SSLGL-----LTNLQTLCLYYCKLQD--TS-VLGELKILEILRLRVNELTRA-----------GS  431 (532)
Q Consensus       372 ~~l~l~~~~l~~lp-~~~~~-----l~~L~~L~l~~~~l~~--~~-~i~~l~~L~~L~l~~~~l~~~-----------~l  431 (532)
                      +.+++.+|.+.... ..+..     ..+|+.|++++|.+.+  +. ....+++|++|+|++|.++..           ..
T Consensus        75 ~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l~~~~~~~L~~~L~~~~  154 (372)
T 3un9_A           75 RQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSLGPEACKDLRDLLLHDQ  154 (372)
T ss_dssp             CEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCCCHHHHHHHHHHHHSTT
T ss_pred             CEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCCCHHHHHHHHHHHHhcC
Confidence            45677777765421 12222     2688999999988765  22 334567889999999988654           24


Q ss_pred             CCcceEEeccccccCC----CCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccc----h
Q 048213          432 SQLKHLSVRGLRASAP----NPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLF----T  503 (532)
Q Consensus       432 ~~Lr~L~l~~~~~~~~----~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~----p  503 (532)
                      ++|++|+|++|.+ ..    .....+...++|++|+|++|.|....-..+.......++|++|+|++|. ++...    +
T Consensus       155 ~~L~~L~Ls~n~l-~~~~~~~l~~~L~~~~~L~~L~Ls~N~l~~~g~~~L~~~L~~~~~L~~L~Ls~N~-i~~~g~~~l~  232 (372)
T 3un9_A          155 CQITTLRLSNNPL-TAAGVAVLMEGLAGNTSVTHLSLLHTGLGDEGLELLAAQLDRNRQLQELNVAYNG-AGDTAALALA  232 (372)
T ss_dssp             CCCCEEECCSSCC-HHHHHHHHHHHHHTCSSCCEEECTTSSCHHHHHHHHHHHGGGCSCCCEEECCSSC-CCHHHHHHHH
T ss_pred             CccceeeCCCCCC-ChHHHHHHHHHHhcCCCcCEEeCCCCCCCcHHHHHHHHHHhcCCCcCeEECCCCC-CCHHHHHHHH
Confidence            6799999998865 11    1223446678899999999977643211111111455789999998865 55432    2


Q ss_pred             hhhhhcCCCccEEEeecCC
Q 048213          504 SSIISSFVGLQCLEICECP  522 (532)
Q Consensus       504 ~~~~~~L~~L~~L~l~~c~  522 (532)
                      ..+ ...++|++|+|++|+
T Consensus       233 ~~L-~~~~~L~~L~Ls~N~  250 (372)
T 3un9_A          233 RAA-REHPSLELLHLYFNE  250 (372)
T ss_dssp             HHH-HHCSSCCEEECTTSS
T ss_pred             HHH-HhCCCCCEEeccCCC
Confidence            222 456889999998885

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.65  E-value=3.2e-08  Score=98.22  Aligned_cols=95  Identities=22%  Similarity=0.104  Sum_probs=61.7

Q ss_pred             hhhhcc-cccCCchhhhccccccEEEecc-ccccC-c-ccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          374 IDLTYM-NLLSLPSSLGLLTNLQTLCLYY-CKLQD-T-SVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       374 l~l~~~-~l~~lp~~~~~l~~L~~L~l~~-~~l~~-~-~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      ++..++ .+..+|. +..+++|++|+|++ |.+.. + ..+..+++|++|+|++|++..+      .+++|++|+|++|+
T Consensus        13 v~~~~~n~l~~ip~-l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l~~~~~~~~~~l~~L~~L~l~~N~   91 (347)
T 2ifg_A           13 LRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA   91 (347)
T ss_dssp             EECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EEcCCCCCCCccCC-CCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCccceeCHHHhcCCcCCCEEeCCCCc
Confidence            355565 6777888 88888888888885 77777 2 4577888888888888877665      45566666666665


Q ss_pred             ccCCCCCcccccCCCCCEEecCCccccc
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIER  471 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~  471 (532)
                      + ....+..+..++ |++|+|.+|.+..
T Consensus        92 l-~~~~~~~~~~~~-L~~l~l~~N~~~c  117 (347)
T 2ifg_A           92 L-ESLSWKTVQGLS-LQELVLSGNPLHC  117 (347)
T ss_dssp             C-SCCCSTTTCSCC-CCEEECCSSCCCC
T ss_pred             c-ceeCHHHcccCC-ceEEEeeCCCccC
Confidence            5 222222333333 6666666665554

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.61  E-value=4e-07  Score=87.58  Aligned_cols=175  Identities=16%  Similarity=0.172  Sum_probs=103.9

Q ss_pred             ccccccccchHHHHHHHHHhcC-------------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe---ccC
Q 048213          103 KDYEAFESRMSTFNDILNALKS-------------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV---EES  166 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~~-------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~---~~~  166 (532)
                      .....++|.+..+++|.+.+..             ...+.+.|+|++|+|||+||+.+++.....  |-.....   ...
T Consensus        14 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~--~~~v~~~~~~~~~   91 (285)
T 3h4m_A           14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNAT--FIRVVGSELVKKF   91 (285)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCE--EEEEEGGGGCCCS
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC--EEEEehHHHHHhc
Confidence            3356789999999999887742             345779999999999999999999875432  2221100   001


Q ss_pred             ---chhhHHHHHHHHhccCcEEEEEcCCCCcc----------------cccccccccC--CCCCCeEEEEeecChHHhh-
Q 048213          167 ---ESGRARSLCNRLKKEKMILVILDNIWENL----------------DFHAVGIPHG--DDHKGCKVLLTARSLDVLS-  224 (532)
Q Consensus       167 ---~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~~~--~~~~gs~ilvTtr~~~v~~-  224 (532)
                         .......+.......+..+|+||+++...                .+..+...+.  ....+..||.||....... 
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~  171 (285)
T 3h4m_A           92 IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDP  171 (285)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCH
T ss_pred             cchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCH
Confidence               11223334444444567899999997531                1111111111  1234667788887553321 


Q ss_pred             hcC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCC-chHHHHHH
Q 048213          225 RKM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAG-LPVSIVTV  281 (532)
Q Consensus       225 ~~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~g-lPLai~~~  281 (532)
                      ...   .-...+.+...+.++..+++...+........  .....++..+.| .|-.|..+
T Consensus       172 ~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~--~~~~~l~~~~~g~~~~~i~~l  230 (285)
T 3h4m_A          172 AILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAED--VNLEEIAKMTEGCVGAELKAI  230 (285)
T ss_dssp             HHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHHCTTCCHHHHHHH
T ss_pred             HHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCc--CCHHHHHHHcCCCCHHHHHHH
Confidence            011   22247899999999999999988763221111  124567777777 45444443

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.59  E-value=6.9e-08  Score=95.07  Aligned_cols=80  Identities=16%  Similarity=0.081  Sum_probs=53.6

Q ss_pred             cCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCcc-EEEeccCCCCCccchhhhhhc
Q 048213          431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLK-RLILFNCWNLTCLFTSSIISS  509 (532)
Q Consensus       431 l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~-~L~L~~c~~l~~l~p~~~~~~  509 (532)
                      +++|+.|+|++|+. ..-....|.++++|++|+|.+| ++.+++..+    .++.+|+ .|++.+  .++.+++..| .+
T Consensus       225 ~~~L~~l~L~~n~i-~~I~~~aF~~~~~L~~l~l~~n-i~~I~~~aF----~~~~~L~~~l~l~~--~l~~I~~~aF-~~  295 (329)
T 3sb4_A          225 MPNLVSLDISKTNA-TTIPDFTFAQKKYLLKIKLPHN-LKTIGQRVF----SNCGRLAGTLELPA--SVTAIEFGAF-MG  295 (329)
T ss_dssp             CTTCCEEECTTBCC-CEECTTTTTTCTTCCEEECCTT-CCEECTTTT----TTCTTCCEEEEECT--TCCEECTTTT-TT
T ss_pred             cCCCeEEECCCCCc-ceecHhhhhCCCCCCEEECCcc-cceehHHHh----hCChhccEEEEEcc--cceEEchhhh-hC
Confidence            45677777777655 3334446777777777777775 676766652    2567777 777765  5777755555 67


Q ss_pred             CCCccEEEee
Q 048213          510 FVGLQCLEIC  519 (532)
Q Consensus       510 L~~L~~L~l~  519 (532)
                      +++|+.|+++
T Consensus       296 c~~L~~l~l~  305 (329)
T 3sb4_A          296 CDNLRYVLAT  305 (329)
T ss_dssp             CTTEEEEEEC
T ss_pred             CccCCEEEeC
Confidence            8888888774

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=98.56  E-value=6.9e-08  Score=103.03  Aligned_cols=70  Identities=11%  Similarity=0.136  Sum_probs=36.0

Q ss_pred             HHhhhhcccccC-----CchhhhccccccEEEeccccccC------cccccccccccEEeecccccccc-----ccCCcc
Q 048213          372 VVIDLTYMNLLS-----LPSSLGLLTNLQTLCLYYCKLQD------TSVLGELKILEILRLRVNELTRA-----GSSQLK  435 (532)
Q Consensus       372 ~~l~l~~~~l~~-----lp~~~~~l~~L~~L~l~~~~l~~------~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr  435 (532)
                      +.+++.+|.+..     ++..+..+++|++|++++|.+..      +..+.++++|++|++++|.+..+     .+++|+
T Consensus       167 ~~L~L~~~~~~~~~~~~l~~~~~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~~~l~~~~~~~~~L~  246 (592)
T 3ogk_B          167 KTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLE  246 (592)
T ss_dssp             SEEECTTCEEECCCSHHHHHHHHHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCBGGGGHHHHHHCTTCC
T ss_pred             CEEECccccccCcchhHHHHHHhcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCccHHHHHHHHhhhhHHH
Confidence            445555554432     22233455666666666665541      12344556666666666655444     445555


Q ss_pred             eEEecc
Q 048213          436 HLSVRG  441 (532)
Q Consensus       436 ~L~l~~  441 (532)
                      +|++++
T Consensus       247 ~L~l~~  252 (592)
T 3ogk_B          247 EFCGGS  252 (592)
T ss_dssp             EEEECB
T ss_pred             hhcccc
Confidence            555554

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.54  E-value=1.6e-07  Score=87.62  Aligned_cols=173  Identities=11%  Similarity=0.032  Sum_probs=99.2

Q ss_pred             cccccc---hHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccC
Q 048213          106 EAFESR---MSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEK  182 (532)
Q Consensus       106 ~~~~gR---~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k  182 (532)
                      ..|+|+   ...++.+..+......+.+.|+|++|+||||+|+.+++..... .+..................+.+  .+
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~--~~  104 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARANEL-ERRSFYIPLGIHASISTALLEGL--EQ  104 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHHHT-TCCEEEEEGGGGGGSCGGGGTTG--GG
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHHHc-CCeEEEEEHHHHHHHHHHHHHhc--cC
Confidence            456653   3555666665555567889999999999999999999876543 23333322222111111111122  24


Q ss_pred             cEEEEEcCCCCccc----ccccccccCC-CCCC-eEEEEeecChHHh-----hhc---CCCCceEEccCCCHHHHHHHHH
Q 048213          183 MILVILDNIWENLD----FHAVGIPHGD-DHKG-CKVLLTARSLDVL-----SRK---MDSQQDFWVGVLKEDEAWSLFK  248 (532)
Q Consensus       183 ~~LlVlDdv~~~~~----~~~l~~~~~~-~~~g-s~ilvTtr~~~v~-----~~~---~~~~~~~~l~~L~~~~~~~Lf~  248 (532)
                      ..+||+||++....    .+.+...+.. ...+ .++|+||+...-.     ...   ......+.+.+++.++..+++.
T Consensus       105 ~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~  184 (242)
T 3bos_A          105 FDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQ  184 (242)
T ss_dssp             SSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHH
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHH
Confidence            57899999976522    1222111100 0112 2477777643210     000   0112678999999999999998


Q ss_pred             HHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHH
Q 048213          249 KMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVA  282 (532)
Q Consensus       249 ~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  282 (532)
                      ..+.... ..-..+....+++.++|.+-.+..+.
T Consensus       185 ~~~~~~~-~~~~~~~~~~l~~~~~g~~r~l~~~l  217 (242)
T 3bos_A          185 RRAAMRG-LQLPEDVGRFLLNRMARDLRTLFDVL  217 (242)
T ss_dssp             HHHHHTT-CCCCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHcC-CCCCHHHHHHHHHHccCCHHHHHHHH
Confidence            8764111 12235677889999999887665544

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.54  E-value=6.9e-07  Score=91.24  Aligned_cols=174  Identities=11%  Similarity=0.096  Sum_probs=105.6

Q ss_pred             ccccccchHHH---HHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchh---hHHHHHHHH
Q 048213          105 YEAFESRMSTF---NDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESG---RARSLCNRL  178 (532)
Q Consensus       105 ~~~~~gR~~~~---~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~---~~~~l~~~l  178 (532)
                      ...++|.+..+   ..+...+..+....+.|+|++|+||||+|+.+++.....  |-...........   .........
T Consensus        25 l~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~~~~--f~~l~a~~~~~~~ir~~~~~a~~~~  102 (447)
T 3pvs_A           25 LAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYANAD--VERISAVTSGVKEIREAIERARQNR  102 (447)
T ss_dssp             TTTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHTTCE--EEEEETTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHhCCC--eEEEEeccCCHHHHHHHHHHHHHhh
Confidence            45788998888   677777777777889999999999999999999876432  3222111111111   112222222


Q ss_pred             hccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEE-eecChHH--hhhcCCCCceEEccCCCHHHHHHHHHHHhCC
Q 048213          179 KKEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLL-TARSLDV--LSRKMDSQQDFWVGVLKEDEAWSLFKKMAGD  253 (532)
Q Consensus       179 ~~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilv-Ttr~~~v--~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~  253 (532)
                      ..+++.+|++|+++..  ...+.+...+.. + ...+|. ||.+...  .........++.+.+++.++...++.+.+..
T Consensus       103 ~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~-~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l~~edi~~il~~~l~~  180 (447)
T 3pvs_A          103 NAGRRTILFVDEVHRFNKSQQDAFLPHIED-G-TITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAMED  180 (447)
T ss_dssp             HTTCCEEEEEETTTCC------CCHHHHHT-T-SCEEEEEESSCGGGSSCHHHHTTEEEEECCCCCHHHHHHHHHHHHHC
T ss_pred             hcCCCcEEEEeChhhhCHHHHHHHHHHHhc-C-ceEEEecCCCCcccccCHHHhCceeEEeeCCcCHHHHHHHHHHHHHH
Confidence            2357899999999865  334444433322 2 233443 5544421  1112233458899999999999999887642


Q ss_pred             C------CCCcchHHHHHHHHHHcCCchHHHHHHH
Q 048213          254 Y------IEGSEFKWVAKDVAKKCAGLPVSIVTVA  282 (532)
Q Consensus       254 ~------~~~~~~~~~~~~i~~~c~glPLai~~~~  282 (532)
                      .      ....-..+..+.+++.++|.+-.+..+-
T Consensus       181 ~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~L  215 (447)
T 3pvs_A          181 KTRGYGGQDIVLPDETRRAIAELVNGDARRALNTL  215 (447)
T ss_dssp             TTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHH
T ss_pred             HhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHH
Confidence            1      1112235677888889999876554443

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7

Probab=98.53  E-value=1.8e-07  Score=92.78  Aligned_cols=97  Identities=19%  Similarity=0.102  Sum_probs=73.3

Q ss_pred             EEEeccc-cccCcccccccccccEEeecc-cccccc------ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCc
Q 048213          396 TLCLYYC-KLQDTSVLGELKILEILRLRV-NELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSI  467 (532)
Q Consensus       396 ~L~l~~~-~l~~~~~i~~l~~L~~L~l~~-~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~  467 (532)
                      .++.+++ .+..++.+..+.+|++|+|++ |.+..+      .+++|++|+|++|++ ....+..|.++++|++|+|++|
T Consensus        12 ~v~~~~~n~l~~ip~l~~~~~L~~L~l~~~n~l~~~~~~~~~~l~~L~~L~l~~N~l-~~~~~~~~~~l~~L~~L~l~~N   90 (347)
T 2ifg_A           12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGL-RFVAPDAFHFTPRLSRLNLSFN   90 (347)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCC-CEECTTGGGSCSCCCEEECCSS
T ss_pred             EEEcCCCCCCCccCCCCCCCCeeEEEccCCCCCCCcChhHhccccCCCEEECCCCcc-ceeCHHHhcCCcCCCEEeCCCC
Confidence            4566776 777733388899999999986 888776      577888888888876 4445667788888888888888


Q ss_pred             ccccccccccccccccCCCccEEEeccCCCCC
Q 048213          468 NIERIWQNQVAAMSCGIQNLKRLILFNCWNLT  499 (532)
Q Consensus       468 ~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~  499 (532)
                      .|+.+|..+     +....|+.|+|.+++ +.
T Consensus        91 ~l~~~~~~~-----~~~~~L~~l~l~~N~-~~  116 (347)
T 2ifg_A           91 ALESLSWKT-----VQGLSLQELVLSGNP-LH  116 (347)
T ss_dssp             CCSCCCSTT-----TCSCCCCEEECCSSC-CC
T ss_pred             ccceeCHHH-----cccCCceEEEeeCCC-cc
Confidence            888888776     443448888888743 44

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=98.52  E-value=4.2e-08  Score=104.75  Aligned_cols=129  Identities=17%  Similarity=0.150  Sum_probs=84.5

Q ss_pred             hccccccEEEeccccccC--ccccc-ccccccEEeeccc-ccccc-------ccCCcceEEeccccccCCCCCc----cc
Q 048213          389 GLLTNLQTLCLYYCKLQD--TSVLG-ELKILEILRLRVN-ELTRA-------GSSQLKHLSVRGLRASAPNPTE----SE  453 (532)
Q Consensus       389 ~~l~~L~~L~l~~~~l~~--~~~i~-~l~~L~~L~l~~~-~l~~~-------~l~~Lr~L~l~~~~~~~~~~~~----~~  453 (532)
                      ..+++|++|++++|.+.+  +..+. .+++|++|++++| .+...       .+++|++|++++|.+ ....+.    ..
T Consensus       102 ~~~~~L~~L~L~~~~~~~~~~~~l~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~i-~~~~~~~l~~~~  180 (594)
T 2p1m_B          102 SSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDV-DDVSGHWLSHFP  180 (594)
T ss_dssp             HHCTTCCEEEEESCBCCHHHHHHHHHHCTTCCEEEEESCEEEEHHHHHHHHHHCTTCCEEECTTCEE-ECCCGGGGGGSC
T ss_pred             HhCCCCCeEEeeCcEEcHHHHHHHHHhCCCCcEEeCCCcCCCCHHHHHHHHHhCCCCCEEeCcCCcc-CCcchHHHHHHh
Confidence            456788888888887765  44444 6788888888887 44431       578888888888865 222222    22


Q ss_pred             ccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          454 VALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       454 ~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      ..+++|++|+|++|. ..++...++.....+++|++|+|++|..++.+ +..+ +.+++|++|++++|
T Consensus       181 ~~~~~L~~L~l~~~~-~~~~~~~l~~l~~~~~~L~~L~L~~~~~~~~l-~~~~-~~~~~L~~L~l~~~  245 (594)
T 2p1m_B          181 DTYTSLVSLNISCLA-SEVSFSALERLVTRCPNLKSLKLNRAVPLEKL-ATLL-QRAPQLEELGTGGY  245 (594)
T ss_dssp             TTCCCCCEEECTTCC-SCCCHHHHHHHHHHCTTCCEEECCTTSCHHHH-HHHH-HHCTTCSEEECSBC
T ss_pred             hcCCcCcEEEecccC-CcCCHHHHHHHHHhCCCCcEEecCCCCcHHHH-HHHH-hcCCcceEcccccc
Confidence            356688888888885 22222222111134688888888888777766 5555 67888888875433

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.52  E-value=2.4e-06  Score=81.44  Aligned_cols=187  Identities=14%  Similarity=0.150  Sum_probs=99.6

Q ss_pred             ccccchHHHHHHHH-------Hhc---CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe----ccCchh---
Q 048213          107 AFESRMSTFNDILN-------ALK---SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV----EESESG---  169 (532)
Q Consensus       107 ~~~gR~~~~~~i~~-------~l~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~----~~~~~~---  169 (532)
                      .++|.....++++.       .+.   ......+.|+|++|+|||++|+.+++.....  |-.....    ......   
T Consensus        34 ~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~--~~~i~~~~~~~g~~~~~~~~  111 (272)
T 1d2n_A           34 GIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP--FIKICSPDKMIGFSETAKCQ  111 (272)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS--EEEEECGGGCTTCCHHHHHH
T ss_pred             CCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCC--EEEEeCHHHhcCCchHHHHH
Confidence            46677666655555       232   4456789999999999999999999874321  2111100    001111   


Q ss_pred             hHHHHHHHHhccCcEEEEEcCCCCc------------ccccccccccC---CCCCCeEEEEeecChHHhhh--cCCC-Cc
Q 048213          170 RARSLCNRLKKEKMILVILDNIWEN------------LDFHAVGIPHG---DDHKGCKVLLTARSLDVLSR--KMDS-QQ  231 (532)
Q Consensus       170 ~~~~l~~~l~~~k~~LlVlDdv~~~------------~~~~~l~~~~~---~~~~gs~ilvTtr~~~v~~~--~~~~-~~  231 (532)
                      ....+.+.....+..+|++|+++..            ...+.+...+.   .......||.||........  .... ..
T Consensus       112 ~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~  191 (272)
T 1d2n_A          112 AMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFST  191 (272)
T ss_dssp             HHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSE
T ss_pred             HHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccce
Confidence            1222333333246789999998653            01122211111   12334557778877654322  1222 34


Q ss_pred             eEEccCCCH-HHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCC------chHHHHHHHHHHccCChHHHHHHHHHhc
Q 048213          232 DFWVGVLKE-DEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAG------LPVSIVTVARALRNKRLFDWKDALEQLR  301 (532)
Q Consensus       232 ~~~l~~L~~-~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~g------lPLai~~~~~~l~~~~~~~w~~~l~~~~  301 (532)
                      .+.+.+++. ++-..++.... .     -..+....+++.+.|      ++-++..+-......+...+..+++.+.
T Consensus       192 ~i~~p~l~~r~~i~~i~~~~~-~-----~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a~~~~~~~~~~~~~~~l~  262 (272)
T 1d2n_A          192 TIHVPNIATGEQLLEALELLG-N-----FKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLR  262 (272)
T ss_dssp             EEECCCEEEHHHHHHHHHHHT-C-----SCHHHHHHHHHHHTTSEEEECHHHHHHHHHHHTTSCGGGHHHHHHHHHH
T ss_pred             EEcCCCccHHHHHHHHHHhcC-C-----CCHHHHHHHHHHhcCCCccccHHHHHHHHHHHhhhchHHHHHHHHHHHH
Confidence            678888887 55555555431 1     124557788888877      3444443333322224445555554443

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.51  E-value=1.9e-06  Score=81.61  Aligned_cols=176  Identities=17%  Similarity=0.174  Sum_probs=97.6

Q ss_pred             ccccccchHHHHHHHHHhc---C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEE---eccC---
Q 048213          105 YEAFESRMSTFNDILNALK---S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF---VEES---  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~---~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~---~~~~---  166 (532)
                      -..++|.+..++.+.+.+.   .         ...+.+.|+|++|+|||++|+.+++.....  |-..-.   ....   
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~--~~~~~~~~~~~~~~~~   82 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVP--FLAMAGAEFVEVIGGL   82 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCC--EEEEETTTTSSSSTTH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC--EEEechHHHHhhccCh
Confidence            4567888888777765542   1         234668899999999999999999875432  211110   0000   


Q ss_pred             chhhHHHHHHHHhccCcEEEEEcCCCCcc-------------c----ccccccccCC--CCCCeEEEEeecChHHhh-hc
Q 048213          167 ESGRARSLCNRLKKEKMILVILDNIWENL-------------D----FHAVGIPHGD--DHKGCKVLLTARSLDVLS-RK  226 (532)
Q Consensus       167 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-------------~----~~~l~~~~~~--~~~gs~ilvTtr~~~v~~-~~  226 (532)
                      .......+.+........+|++|+++...             .    +..+...+..  ...+..||.||....... ..
T Consensus        83 ~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l  162 (262)
T 2qz4_A           83 GAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGAL  162 (262)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGG
T ss_pred             hHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHH
Confidence            11122333333333467999999998641             1    1112111111  123566777776654321 11


Q ss_pred             C---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH-HHHHHH
Q 048213          227 M---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV-SIVTVA  282 (532)
Q Consensus       227 ~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~  282 (532)
                      .   .....+.+...+.++-.+++...+...............+++.+.|.+- .|..+.
T Consensus       163 ~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~  222 (262)
T 2qz4_A          163 MRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANIC  222 (262)
T ss_dssp             GSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHH
T ss_pred             hcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHH
Confidence            1   2235778899999999999988764222222222334778888887753 444433

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.49  E-value=3.1e-07  Score=91.18  Aligned_cols=176  Identities=12%  Similarity=0.029  Sum_probs=106.6

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhcc--CCCCEEEEeccC--chhhH-HHHHHHHh
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENE--KLFDRVIFVEES--ESGRA-RSLCNRLK  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--~~F~~~~~~~~~--~~~~~-~~l~~~l~  179 (532)
                      ...++|+++.++.+..++..+....+.|+|++|+||||+|+.+++.....  ..+........+  ..... +.+.....
T Consensus        36 ~~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (353)
T 1sxj_D           36 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFAR  115 (353)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHH
T ss_pred             HHHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHHHHHHHHhh
Confidence            45689999999999999987755559999999999999999998874311  112222111111  11111 11111111


Q ss_pred             ---------------ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEEccCCCHH
Q 048213          180 ---------------KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFWVGVLKED  241 (532)
Q Consensus       180 ---------------~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~l~~L~~~  241 (532)
                                     .++.-+|++|++....  ..+.+...+.......++|++|....-. .........+.+.+++.+
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i~~~~~~~~  195 (353)
T 1sxj_D          116 LTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDAS  195 (353)
T ss_dssp             SCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHH
T ss_pred             hcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceEEeCCCCHH
Confidence                           1245699999987542  2333332222223456777777544311 111112247889999999


Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          242 EAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       242 ~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      +....+...+.... ..-.++....|++.++|.|..+..+
T Consensus       196 ~~~~~l~~~~~~~~-~~i~~~~l~~l~~~~~G~~r~~~~~  234 (353)
T 1sxj_D          196 NAIDRLRFISEQEN-VKCDDGVLERILDISAGDLRRGITL  234 (353)
T ss_dssp             HHHHHHHHHHHTTT-CCCCHHHHHHHHHHTSSCHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            99999888664211 1122567889999999999865444

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B*

Probab=98.47  E-value=5.1e-08  Score=104.04  Aligned_cols=37  Identities=16%  Similarity=0.063  Sum_probs=19.0

Q ss_pred             CCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          484 IQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       484 L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      +++|++|+|++|. +.......+++.+++|++|++++|
T Consensus       288 ~~~L~~L~L~~~~-l~~~~l~~~~~~~~~L~~L~l~~~  324 (594)
T 2p1m_B          288 CSRLTTLNLSYAT-VQSYDLVKLLCQCPKLQRLWVLDY  324 (594)
T ss_dssp             HTTCCEEECTTCC-CCHHHHHHHHTTCTTCCEEEEEGG
T ss_pred             hCCCCEEEccCCC-CCHHHHHHHHhcCCCcCEEeCcCc
Confidence            4566666666655 433212222245566666666554

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.45  E-value=1.1e-07  Score=83.46  Aligned_cols=40  Identities=23%  Similarity=0.339  Sum_probs=25.1

Q ss_pred             CccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCcccc
Q 048213          486 NLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKE  526 (532)
Q Consensus       486 ~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~  526 (532)
                      +|++|+|++|++++.-.-..+ .++++|++|+|++|+.++.
T Consensus       115 ~L~~L~Ls~C~~ITD~Gl~~L-~~~~~L~~L~L~~c~~Itd  154 (176)
T 3e4g_A          115 SMLEMEIISCGNVTDKGIIAL-HHFRNLKYLFLSDLPGVKE  154 (176)
T ss_dssp             HCCEEEEESCTTCCHHHHHHG-GGCTTCCEEEEESCTTCCC
T ss_pred             CCCEEEcCCCCcCCHHHHHHH-hcCCCCCEEECCCCCCCCc
Confidence            577777777776665422233 5667777777777776654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.45  E-value=1.5e-06  Score=85.78  Aligned_cols=173  Identities=13%  Similarity=0.093  Sum_probs=105.8

Q ss_pred             ccccccchHHHHHHHHHhc-----CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHh
Q 048213          105 YEAFESRMSTFNDILNALK-----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLK  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~-----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~  179 (532)
                      ...|+|++..++++..++.     ......|.|+|++|+|||++|+.+++.....  |-..-.....   ....+...+.
T Consensus        28 ~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~--~~~~~~~~~~---~~~~~~~~~~  102 (338)
T 3pfi_A           28 FDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSAN--IKTTAAPMIE---KSGDLAAILT  102 (338)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCC--EEEEEGGGCC---SHHHHHHHHH
T ss_pred             HHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC--eEEecchhcc---chhHHHHHHH
Confidence            5679999999999888886     2445678999999999999999998875322  3221111111   2223333333


Q ss_pred             -ccCcEEEEEcCCCCcc--cccccccccC------------------CCCCCeEEEEeecChHHh-hh-cCCCCceEEcc
Q 048213          180 -KEKMILVILDNIWENL--DFHAVGIPHG------------------DDHKGCKVLLTARSLDVL-SR-KMDSQQDFWVG  236 (532)
Q Consensus       180 -~~k~~LlVlDdv~~~~--~~~~l~~~~~------------------~~~~gs~ilvTtr~~~v~-~~-~~~~~~~~~l~  236 (532)
                       ..+..+|+||++....  ....+...+.                  ...++..+|.+|...... .. .......+.+.
T Consensus       103 ~~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~i~l~  182 (338)
T 3pfi_A          103 NLSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRLE  182 (338)
T ss_dssp             TCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEEEECC
T ss_pred             hccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEEeeCC
Confidence             1466899999998652  1111111110                  011235666666653322 11 11223689999


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHH
Q 048213          237 VLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVAR  283 (532)
Q Consensus       237 ~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~  283 (532)
                      +++.++...++...+.... ..-..+....+++.+.|.|-.+..+..
T Consensus       183 ~~~~~e~~~il~~~~~~~~-~~~~~~~~~~l~~~~~G~~r~l~~~l~  228 (338)
T 3pfi_A          183 FYKDSELALILQKAALKLN-KTCEEKAALEIAKRSRSTPRIALRLLK  228 (338)
T ss_dssp             CCCHHHHHHHHHHHHHHTT-CEECHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHCcCHHHHHHHHH
Confidence            9999999999988764211 122356778888999999965554433

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=98.44  E-value=6.3e-06  Score=80.64  Aligned_cols=178  Identities=17%  Similarity=0.150  Sum_probs=107.0

Q ss_pred             cccccccccchHHHHHHHHHhc------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEE---ec--
Q 048213          102 NKDYEAFESRMSTFNDILNALK------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF---VE--  164 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~---~~--  164 (532)
                      ...-..++|.+..++.|.+.+.            ....+-+.++|++|+|||+||+++++.....  |-..-.   ..  
T Consensus        14 ~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~--~~~v~~~~l~~~~   91 (322)
T 3eie_A           14 NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST--FFSVSSSDLVSKW   91 (322)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCE--EEEEEHHHHHTTT
T ss_pred             CCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCC--EEEEchHHHhhcc
Confidence            3445678999999999988772            1234679999999999999999999875432  221110   00  


Q ss_pred             -cCchhhHHHHHHHHhccCcEEEEEcCCCCccc-------------ccccccc---cCCCCCCeEEEEeecChHHhhh--
Q 048213          165 -ESESGRARSLCNRLKKEKMILVILDNIWENLD-------------FHAVGIP---HGDDHKGCKVLLTARSLDVLSR--  225 (532)
Q Consensus       165 -~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~~l~~~---~~~~~~gs~ilvTtr~~~v~~~--  225 (532)
                       .........+.......+..+|+||+++....             ...+...   +.....+..||.||........  
T Consensus        92 ~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al  171 (322)
T 3eie_A           92 MGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAI  171 (322)
T ss_dssp             GGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHH
T ss_pred             cchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHH
Confidence             01112233444444445678999999985421             1112111   1123345667777776433210  


Q ss_pred             cCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc-hHHHHHHH
Q 048213          226 KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL-PVSIVTVA  282 (532)
Q Consensus       226 ~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~~  282 (532)
                      .......+.+...+.++-.++|...+...... ........|++.+.|. +-.|..+.
T Consensus       172 ~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~-~~~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          172 RRRFERRIYIPLPDLAARTTMFEINVGDTPCV-LTKEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             HHHCCEEEECCCCCHHHHHHHHHHHHTTCCCC-CCHHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             HcccCeEEEeCCCCHHHHHHHHHHHhccCCCC-CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            01223467888899999999999887643221 1244567888888874 54555444

>3un9_A NLR family member X1; leucine rich repeat (LRR), antiviral signaling, MAVS, TRAF6, UQCRC2, immune system; 2.65A {Homo sapiens}

Probab=98.43  E-value=3.6e-08  Score=98.67  Aligned_cols=129  Identities=16%  Similarity=0.101  Sum_probs=91.5

Q ss_pred             cccccEEEeccccccC--cccccc-----cccccEEeecccccccc-------ccCCcceEEeccccccCCCCCccc---
Q 048213          391 LTNLQTLCLYYCKLQD--TSVLGE-----LKILEILRLRVNELTRA-------GSSQLKHLSVRGLRASAPNPTESE---  453 (532)
Q Consensus       391 l~~L~~L~l~~~~l~~--~~~i~~-----l~~L~~L~l~~~~l~~~-------~l~~Lr~L~l~~~~~~~~~~~~~~---  453 (532)
                      +++|+.|++++|.+..  ...+..     .++|++|+|++|.++..       .+++|++|+|++|.+ .......+   
T Consensus        71 ~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~L~~L~Ls~n~l-~~~~~~~L~~~  149 (372)
T 3un9_A           71 LSSLRQLNLAGVRMTPVKCTVVAAVLGSGRHALDEVNLASCQLDPAGLRTLLPVFLRARKLGLQLNSL-GPEACKDLRDL  149 (372)
T ss_dssp             HTTCCEEECTTSCCCHHHHHHHHHHHSSCSSCEEEEECTTCCCCHHHHHHTHHHHHTEEEEECCSSCC-CHHHHHHHHHH
T ss_pred             HhhCCEEEecCCCCCHHHHHHHHHHHhhCCCCceEEEecCCCCCHHHHHHHHHHHHhccHhhcCCCCC-CHHHHHHHHHH
Confidence            4679999999999876  233332     37999999999988764       567899999999976 22222222   


Q ss_pred             --ccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccc----hhhhhhcCCCccEEEeecCC
Q 048213          454 --VALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLF----TSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       454 --~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~----p~~~~~~L~~L~~L~l~~c~  522 (532)
                        ...++|++|+|++|.|+......+......+++|++|+|++|. ++...    +..+ ...++|++|+|++|.
T Consensus       150 L~~~~~~L~~L~Ls~n~l~~~~~~~l~~~L~~~~~L~~L~Ls~N~-l~~~g~~~L~~~L-~~~~~L~~L~Ls~N~  222 (372)
T 3un9_A          150 LLHDQCQITTLRLSNNPLTAAGVAVLMEGLAGNTSVTHLSLLHTG-LGDEGLELLAAQL-DRNRQLQELNVAYNG  222 (372)
T ss_dssp             HHSTTCCCCEEECCSSCCHHHHHHHHHHHHHTCSSCCEEECTTSS-CHHHHHHHHHHHG-GGCSCCCEEECCSSC
T ss_pred             HHhcCCccceeeCCCCCCChHHHHHHHHHHhcCCCcCEEeCCCCC-CCcHHHHHHHHHH-hcCCCcCeEECCCCC
Confidence              2457899999999988753322222212456899999999865 55431    3333 577899999999985

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.43  E-value=6e-06  Score=80.73  Aligned_cols=179  Identities=16%  Similarity=0.154  Sum_probs=105.8

Q ss_pred             ccccccccchHHHHHHHHHhc------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe------c
Q 048213          103 KDYEAFESRMSTFNDILNALK------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV------E  164 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~------~  164 (532)
                      ..-..++|.++.++.|.+.+.            ....+.|.++|++|+|||+||+++++..... .|-..-..      .
T Consensus         9 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~-~~~~i~~~~l~~~~~   87 (322)
T 1xwi_A            9 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNS-TFFSISSSDLVSKWL   87 (322)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTSC-EEEEEECCSSCCSSC
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCCC-cEEEEEhHHHHhhhh
Confidence            335678888888888877653            1234789999999999999999999876211 12111100      0


Q ss_pred             cCchhhHHHHHHHHhccCcEEEEEcCCCCccc-------------cccccccc---CCCCCCeEEEEeecChHHhh-h-c
Q 048213          165 ESESGRARSLCNRLKKEKMILVILDNIWENLD-------------FHAVGIPH---GDDHKGCKVLLTARSLDVLS-R-K  226 (532)
Q Consensus       165 ~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~~l~~~~---~~~~~gs~ilvTtr~~~v~~-~-~  226 (532)
                      .........+.+.....+..+|++|+++....             ...+...+   .....+..||.||....... . .
T Consensus        88 g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~  167 (322)
T 1xwi_A           88 GESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIR  167 (322)
T ss_dssp             CSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHH
Confidence            11223444555555445789999999986410             01111111   11234556666776543211 0 0


Q ss_pred             CCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc-hHHHHHHHH
Q 048213          227 MDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL-PVSIVTVAR  283 (532)
Q Consensus       227 ~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~~~  283 (532)
                      ......+.+...+.++-.+++.......... -.......|++.+.|. +-.|..+..
T Consensus       168 rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~-l~~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          168 RRFEKRIYIPLPEPHARAAMFKLHLGTTQNS-LTEADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             HTCCEEEECCCCCHHHHHHHHHHHHTTCCBC-CCHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             hhcCeEEEeCCcCHHHHHHHHHHHHhcCCCC-CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            1233578888899999999998877532211 1245578888999887 444555543

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.40  E-value=5.5e-06  Score=82.30  Aligned_cols=174  Identities=10%  Similarity=0.065  Sum_probs=103.2

Q ss_pred             ccccccchHHHHHHHHHhc------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccC------
Q 048213          105 YEAFESRMSTFNDILNALK------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEES------  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~------  166 (532)
                      ...++|.+..++.|.+.+.            ....+.|.|+|++|+|||+||+.+++.....  |  .......      
T Consensus        83 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~--~--~~i~~~~l~~~~~  158 (357)
T 3d8b_A           83 WEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGAT--F--FSISASSLTSKWV  158 (357)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTCE--E--EEEEGGGGCCSST
T ss_pred             HHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCCe--E--EEEehHHhhcccc
Confidence            4568999999999888763            2345789999999999999999999875321  2  1111110      


Q ss_pred             --chhhHHHHHHHHhccCcEEEEEcCCCCcc-------------cccccccccC----CCCCCeEEEEeecChHHh-hh-
Q 048213          167 --ESGRARSLCNRLKKEKMILVILDNIWENL-------------DFHAVGIPHG----DDHKGCKVLLTARSLDVL-SR-  225 (532)
Q Consensus       167 --~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-------------~~~~l~~~~~----~~~~gs~ilvTtr~~~v~-~~-  225 (532)
                        .......+.......+..+|+||+++...             ....+...+.    ....+..||.||...... .. 
T Consensus       159 g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l  238 (357)
T 3d8b_A          159 GEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAA  238 (357)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHH
T ss_pred             chHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHH
Confidence              11223333343333467999999995431             1112211111    112345666677654322 11 


Q ss_pred             cCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCC-chHHHHHHHH
Q 048213          226 KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAG-LPVSIVTVAR  283 (532)
Q Consensus       226 ~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~g-lPLai~~~~~  283 (532)
                      .......+.+...+.++..+++...+.... ..-..+....|++.+.| .+-.|..+..
T Consensus       239 ~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~-~~l~~~~l~~la~~t~G~s~~dl~~l~~  296 (357)
T 3d8b_A          239 RRRLVKRLYIPLPEASARKQIVINLMSKEQ-CCLSEEEIEQIVQQSDAFSGADMTQLCR  296 (357)
T ss_dssp             HTTCCEEEECCCCCHHHHHHHHHHHHHTSC-BCCCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HhhCceEEEeCCcCHHHHHHHHHHHHhhcC-CCccHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            112334778888999998888877664211 11124567888898888 4556665554

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*

Probab=98.38  E-value=1.5e-07  Score=100.46  Aligned_cols=126  Identities=14%  Similarity=0.091  Sum_probs=55.4

Q ss_pred             ccccccEEEeccccccC--cccccc-cc-cccEEeecccc-ccc--c-----ccCCcceEEeccccccCCC----CCccc
Q 048213          390 LLTNLQTLCLYYCKLQD--TSVLGE-LK-ILEILRLRVNE-LTR--A-----GSSQLKHLSVRGLRASAPN----PTESE  453 (532)
Q Consensus       390 ~l~~L~~L~l~~~~l~~--~~~i~~-l~-~L~~L~l~~~~-l~~--~-----~l~~Lr~L~l~~~~~~~~~----~~~~~  453 (532)
                      .+++|++|++++|.+.+  +..+.+ ++ +|++|++++|. +..  +     .+++|++|+|++|.+ ...    .+...
T Consensus       110 ~~~~L~~L~L~~~~i~~~~~~~l~~~~~~~L~~L~L~~~~~~~~~~l~~~~~~~~~L~~L~L~~~~~-~~~~~~~l~~~~  188 (592)
T 3ogk_B          110 NLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSF-SEKDGKWLHELA  188 (592)
T ss_dssp             HCTTCCEEEEESCBCCHHHHHHHHHHHGGGCCEEEEESCEEEEHHHHHHHHHHCTTCSEEECTTCEE-ECCCSHHHHHHH
T ss_pred             hCCCCCeEEeeccEecHHHHHHHHHhccccCcEEECcCCCCcCHHHHHHHHhhCCCCCEEECccccc-cCcchhHHHHHH
Confidence            45555555555554443  233333 22 25555555543 111  0     345555555555543 111    11122


Q ss_pred             ccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEee
Q 048213          454 VALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC  519 (532)
Q Consensus       454 ~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~  519 (532)
                      .++++|++|+|++|.++.+....++....++++|++|+|++|. +..+ |..+ +.+++|++|+++
T Consensus       189 ~~~~~L~~L~L~~n~~~~~~~~~l~~~~~~~~~L~~L~L~~~~-~~~l-~~~~-~~~~~L~~L~l~  251 (592)
T 3ogk_B          189 QHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFE-ILEL-VGFF-KAAANLEEFCGG  251 (592)
T ss_dssp             HHCCCCCEEECTTCCCSSCCHHHHHHHHHHCTTCCEEECSSCB-GGGG-HHHH-HHCTTCCEEEEC
T ss_pred             hcCCCccEEEeeccCCCccCHHHHHHHHhhCCCCcEEeccCcc-HHHH-HHHH-hhhhHHHhhccc
Confidence            3455555555555544422221111111334555555555543 3334 3333 455555555554

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.35  E-value=5.6e-06  Score=86.51  Aligned_cols=187  Identities=13%  Similarity=0.063  Sum_probs=108.7

Q ss_pred             cccccccchHHHHHHHHHhcC-----------------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccC
Q 048213          104 DYEAFESRMSTFNDILNALKS-----------------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEES  166 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~~-----------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~  166 (532)
                      ....++|++..++++.+++..                 +..+.+.|+|++|+||||+|+.+++...    +........+
T Consensus        37 ~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~----~~~i~in~s~  112 (516)
T 1sxj_A           37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG----YDILEQNASD  112 (516)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT----CEEEEECTTS
T ss_pred             CHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC----CCEEEEeCCC
Confidence            356799999999999999874                 1347899999999999999999998763    2222221111


Q ss_pred             ch--hhHH-HHH------------HHH-----hccCcEEEEEcCCCCccc-----ccccccccCCCCCCeEEEEeecChH
Q 048213          167 ES--GRAR-SLC------------NRL-----KKEKMILVILDNIWENLD-----FHAVGIPHGDDHKGCKVLLTARSLD  221 (532)
Q Consensus       167 ~~--~~~~-~l~------------~~l-----~~~k~~LlVlDdv~~~~~-----~~~l~~~~~~~~~gs~ilvTtr~~~  221 (532)
                      ..  .... .+.            ...     ..+++.+|++|+++....     +..+...+.  ..+..||+++....
T Consensus       113 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~--~~~~~iIli~~~~~  190 (516)
T 1sxj_A          113 VRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPLILICNERN  190 (516)
T ss_dssp             CCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCEEEEESCTT
T ss_pred             cchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHH--hcCCCEEEEEcCCC
Confidence            10  0000 000            000     124678999999976522     122211111  12334555554432


Q ss_pred             H--hhhcCCCCceEEccCCCHHHHHHHHHHHhC--CCCCCcchHHHHHHHHHHcCC-chHHHHHHHHHHcc-C--ChHHH
Q 048213          222 V--LSRKMDSQQDFWVGVLKEDEAWSLFKKMAG--DYIEGSEFKWVAKDVAKKCAG-LPVSIVTVARALRN-K--RLFDW  293 (532)
Q Consensus       222 v--~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~--~~~~~~~~~~~~~~i~~~c~g-lPLai~~~~~~l~~-~--~~~~w  293 (532)
                      .  ..........+.+.+++.++..+.+...+.  +....   ++....|++.++| ++-++..+.....+ .  +.+.-
T Consensus       191 ~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~---~~~l~~la~~s~GdiR~~i~~L~~~~~~~~~It~~~v  267 (516)
T 1sxj_A          191 LPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD---PNVIDRLIQTTRGDIRQVINLLSTISTTTKTINHENI  267 (516)
T ss_dssp             SSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHTTTCHHHHHHHHTHHHHHSSCCCTTHH
T ss_pred             CccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHHcCCcHHHHHHHHHHHHhcCCCCchHHH
Confidence            1  111223345789999999999998887664  11111   2347788899998 55556555433322 1  55555


Q ss_pred             HHHHHH
Q 048213          294 KDALEQ  299 (532)
Q Consensus       294 ~~~l~~  299 (532)
                      ..++..
T Consensus       268 ~~~~~~  273 (516)
T 1sxj_A          268 NEISKA  273 (516)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            555543

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.35  E-value=1.2e-05  Score=79.67  Aligned_cols=175  Identities=17%  Similarity=0.138  Sum_probs=103.3

Q ss_pred             ccccccchHHHHHHHHHhc------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEE----e--ccC
Q 048213          105 YEAFESRMSTFNDILNALK------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF----V--EES  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~----~--~~~  166 (532)
                      -..++|.+..++.|.+.+.            ....+-|.|+|++|+|||+||+.+++.....  |-..-.    .  ...
T Consensus        50 ~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~--~~~v~~~~l~~~~~g~  127 (355)
T 2qp9_X           50 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANST--FFSVSSSDLVSKWMGE  127 (355)
T ss_dssp             GGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCE--EEEEEHHHHHSCC---
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC--EEEeeHHHHhhhhcch
Confidence            4568899999988888763            1223568899999999999999999876432  211110    0  011


Q ss_pred             chhhHHHHHHHHhccCcEEEEEcCCCCccc-------------cccccccc---CCCCCCeEEEEeecChHHhh--hcCC
Q 048213          167 ESGRARSLCNRLKKEKMILVILDNIWENLD-------------FHAVGIPH---GDDHKGCKVLLTARSLDVLS--RKMD  228 (532)
Q Consensus       167 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~~l~~~~---~~~~~gs~ilvTtr~~~v~~--~~~~  228 (532)
                      .......+.......+..+|+||+++....             ...+...+   .....+..||.||.......  ....
T Consensus       128 ~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~rR  207 (355)
T 2qp9_X          128 SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRR  207 (355)
T ss_dssp             CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHcc
Confidence            122334444444445779999999985421             11121111   11234566676776543210  0112


Q ss_pred             CCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc-hHHHHHHH
Q 048213          229 SQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL-PVSIVTVA  282 (532)
Q Consensus       229 ~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~~  282 (532)
                      ....+.+...+.++-.+++...+...... -.......|++.+.|. +-.|..+.
T Consensus       208 f~~~i~i~~P~~~~r~~il~~~l~~~~~~-~~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          208 FERRIYIPLPDLAARTTMFEINVGDTPSV-LTKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             CCEEEECCCCCHHHHHHHHHHHHTTSCBC-CCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             cCEEEEeCCcCHHHHHHHHHHHHhhCCCC-CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            34577889999999999998877633211 1244567888899884 54455444

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.32  E-value=2.2e-06  Score=85.16  Aligned_cols=178  Identities=12%  Similarity=0.088  Sum_probs=104.0

Q ss_pred             ccccccchHHHHHHHHHh-cCCCceEEEEEccCCCchHHHHHHHHHHhhccCC----CC---------------------
Q 048213          105 YEAFESRMSTFNDILNAL-KSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKL----FD---------------------  158 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~----F~---------------------  158 (532)
                      -..++|.+..++.+.+++ ..+....+.|+|+.|+||||+|+.+++.......    ++                     
T Consensus        13 ~~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~   92 (354)
T 1sxj_E           13 LNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPY   92 (354)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSS
T ss_pred             HHHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeecccc
Confidence            456889999999999988 6555555999999999999999999884211000    00                     


Q ss_pred             EEEEeccC--chh--hHHHHHHHHhc--------------cCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeec
Q 048213          159 RVIFVEES--ESG--RARSLCNRLKK--------------EKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTAR  218 (532)
Q Consensus       159 ~~~~~~~~--~~~--~~~~l~~~l~~--------------~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr  218 (532)
                      ........  ...  ....+.+.+..              ++.-++++|++...+  ..+.+...+.....++.+|++|.
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~~~~Il~t~  172 (354)
T 1sxj_E           93 HLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCD  172 (354)
T ss_dssp             EEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEES
T ss_pred             eEEecHhhcCCcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCCCEEEEEeC
Confidence            00011100  000  12222222211              245699999998742  12233222222234677887777


Q ss_pred             ChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcch-HHHHHHHHHHcCCchHHHHHHHH
Q 048213          219 SLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEF-KWVAKDVAKKCAGLPVSIVTVAR  283 (532)
Q Consensus       219 ~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~-~~~~~~i~~~c~glPLai~~~~~  283 (532)
                      ... +..........+.+.+++.++..+.+...+..... .-. ++....|++.++|.+-.+..+..
T Consensus       173 ~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~~l~~i~~~~~G~~r~a~~~l~  238 (354)
T 1sxj_E          173 SMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERI-QLETKDILKRIAQASNGNLRVSLLMLE  238 (354)
T ss_dssp             CSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-EECCSHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             CHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCC-CCCcHHHHHHHHHHcCCCHHHHHHHHH
Confidence            643 21111222367899999999999999877641110 111 34577888999998865554443

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.32  E-value=1.8e-05  Score=79.66  Aligned_cols=176  Identities=14%  Similarity=0.110  Sum_probs=103.5

Q ss_pred             ccccccccchHHHHHHHHHhc------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc-----
Q 048213          103 KDYEAFESRMSTFNDILNALK------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE-----  165 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~-----  165 (532)
                      .....++|.+..++.|.+++.            ....+.|.|+|++|+|||+||+.+++.....  |  ......     
T Consensus       112 ~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~--~--~~v~~~~l~~~  187 (389)
T 3vfd_A          112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNAT--F--FNISAASLTSK  187 (389)
T ss_dssp             CCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCE--E--EEECSCCC---
T ss_pred             CChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCc--E--EEeeHHHhhcc
Confidence            345678999999999998873            1234789999999999999999998874322  2  111110     


Q ss_pred             ---CchhhHHHHHHHHhccCcEEEEEcCCCCcc-------------ccccccccc---CC-CCCCeEEEEeecChHHh-h
Q 048213          166 ---SESGRARSLCNRLKKEKMILVILDNIWENL-------------DFHAVGIPH---GD-DHKGCKVLLTARSLDVL-S  224 (532)
Q Consensus       166 ---~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-------------~~~~l~~~~---~~-~~~gs~ilvTtr~~~v~-~  224 (532)
                         ........+..........+|+||+++...             ....+...+   .. ......||.||...... .
T Consensus       188 ~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~  267 (389)
T 3vfd_A          188 YVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDE  267 (389)
T ss_dssp             ----CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCH
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCH
Confidence               112233444444443466899999997541             001111111   11 12345566677653322 1


Q ss_pred             h-cCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH-HHHHHHH
Q 048213          225 R-KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV-SIVTVAR  283 (532)
Q Consensus       225 ~-~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~  283 (532)
                      . .......+.+...+.++-.+++...+..... .-..+....|++.+.|..- +|..+..
T Consensus       268 ~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~-~l~~~~~~~la~~~~g~~~~~l~~L~~  327 (389)
T 3vfd_A          268 AVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGS-PLTQKELAQLARMTDGYSGSDLTALAK  327 (389)
T ss_dssp             HHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCC-CSCHHHHHHHHHHTTTCCHHHHHHHHH
T ss_pred             HHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            1 1122346889999999999999887753211 1224567788888888543 5555443

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.30  E-value=1.7e-05  Score=81.05  Aligned_cols=177  Identities=15%  Similarity=0.163  Sum_probs=105.0

Q ss_pred             ccccccccchHHHHHHHHHhc------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-------Ee
Q 048213          103 KDYEAFESRMSTFNDILNALK------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-------FV  163 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-------~~  163 (532)
                      ..-..++|.+..++.|.+.+.            ....+.|.|+|++|+|||+||+.+++..... .|-..-       +.
T Consensus       131 ~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~-~~~~v~~~~l~~~~~  209 (444)
T 2zan_A          131 VKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNS-TFFSISSSDLVSKWL  209 (444)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSS-EEEEECCC-------
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCC-CEEEEeHHHHHhhhc
Confidence            345678899999988888763            1235789999999999999999999875211 121100       00


Q ss_pred             ccCchhhHHHHHHHHhccCcEEEEEcCCCCccc-------------ccccccccCC---CCCCeEEEEeecChHHhh-h-
Q 048213          164 EESESGRARSLCNRLKKEKMILVILDNIWENLD-------------FHAVGIPHGD---DHKGCKVLLTARSLDVLS-R-  225 (532)
Q Consensus       164 ~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~~l~~~~~~---~~~gs~ilvTtr~~~v~~-~-  225 (532)
                      . ........+.......+..+|+||+++....             ...+...+..   ...+..||.||....... . 
T Consensus       210 g-~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~ld~al  288 (444)
T 2zan_A          210 G-ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAI  288 (444)
T ss_dssp             ---CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGSCHHH
T ss_pred             c-hHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCccccCHHH
Confidence            0 1112344455544445779999999985410             1112122211   234566777776543221 1 


Q ss_pred             cCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc-hHHHHHHH
Q 048213          226 KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL-PVSIVTVA  282 (532)
Q Consensus       226 ~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~~  282 (532)
                      .......+.+...+.++-..+|..++..... .-.......|++.+.|. +-.|..+.
T Consensus       289 ~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~-~l~~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          289 RRRFEKRIYIPLPEAHARAAMFRLHLGSTQN-SLTEADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             HTTCCEEEECCCCCHHHHHHHHHHHHTTSCE-ECCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             HhhcceEEEeCCcCHHHHHHHHHHHHhcCCC-CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            1123357788888888888999887753221 11245567888888884 44555444

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.29  E-value=1.1e-05  Score=79.41  Aligned_cols=164  Identities=11%  Similarity=0.052  Sum_probs=104.1

Q ss_pred             hHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEecc-----
Q 048213          112 MSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFVEE-----  165 (532)
Q Consensus       112 ~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~~~-----  165 (532)
                      ++..+.+.+.+..+.. ..+.++|+.|+|||++|+.+++...-.                    .++|.......     
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~   87 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNT   87 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSS
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCC
Confidence            4556677777766654 569999999999999999998864322                    12444433322     


Q ss_pred             CchhhHHHHHHHHh----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCC
Q 048213          166 SESGRARSLCNRLK----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVL  238 (532)
Q Consensus       166 ~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L  238 (532)
                      ...+.+..+.+.+.    .+++-++|+|+++...  ..+.+...+..-..++.+|++|.+.. +..........+.+.++
T Consensus        88 ~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~~  167 (334)
T 1a5t_A           88 LGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPP  167 (334)
T ss_dssp             BCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             CCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCCCC
Confidence            11223344444443    2467899999998652  33444333333344677777776653 32222233458999999


Q ss_pred             CHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHH
Q 048213          239 KEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTV  281 (532)
Q Consensus       239 ~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~  281 (532)
                      +.++..+.+....      .-.++.+..+++.++|.|..+..+
T Consensus       168 ~~~~~~~~L~~~~------~~~~~~~~~l~~~s~G~~r~a~~~  204 (334)
T 1a5t_A          168 PEQYAVTWLSREV------TMSQDALLAALRLSAGSPGAALAL  204 (334)
T ss_dssp             CHHHHHHHHHHHC------CCCHHHHHHHHHHTTTCHHHHHHT
T ss_pred             CHHHHHHHHHHhc------CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            9999999988775      112455678999999999766443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.29  E-value=1.6e-05  Score=76.70  Aligned_cols=176  Identities=13%  Similarity=0.080  Sum_probs=101.7

Q ss_pred             cccccccchHHHHHHHHHhcC------------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe------cc
Q 048213          104 DYEAFESRMSTFNDILNALKS------------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV------EE  165 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~~------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~------~~  165 (532)
                      .-..++|.+..++.+.+.+..            ...+.+.|+|++|+|||++|+.+++.....  |-..-..      ..
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~--~~~i~~~~l~~~~~~   96 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSAT--FLNISAASLTSKYVG   96 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCE--EEEEESTTTSSSSCS
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCC--eEEeeHHHHhhcccc
Confidence            356789999999998887631            235789999999999999999999875422  2111100      01


Q ss_pred             CchhhHHHHHHHHhccCcEEEEEcCCCCccc-------------ccccc---cccCCC--CCCeEEEEeecChHHhh-h-
Q 048213          166 SESGRARSLCNRLKKEKMILVILDNIWENLD-------------FHAVG---IPHGDD--HKGCKVLLTARSLDVLS-R-  225 (532)
Q Consensus       166 ~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~~l~---~~~~~~--~~gs~ilvTtr~~~v~~-~-  225 (532)
                      ........+.......+..+|++|+++....             ...+.   ..++..  +.+..||.||....... . 
T Consensus        97 ~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~l  176 (297)
T 3b9p_A           97 DGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAA  176 (297)
T ss_dssp             CHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHHH
T ss_pred             hHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHHH
Confidence            1122333344444435678999999975411             00111   111111  23456777777643210 0 


Q ss_pred             cCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH-HHHHHH
Q 048213          226 KMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV-SIVTVA  282 (532)
Q Consensus       226 ~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~  282 (532)
                      .......+.+...+.++-..++...+..... .-..+....+++.+.|.+- ++..+.
T Consensus       177 ~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~-~~~~~~~~~la~~~~g~~~~~l~~l~  233 (297)
T 3b9p_A          177 LRRFTKRVYVSLPDEQTRELLLNRLLQKQGS-PLDTEALRRLAKITDGYSGSDLTALA  233 (297)
T ss_dssp             HHHCCEEEECCCCCHHHHHHHHHHHHGGGSC-CSCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             HhhCCeEEEeCCcCHHHHHHHHHHHHHhcCC-CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            0112346777888888888888776542111 1124567788889988875 554444

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.28  E-value=1.8e-06  Score=83.97  Aligned_cols=146  Identities=12%  Similarity=0.012  Sum_probs=85.9

Q ss_pred             ccccchHHHHHHHHHhc---------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCC---CCEEEEecc---
Q 048213          107 AFESRMSTFNDILNALK---------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKL---FDRVIFVEE---  165 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~---------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~---F~~~~~~~~---  165 (532)
                      .++|.+..++.|.+.+.               ......+.|+|++|+|||++|+.+++.......   .........   
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            47888888888776543               234457999999999999999988876543221   122211111   


Q ss_pred             --CchhhHHHHHHHHhccCcEEEEEcCCCCc-----------ccccccccccCCCCCCeEEEEeecChHHh-------hh
Q 048213          166 --SESGRARSLCNRLKKEKMILVILDNIWEN-----------LDFHAVGIPHGDDHKGCKVLLTARSLDVL-------SR  225 (532)
Q Consensus       166 --~~~~~~~~l~~~l~~~k~~LlVlDdv~~~-----------~~~~~l~~~~~~~~~gs~ilvTtr~~~v~-------~~  225 (532)
                        -.......+...+...+..+|++|+++..           .....+...+.....+..+|.||......       ..
T Consensus       112 ~~~~g~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l  191 (309)
T 3syl_A          112 GQYIGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGF  191 (309)
T ss_dssp             CSSTTCHHHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTH
T ss_pred             hhcccccHHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHH
Confidence              01112223333333234569999999843           22233333333334466777777643211       00


Q ss_pred             cCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          226 KMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       226 ~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      .......+.+.+++.++-.+++...+.
T Consensus       192 ~~R~~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          192 RSRIAHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             HHHEEEEEEECCCCHHHHHHHHHHHHH
T ss_pred             HHhCCeEEEcCCcCHHHHHHHHHHHHH
Confidence            001226789999999999999887764

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.26  E-value=3.6e-06  Score=82.43  Aligned_cols=170  Identities=11%  Similarity=0.039  Sum_probs=98.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccC--chhhHHHHHHHHhc-
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEES--ESGRARSLCNRLKK-  180 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~--~~~~~~~l~~~l~~-  180 (532)
                      -..++|.+..++.+.+++..+.. .++.+.|++|+|||++|+.+++.....    .......+  .......+.+.... 
T Consensus        25 ~~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l~~~----~~~i~~~~~~~~~i~~~~~~~~~~~  100 (324)
T 3u61_B           25 IDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNAD----MMFVNGSDCKIDFVRGPLTNFASAA  100 (324)
T ss_dssp             TTTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHTTEE----EEEEETTTCCHHHHHTHHHHHHHBC
T ss_pred             HHHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHhCCC----EEEEcccccCHHHHHHHHHHHHhhc
Confidence            46789999999999999986554 567778889999999999999875321    11122111  11112222222221 


Q ss_pred             ---cCcEEEEEcCCCCcc---cccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEEccCCCHHHHHHHH------
Q 048213          181 ---EKMILVILDNIWENL---DFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFWVGVLKEDEAWSLF------  247 (532)
Q Consensus       181 ---~k~~LlVlDdv~~~~---~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~l~~L~~~~~~~Lf------  247 (532)
                         +++.++++||++...   ..+.+...+.....+.++|+||....-. .........+.+.+++.++-.+++      
T Consensus       101 ~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~  180 (324)
T 3u61_B          101 SFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMMKQMIRR  180 (324)
T ss_dssp             CCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             ccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEEEeCCCCHHHHHHHHHHHHHH
Confidence               267899999998654   2333322221112456788888765421 101111247899999988743332      


Q ss_pred             -HHHhC-CCCCCcchHHHHHHHHHHcCCchHHHH
Q 048213          248 -KKMAG-DYIEGSEFKWVAKDVAKKCAGLPVSIV  279 (532)
Q Consensus       248 -~~~~~-~~~~~~~~~~~~~~i~~~c~glPLai~  279 (532)
                       ...+. .....+ ..+....|++.++|.+-.+.
T Consensus       181 l~~~~~~~~~~~~-~~~~~~~l~~~~~gd~R~a~  213 (324)
T 3u61_B          181 LTEICKHEGIAIA-DMKVVAALVKKNFPDFRKTI  213 (324)
T ss_dssp             HHHHHHHHTCCBS-CHHHHHHHHHHTCSCTTHHH
T ss_pred             HHHHHHHcCCCCC-cHHHHHHHHHhCCCCHHHHH
Confidence             22222 111111 12667788888888765433

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron}

Probab=98.25  E-value=2.1e-06  Score=84.39  Aligned_cols=97  Identities=14%  Similarity=0.046  Sum_probs=80.1

Q ss_pred             cccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCCCC-EEecCCcccccccccccccccccCC
Q 048213          413 LKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPKLE-TVCLSSINIERIWQNQVAAMSCGIQ  485 (532)
Q Consensus       413 l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~-~L~L~~~~l~~lp~~~~~~~~~~L~  485 (532)
                      +++|+.|++++|+++.+      ++++|+.|.|.++ . ..-....|.++++|+ .|+|.+ +++.+++..+    .+++
T Consensus       225 ~~~L~~l~L~~n~i~~I~~~aF~~~~~L~~l~l~~n-i-~~I~~~aF~~~~~L~~~l~l~~-~l~~I~~~aF----~~c~  297 (329)
T 3sb4_A          225 MPNLVSLDISKTNATTIPDFTFAQKKYLLKIKLPHN-L-KTIGQRVFSNCGRLAGTLELPA-SVTAIEFGAF----MGCD  297 (329)
T ss_dssp             CTTCCEEECTTBCCCEECTTTTTTCTTCCEEECCTT-C-CEECTTTTTTCTTCCEEEEECT-TCCEECTTTT----TTCT
T ss_pred             cCCCeEEECCCCCcceecHhhhhCCCCCCEEECCcc-c-ceehHHHhhCChhccEEEEEcc-cceEEchhhh----hCCc
Confidence            78999999999988887      7889999999987 3 334556789999999 999999 7888887762    3689


Q ss_pred             CccEEEeccCCCCCccchhhhhhcCCCccEEEe
Q 048213          486 NLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI  518 (532)
Q Consensus       486 ~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l  518 (532)
                      +|+.|++.+ +.+..+++..| .++++|+.|+.
T Consensus       298 ~L~~l~l~~-n~i~~I~~~aF-~~~~~L~~ly~  328 (329)
T 3sb4_A          298 NLRYVLATG-DKITTLGDELF-GNGVPSKLIYK  328 (329)
T ss_dssp             TEEEEEECS-SCCCEECTTTT-CTTCCCCEEEC
T ss_pred             cCCEEEeCC-CccCccchhhh-cCCcchhhhcc
Confidence            999999986 66899955566 78999998874

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.25  E-value=2.6e-06  Score=75.75  Aligned_cols=48  Identities=21%  Similarity=0.205  Sum_probs=42.4

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...++||+.+++.+.+.+.....+.+.|+|++|+|||++|+.+++...
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~~   68 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKIV   68 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHHH
T ss_pred             cchhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            456899999999999999877677889999999999999999988753

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=98.22  E-value=2.2e-06  Score=85.09  Aligned_cols=133  Identities=11%  Similarity=-0.014  Sum_probs=88.4

Q ss_pred             CchhhhccccccEEEeccccccCcccccccccccEEeecccccccc--------ccCCcceEEeccc--cccCCC-----
Q 048213          384 LPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA--------GSSQLKHLSVRGL--RASAPN-----  448 (532)
Q Consensus       384 lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~--------~l~~Lr~L~l~~~--~~~~~~-----  448 (532)
                      ++..+..+++|+.|.+++|.-..++.+ .+++|++|++..|.+..-        .+++|++|+|+.+  .. ...     
T Consensus       164 L~~ll~~~P~L~~L~L~g~~~l~l~~~-~~~~L~~L~L~~~~l~~~~l~~l~~~~lp~L~~L~L~~~~~~~-~~~~~~~~  241 (362)
T 2ra8_A          164 LSPVLDAMPLLNNLKIKGTNNLSIGKK-PRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDY-GFDGDMNV  241 (362)
T ss_dssp             CHHHHHTCTTCCEEEEECCBTCBCCSC-BCTTCSEEEEECSBCCHHHHHHHHHSBCTTCCEEEEECBCGGG-TCCSCGGG
T ss_pred             HHHHHhcCCCCcEEEEeCCCCceeccc-cCCCCcEEEEecCCCChHHHHHHHHccCCCCcEEEEecccccc-ccchhHHH
Confidence            455567789999999988732222234 388999999998876543        6899999998632  21 111     


Q ss_pred             CCccc--ccCCCCCEEecCCcccccc-cccccccccccCCCccEEEeccCCCCCccc----hhhhhhcCCCccEEEeecC
Q 048213          449 PTESE--VALPKLETVCLSSINIERI-WQNQVAAMSCGIQNLKRLILFNCWNLTCLF----TSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       449 ~~~~~--~~l~~L~~L~L~~~~l~~l-p~~~~~~~~~~L~~L~~L~L~~c~~l~~l~----p~~~~~~L~~L~~L~l~~c  521 (532)
                      ....+  ..+|+|++|+|++|.+..- +..+...  ..+++|++|+|+. +.++...    +..+ ..+++|+.|+|++|
T Consensus       242 l~~~l~~~~~p~Lr~L~L~~~~i~~~~~~~la~a--~~~~~L~~LdLs~-n~L~d~G~~~L~~~L-~~l~~L~~L~L~~n  317 (362)
T 2ra8_A          242 FRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLES--DILPQLETMDISA-GVLTDEGARLLLDHV-DKIKHLKFINMKYN  317 (362)
T ss_dssp             TGGGSCTTTCTTCCEEEEESCTTHHHHHHHHHHC--SSGGGCSEEECCS-SCCBHHHHHHHHTTH-HHHTTCSEEECCSB
T ss_pred             HHHHHhcCCCCCcCEEeCCCCCCchHHHHHHHhC--ccCCCCCEEECCC-CCCChHHHHHHHhhc-ccCCcceEEECCCC
Confidence            11112  3589999999999976532 2222111  1358999999985 5576531    2333 46799999999988


Q ss_pred             C
Q 048213          522 P  522 (532)
Q Consensus       522 ~  522 (532)
                      .
T Consensus       318 ~  318 (362)
T 2ra8_A          318 Y  318 (362)
T ss_dssp             B
T ss_pred             c
Confidence            5

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.20  E-value=9.9e-06  Score=78.30  Aligned_cols=147  Identities=10%  Similarity=0.075  Sum_probs=86.1

Q ss_pred             cccccchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhhccC------CCCEEEEecc---C------
Q 048213          106 EAFESRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK------LFDRVIFVEE---S------  166 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~------~F~~~~~~~~---~------  166 (532)
                      ..+.||+++.++|...|.    .+....+.|+|++|+|||++|+.|++......      .|........   +      
T Consensus        20 ~~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~   99 (318)
T 3te6_A           20 ELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYE   99 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHH
T ss_pred             cccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHH
Confidence            348899999999987776    56778999999999999999999999875321      2333221110   0      


Q ss_pred             ---------------chhhHHHHHHHH--hccCcEEEEEcCCCCccccccccccc--CC-CCCCeEEEEeecChHH----
Q 048213          167 ---------------ESGRARSLCNRL--KKEKMILVILDNIWENLDFHAVGIPH--GD-DHKGCKVLLTARSLDV----  222 (532)
Q Consensus       167 ---------------~~~~~~~l~~~l--~~~k~~LlVlDdv~~~~~~~~l~~~~--~~-~~~gs~ilvTtr~~~v----  222 (532)
                                     .......+.+.+  ..++.++++||+++...+-+.+...+  +. ......||.++.....    
T Consensus       100 ~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~  179 (318)
T 3te6_A          100 KIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIREQ  179 (318)
T ss_dssp             HHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHH
T ss_pred             HHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchhh
Confidence                           011122222322  12467999999998764222221111  11 1112233434433211    


Q ss_pred             h-hhcC-CC-CceEEccCCCHHHHHHHHHHHhC
Q 048213          223 L-SRKM-DS-QQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       223 ~-~~~~-~~-~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      . .... .. ...+.+.+.+.++-.+++...+.
T Consensus       180 L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~  212 (318)
T 3te6_A          180 INIMPSLKAHFTEIKLNKVDKNELQQMIITRLK  212 (318)
T ss_dssp             HHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             cchhhhccCCceEEEeCCCCHHHHHHHHHHHHH
Confidence            1 0000 11 24689999999999999988764

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.18  E-value=1.4e-05  Score=79.31  Aligned_cols=168  Identities=17%  Similarity=0.169  Sum_probs=101.7

Q ss_pred             cccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEE---ecc--
Q 048213          104 DYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF---VEE--  165 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~---~~~--  165 (532)
                      ....+.|-++.+++|.+.+.             -...+-|.++|++|.|||.||+++++.....  |-..-.   ...  
T Consensus       146 ~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~--f~~v~~s~l~sk~v  223 (405)
T 4b4t_J          146 TYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK--FIRVSGAELVQKYI  223 (405)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE--EEEEEGGGGSCSST
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCC--ceEEEhHHhhcccc
Confidence            34567888888888776654             1345779999999999999999999986643  322210   001  


Q ss_pred             -CchhhHHHHHHHHhccCcEEEEEcCCCCccc----------------ccccccccC--CCCCCeEEEEeecChHHhh-h
Q 048213          166 -SESGRARSLCNRLKKEKMILVILDNIWENLD----------------FHAVGIPHG--DDHKGCKVLLTARSLDVLS-R  225 (532)
Q Consensus       166 -~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtr~~~v~~-~  225 (532)
                       .....+..++........++|++|+++....                ...+...+.  ....+..||.||....... .
T Consensus       224 Gese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpA  303 (405)
T 4b4t_J          224 GEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPA  303 (405)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHH
T ss_pred             chHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHh
Confidence             1122344555555556789999999985310                111111111  1234556777777654331 1


Q ss_pred             c---CCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          226 K---MDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       226 ~---~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      .   ..-...+.++..+.++-.++|..+........+..  ...+++.+.|.-
T Consensus       304 llRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvd--l~~lA~~t~G~S  354 (405)
T 4b4t_J          304 LLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGIN--LRKVAEKMNGCS  354 (405)
T ss_dssp             HHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCC--HHHHHHHCCSCC
T ss_pred             HcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCC--HHHHHHHCCCCC
Confidence            1   13346888999999999999988775322222111  456777787753

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.18  E-value=2e-05  Score=76.27  Aligned_cols=168  Identities=12%  Similarity=0.154  Sum_probs=97.1

Q ss_pred             cccccccchHHHHHHHHHhcC-------------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec------
Q 048213          104 DYEAFESRMSTFNDILNALKS-------------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE------  164 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~~-------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~------  164 (532)
                      ....++|.+..+++|.+++..             ...+.+.|+|++|+|||+||+.+++.....  |  .....      
T Consensus        13 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~--~--i~v~~~~l~~~   88 (301)
T 3cf0_A           13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN--F--ISIKGPELLTM   88 (301)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCE--E--EEECHHHHHHH
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCC--E--EEEEhHHHHhh
Confidence            345688998888888776541             345789999999999999999999875421  2  11110      


Q ss_pred             --cCchhhHHHHHHHHhccCcEEEEEcCCCCcc------------c----ccccccccC--CCCCCeEEEEeecChHHh-
Q 048213          165 --ESESGRARSLCNRLKKEKMILVILDNIWENL------------D----FHAVGIPHG--DDHKGCKVLLTARSLDVL-  223 (532)
Q Consensus       165 --~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~~~~~--~~~~gs~ilvTtr~~~v~-  223 (532)
                        .........+.+........+|++|+++...            .    ...+...+.  ....+..||.||...... 
T Consensus        89 ~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld  168 (301)
T 3cf0_A           89 WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIID  168 (301)
T ss_dssp             HHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGGSC
T ss_pred             hcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccccC
Confidence              0111123334444333467999999997421            0    111211111  123456777788765432 


Q ss_pred             hhcC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHH
Q 048213          224 SRKM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVS  277 (532)
Q Consensus       224 ~~~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLa  277 (532)
                      ....   .-...+.+...+.++-.+++...........+.  ....++..+.|.|-+
T Consensus       169 ~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~--~~~~la~~~~g~sg~  223 (301)
T 3cf0_A          169 PAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV--DLEFLAKMTNGFSGA  223 (301)
T ss_dssp             GGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSC--CHHHHHHTCSSCCHH
T ss_pred             hHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccc--hHHHHHHHcCCCCHH
Confidence            1111   223478899999999899988776532111111  123555667776543

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.17  E-value=2.4e-05  Score=77.99  Aligned_cols=49  Identities=16%  Similarity=0.197  Sum_probs=38.1

Q ss_pred             ccccccchHHHHH---HHHHhcCCCc--eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          105 YEAFESRMSTFND---ILNALKSPDV--NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       105 ~~~~~gR~~~~~~---i~~~l~~~~~--~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...|+|++..++.   +.+.+..+..  +.+.|+|++|+|||++|+.+++....
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~   96 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGP   96 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCS
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            4579999988766   4444444433  58999999999999999999987653

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.12  E-value=1.5e-05  Score=82.16  Aligned_cols=144  Identities=12%  Similarity=0.084  Sum_probs=83.8

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC------CCCEEEEe-----ccCchhhHHH
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK------LFDRVIFV-----EESESGRARS  173 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~------~F~~~~~~-----~~~~~~~~~~  173 (532)
                      ...++||+.+++++++.+......-+.|+|++|+|||++|+.+++......      .......+     ..........
T Consensus       179 ld~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~~~g~~e~~~~~  258 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFEDRLKK  258 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------CTTHHH
T ss_pred             CCCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCccccchHHHHHHH
Confidence            346899999999999999765556778999999999999999998752210      01111000     0011123344


Q ss_pred             HHHHHhccCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHH----h--hhcCCCCceEEccCCCHHHHHHHH
Q 048213          174 LCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDV----L--SRKMDSQQDFWVGVLKEDEAWSLF  247 (532)
Q Consensus       174 l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v----~--~~~~~~~~~~~l~~L~~~~~~~Lf  247 (532)
                      +...+...++.+|++|  ...+..+.+...+.  ....++|.+|.....    .  .........+.+++.+.++..+++
T Consensus       259 ~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~~~al~~Rf~~i~v~~p~~e~~~~iL  334 (468)
T 3pxg_A          259 VMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESIQIL  334 (468)
T ss_dssp             HHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHHHHH
T ss_pred             HHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhcCHHHHHhCccceeCCCCHHHHHHHH
Confidence            5555554567899999  22222233333332  223456655554331    0  111112246899999999999999


Q ss_pred             HHHhC
Q 048213          248 KKMAG  252 (532)
Q Consensus       248 ~~~~~  252 (532)
                      .....
T Consensus       335 ~~~~~  339 (468)
T 3pxg_A          335 QGLRD  339 (468)
T ss_dssp             HHTTT
T ss_pred             HHHHH
Confidence            87653

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.11  E-value=2.2e-05  Score=77.45  Aligned_cols=172  Identities=10%  Similarity=0.032  Sum_probs=100.3

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE--EeccC---chhhHHHHHHHHh
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI--FVEES---ESGRARSLCNRLK  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~--~~~~~---~~~~~~~l~~~l~  179 (532)
                      -..++|.+..++.+..++..++.+.+.++|+.|+||||+|+.+++..... .+...+  ....+   .......+.....
T Consensus        24 ~~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~~~-~~~~~~~~~~~~~~~~~~~ir~~i~~~~~  102 (340)
T 1sxj_C           24 LDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK-NYSNMVLELNASDDRGIDVVRNQIKDFAS  102 (340)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTT-SHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHcCC-CccceEEEEcCcccccHHHHHHHHHHHHh
Confidence            45678988889988888887766559999999999999999998864321 111111  11111   1111112222221


Q ss_pred             c-----cCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          180 K-----EKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       180 ~-----~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      .     +.+-++|+|+++..  ...+.+...+......+.+|++|.... +..........+.+.+++.++..+.+...+
T Consensus       103 ~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~l~~~~~~~~l~~~~  182 (340)
T 1sxj_C          103 TRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVL  182 (340)
T ss_dssp             BCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             hcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEeccCCCHHHHHHHHHHHH
Confidence            1     23678999998754  223333222221234566777765543 111111223478899999999888887765


Q ss_pred             CCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          252 GDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       252 ~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      .... ..-.++..+.++..++|.+--+
T Consensus       183 ~~~~-~~i~~~~~~~i~~~s~G~~r~~  208 (340)
T 1sxj_C          183 VHEK-LKLSPNAEKALIELSNGDMRRV  208 (340)
T ss_dssp             HTTT-CCBCHHHHHHHHHHHTTCHHHH
T ss_pred             HHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            2111 1112456778888888877543

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.10  E-value=1.6e-05  Score=81.26  Aligned_cols=191  Identities=15%  Similarity=0.105  Sum_probs=103.3

Q ss_pred             cccc-cchH--HHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEeccCc-hhhH--------
Q 048213          106 EAFE-SRMS--TFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEESE-SGRA--------  171 (532)
Q Consensus       106 ~~~~-gR~~--~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~~~-~~~~--------  171 (532)
                      ..|+ |...  ....+........ ...+.|+|++|+||||||+.+++...... ............ ....        
T Consensus       105 d~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~~~~~~~~~~~  184 (440)
T 2z4s_A          105 ENFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKL  184 (440)
T ss_dssp             GGCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHHHHHHHHTTCH
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHcccH
Confidence            4565 5332  2333333333332 67899999999999999999998754321 122222111111 0111        


Q ss_pred             HHHHHHHhccCcEEEEEcCCCCccc----ccccccccCC-CCCCeEEEEeecChHHh--------hhcCCCCceEEccCC
Q 048213          172 RSLCNRLKKEKMILVILDNIWENLD----FHAVGIPHGD-DHKGCKVLLTARSLDVL--------SRKMDSQQDFWVGVL  238 (532)
Q Consensus       172 ~~l~~~l~~~k~~LlVlDdv~~~~~----~~~l~~~~~~-~~~gs~ilvTtr~~~v~--------~~~~~~~~~~~l~~L  238 (532)
                      ..+.+.+. .+..+|++||++....    .+.+...+.. ...|..||+||....-.        ...+....++.+.++
T Consensus       185 ~~~~~~~~-~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p  263 (440)
T 2z4s_A          185 NEFREKYR-KKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPP  263 (440)
T ss_dssp             HHHHHHHT-TTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCC
T ss_pred             HHHHHHhc-CCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCC
Confidence            12222222 1567999999975432    1222222111 13467788888763210        001122357889999


Q ss_pred             CHHHHHHHHHHHhC--CCCCCcchHHHHHHHHHHcCCchHHHHHHHHHH------ccC--ChHHHHHHHHHh
Q 048213          239 KEDEAWSLFKKMAG--DYIEGSEFKWVAKDVAKKCAGLPVSIVTVARAL------RNK--RLFDWKDALEQL  300 (532)
Q Consensus       239 ~~~~~~~Lf~~~~~--~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l------~~~--~~~~w~~~l~~~  300 (532)
                      +.++-.+++.+.+.  +....   .+....|+..+.|.+-.+..+-..+      .++  +.+.+..++...
T Consensus       264 ~~e~r~~iL~~~~~~~~~~i~---~e~l~~la~~~~gn~R~l~~~L~~~~~~a~~~~~~It~~~~~~~l~~~  332 (440)
T 2z4s_A          264 DEETRKSIARKMLEIEHGELP---EEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGKEVDLKEAILLLKDF  332 (440)
T ss_dssp             CHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHCCSCHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHTSTT
T ss_pred             CHHHHHHHHHHHHHHcCCCCC---HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            99999999988764  11111   3446788889999886554332211      222  566666655443

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A

Probab=98.09  E-value=1.2e-06  Score=76.71  Aligned_cols=82  Identities=15%  Similarity=0.050  Sum_probs=45.5

Q ss_pred             ccCCcceEEeccccccCCCCCcccccC----CCCCEEecCCc-ccccccccccccccccCCCccEEEeccCCCCCccc--
Q 048213          430 GSSQLKHLSVRGLRASAPNPTESEVAL----PKLETVCLSSI-NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLF--  502 (532)
Q Consensus       430 ~l~~Lr~L~l~~~~~~~~~~~~~~~~l----~~L~~L~L~~~-~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~--  502 (532)
                      ++++|++|+|++|..........+..+    ++|++|+|++| +|+.-.-..+    ..+++|++|+|++|+.++...  
T Consensus        83 ~~~~L~~L~L~~C~~ItD~gL~~L~~~~~~~~~L~~L~Ls~C~~ITD~Gl~~L----~~~~~L~~L~L~~c~~Itd~gl~  158 (176)
T 3e4g_A           83 GLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIAL----HHFRNLKYLFLSDLPGVKEKEKI  158 (176)
T ss_dssp             TCSCCCEEEEESCTTCCHHHHHHHHTCHHHHHHCCEEEEESCTTCCHHHHHHG----GGCTTCCEEEEESCTTCCCHHHH
T ss_pred             CCCCCCEEEeCCCCccCHHHHHHHHhcccccCCCCEEEcCCCCcCCHHHHHHH----hcCCCCCEEECCCCCCCCchHHH
Confidence            445556666666643111222233332    36888888888 4653211111    356999999999999888641  


Q ss_pred             hhhhhhcCCCccE
Q 048213          503 TSSIISSFVGLQC  515 (532)
Q Consensus       503 p~~~~~~L~~L~~  515 (532)
                      ...+-..+|+++.
T Consensus       159 ~~~L~~~lP~l~V  171 (176)
T 3e4g_A          159 VQAFKTSLPSLEL  171 (176)
T ss_dssp             HHHHHHHCTTCEE
T ss_pred             HHHHHHHCCCcEE
Confidence            1222246677653

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.04  E-value=4.6e-05  Score=76.81  Aligned_cols=167  Identities=14%  Similarity=0.184  Sum_probs=98.7

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe---cc---
Q 048213          105 YEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV---EE---  165 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~---~~---  165 (532)
                      ...+.|-++.+++|.+.+.             -...+-|.++|++|.|||.||+++++.....  |-..-..   ..   
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~--~~~v~~s~l~sk~~G  257 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGAN--FIFSPASGIVDKYIG  257 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE--EEEEEGGGTCCSSSS
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC--EEEEehhhhccccch
Confidence            4567788888888776653             1345789999999999999999999986643  3222100   00   


Q ss_pred             CchhhHHHHHHHHhccCcEEEEEcCCCCcc--------c--------ccccccccC--CCCCCeEEEEeecChHHhh-hc
Q 048213          166 SESGRARSLCNRLKKEKMILVILDNIWENL--------D--------FHAVGIPHG--DDHKGCKVLLTARSLDVLS-RK  226 (532)
Q Consensus       166 ~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--------~--------~~~l~~~~~--~~~~gs~ilvTtr~~~v~~-~~  226 (532)
                      ........++........++|++|+++...        .        +..+...+.  ....+..||.||....... ..
T Consensus       258 ese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDpAl  337 (437)
T 4b4t_L          258 ESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPAL  337 (437)
T ss_dssp             HHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCTTT
T ss_pred             HHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCHHH
Confidence            112234445554444678999999997431        0        111111111  1233556777887665432 12


Q ss_pred             CCC---CceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          227 MDS---QQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       227 ~~~---~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      ...   ...+.++..+.++-.++|..+........+..  ...+++.+.|+-
T Consensus       338 lRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~d--l~~lA~~t~G~s  387 (437)
T 4b4t_L          338 LRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFD--FEAAVKMSDGFN  387 (437)
T ss_dssp             TSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCC--HHHHHHTCCSCC
T ss_pred             hCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccC--HHHHHHhCCCCC
Confidence            222   24677888888888888887764322211111  356777777753

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.03  E-value=0.0001  Score=73.39  Aligned_cols=168  Identities=14%  Similarity=0.174  Sum_probs=99.2

Q ss_pred             ccccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eecc-
Q 048213          103 KDYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEE-  165 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~-  165 (532)
                      .....+.|-++.+++|.+.+.             -...+-|.++|++|.|||.||+++++.....  |-..-   +... 
T Consensus       179 v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~--fi~v~~s~l~sk~  256 (437)
T 4b4t_I          179 ESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT--FLRIVGSELIQKY  256 (437)
T ss_dssp             CCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCE--EEEEESGGGCCSS
T ss_pred             CcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCC--EEEEEHHHhhhcc
Confidence            345567788888888776553             1345789999999999999999999987643  32221   0011 


Q ss_pred             --CchhhHHHHHHHHhccCcEEEEEcCCCCccc----------------ccccccccC--CCCCCeEEEEeecChHHhh-
Q 048213          166 --SESGRARSLCNRLKKEKMILVILDNIWENLD----------------FHAVGIPHG--DDHKGCKVLLTARSLDVLS-  224 (532)
Q Consensus       166 --~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtr~~~v~~-  224 (532)
                        ........++........++|++|+++....                ...+...+.  ....+..||.||....... 
T Consensus       257 vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDp  336 (437)
T 4b4t_I          257 LGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDP  336 (437)
T ss_dssp             SSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCT
T ss_pred             CchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCH
Confidence              1122344555555555789999999974310                001111111  1234556777777665442 


Q ss_pred             hcCCC---CceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          225 RKMDS---QQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       225 ~~~~~---~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      .....   ...+.+...+.++-.++|..+........+.  -...|++.+.|+
T Consensus       337 ALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dv--dl~~LA~~T~Gf  387 (437)
T 4b4t_I          337 ALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDV--NLETLVTTKDDL  387 (437)
T ss_dssp             TSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCC--CHHHHHHHCCSC
T ss_pred             HHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcC--CHHHHHHhCCCC
Confidence            12221   2357788888888889998877532222211  135667777765

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.01  E-value=5.8e-05  Score=75.94  Aligned_cols=166  Identities=15%  Similarity=0.199  Sum_probs=99.3

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eecc---
Q 048213          105 YEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEE---  165 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~---  165 (532)
                      ...+.|-++.+++|.+.+.             -...+-|.++|++|.|||.||+++++.....  |-..-   +...   
T Consensus       208 ~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~--fi~vs~s~L~sk~vG  285 (467)
T 4b4t_H          208 YSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDAT--FIRVIGSELVQKYVG  285 (467)
T ss_dssp             CSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCE--EEEEEGGGGCCCSSS
T ss_pred             HHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCC--eEEEEhHHhhcccCC
Confidence            3468888888888876543             2356889999999999999999999986643  32221   0011   


Q ss_pred             CchhhHHHHHHHHhccCcEEEEEcCCCCccc----------------ccccccccC--CCCCCeEEEEeecChHHhh-hc
Q 048213          166 SESGRARSLCNRLKKEKMILVILDNIWENLD----------------FHAVGIPHG--DDHKGCKVLLTARSLDVLS-RK  226 (532)
Q Consensus       166 ~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtr~~~v~~-~~  226 (532)
                      ........++........++|++|+++....                ...+...+.  ....+..||.||....... ..
T Consensus       286 esek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpAL  365 (467)
T 4b4t_H          286 EGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPAL  365 (467)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHHH
T ss_pred             HHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChhh
Confidence            1122344455554446789999999974310                001111111  1233455667776554331 11


Q ss_pred             C---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          227 M---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       227 ~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      .   .-...+.+...+.++-.++|..+........+..  ...|++.|.|.
T Consensus       366 lRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvd--l~~LA~~T~Gf  414 (467)
T 4b4t_H          366 LRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIR--WELISRLCPNS  414 (467)
T ss_dssp             HSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCC--HHHHHHHCCSC
T ss_pred             hccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCC--HHHHHHHCCCC
Confidence            1   2345788888888888999988776332222111  35677788775

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.99  E-value=4.6e-06  Score=71.24  Aligned_cols=110  Identities=12%  Similarity=0.055  Sum_probs=62.5

Q ss_pred             ccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhc-cCCCCEEEEeccCchhhHHHHHHHHhccCc
Q 048213          107 AFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN-EKLFDRVIFVEESESGRARSLCNRLKKEKM  183 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~  183 (532)
                      .++|+...+.++.+.+.  .....-|.|+|..|+|||++|+.+++.... ...|-..+ ...........   .+.....
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v~~~-~~~~~~~~~~~---~~~~a~~   77 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFVYRE-LTPDNAPQLND---FIALAQG   77 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCEEEE-CCTTTSSCHHH---HHHHHTT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEEEEC-CCCCcchhhhc---HHHHcCC
Confidence            57899999999888775  233345789999999999999999886422 22343111 11111111111   1211234


Q ss_pred             EEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecCh
Q 048213          184 ILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSL  220 (532)
Q Consensus       184 ~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~  220 (532)
                      ..|++|+++...  ....+...+.......++|.||...
T Consensus        78 g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~~  116 (145)
T 3n70_A           78 GTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDTS  116 (145)
T ss_dssp             SCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESSC
T ss_pred             cEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCcC
Confidence            579999998653  2223322222233456788777653

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.99  E-value=2.4e-05  Score=78.72  Aligned_cols=169  Identities=14%  Similarity=0.172  Sum_probs=98.5

Q ss_pred             cccccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eecc
Q 048213          102 NKDYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEE  165 (532)
Q Consensus       102 ~~~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~  165 (532)
                      ......+.|-++.+++|.+.+.             -...+-|.++|++|.|||.||+++++.....  |-..-   +...
T Consensus       177 ~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~--f~~v~~s~l~~~  254 (434)
T 4b4t_M          177 TETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT--FLKLAAPQLVQM  254 (434)
T ss_dssp             SCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCE--EEEEEGGGGCSS
T ss_pred             CCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCC--EEEEehhhhhhc
Confidence            3345678899988888877643             1346789999999999999999999986543  32221   0001


Q ss_pred             ---CchhhHHHHHHHHhccCcEEEEEcCCCCcc------------c----ccccccccCC--CCCCeEEEEeecChHHhh
Q 048213          166 ---SESGRARSLCNRLKKEKMILVILDNIWENL------------D----FHAVGIPHGD--DHKGCKVLLTARSLDVLS  224 (532)
Q Consensus       166 ---~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~~~~~~--~~~gs~ilvTtr~~~v~~  224 (532)
                         ........++........++|++|+++...            .    ...+...+..  ...+..||.||.......
T Consensus       255 ~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD  334 (434)
T 4b4t_M          255 YIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLD  334 (434)
T ss_dssp             CSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCC
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcC
Confidence               112234445544444578999999987320            0    1112112211  123445666777655432


Q ss_pred             h-cCC---CCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          225 R-KMD---SQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       225 ~-~~~---~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      . ...   -...+.++..+.++-.++|..+........+..  ...|++.+.|+
T Consensus       335 ~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvd--l~~lA~~t~G~  386 (434)
T 4b4t_M          335 PALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDIN--WQELARSTDEF  386 (434)
T ss_dssp             TTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCC--HHHHHHHCSSC
T ss_pred             HhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCC--HHHHHHhCCCC
Confidence            1 122   224678888888888888877654211111111  35677777775

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.98  E-value=3e-05  Score=86.13  Aligned_cols=144  Identities=10%  Similarity=0.092  Sum_probs=83.5

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC------CCCEEEEecc----------Cch
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK------LFDRVIFVEE----------SES  168 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~------~F~~~~~~~~----------~~~  168 (532)
                      ...++||++++.++++.+.......+.++|++|+|||++|+.+++......      .......+..          ...
T Consensus       169 ld~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~~~~g~~~  248 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFE  248 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHH
T ss_pred             CcccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccCccchHHH
Confidence            346899999999999998876666789999999999999999998753210      1111111111          111


Q ss_pred             hhHHHHHHHHhc-cCcEEEEEcCCCCcc-------ccc---ccccccCCCCCCeEEEEeecChHH-----hhhcCCCCce
Q 048213          169 GRARSLCNRLKK-EKMILVILDNIWENL-------DFH---AVGIPHGDDHKGCKVLLTARSLDV-----LSRKMDSQQD  232 (532)
Q Consensus       169 ~~~~~l~~~l~~-~k~~LlVlDdv~~~~-------~~~---~l~~~~~~~~~gs~ilvTtr~~~v-----~~~~~~~~~~  232 (532)
                      .....+.+.+.. +++.+|++|++....       .++   .+...+ . ..+..+|.+|.....     ..........
T Consensus       249 ~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l-~-~~~i~~I~at~~~~~~~~~~d~aL~rRf~~  326 (854)
T 1qvr_A          249 ERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPAL-A-RGELRLIGATTLDEYREIEKDPALERRFQP  326 (854)
T ss_dssp             HHHHHHHHHHHTTCSSEEEEECCC-------------------HHHH-H-TTCCCEEEEECHHHHHHHTTCTTTCSCCCC
T ss_pred             HHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHH-h-CCCeEEEEecCchHHhhhccCHHHHhCCce
Confidence            123334444433 367899999997642       121   122222 1 123345555543322     1112222346


Q ss_pred             EEccCCCHHHHHHHHHHH
Q 048213          233 FWVGVLKEDEAWSLFKKM  250 (532)
Q Consensus       233 ~~l~~L~~~~~~~Lf~~~  250 (532)
                      +.+++++.++..+++...
T Consensus       327 i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          327 VYVDEPTVEETISILRGL  344 (854)
T ss_dssp             EEECCCCHHHHHHHHHHH
T ss_pred             EEeCCCCHHHHHHHHHhh
Confidence            899999999999998754

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=97.94  E-value=3.8e-05  Score=74.18  Aligned_cols=139  Identities=16%  Similarity=0.059  Sum_probs=88.4

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh-c-cCCCCEEEEeccC---chhhHHHHHHHHh----cc
Q 048213          111 RMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE-N-EKLFDRVIFVEES---ESGRARSLCNRLK----KE  181 (532)
Q Consensus       111 R~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~-~-~~~F~~~~~~~~~---~~~~~~~l~~~l~----~~  181 (532)
                      -++.++.+.+.+..++.+...++|+.|+||||+|..+++... . ..+.+.......+   ..+.+..+.+...    .+
T Consensus         2 ~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~~~   81 (305)
T 2gno_A            2 AKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELY   81 (305)
T ss_dssp             --CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSS
T ss_pred             hHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccccC
Confidence            345567777777766678999999999999999999987521 1 1234544444322   1122344444443    24


Q ss_pred             CcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          182 KMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       182 k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      ++-++|+|+++..  ...+.+...+..-...+.+|++|.+.. +... .... .+.+.++++++..+.+.+..
T Consensus        82 ~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~t-I~SR-~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A           82 TRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPT-IKSR-VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             SSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHH-HHTT-SEEEECCCCHHHHHHHHHHH
T ss_pred             CceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHH-HHce-eEeCCCCCHHHHHHHHHHHh
Confidence            5679999999865  344555444433345677777665543 3222 2223 99999999999999998876

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.94  E-value=2e-06  Score=81.19  Aligned_cols=82  Identities=20%  Similarity=0.127  Sum_probs=49.2

Q ss_pred             ccCCcceEEecccccc-CCCCCcccccCCCCCEEecCCcccccccccccccccccCC--CccEEEeccCCCCCccch---
Q 048213          430 GSSQLKHLSVRGLRAS-APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQ--NLKRLILFNCWNLTCLFT---  503 (532)
Q Consensus       430 ~l~~Lr~L~l~~~~~~-~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~--~L~~L~L~~c~~l~~l~p---  503 (532)
                      .+++|+.|+|++|++. +...+..+..+++|++|+|++|.|+.+.+ +     ..|.  +|+.|+|++++-...+ |   
T Consensus       168 ~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~~~-l-----~~l~~l~L~~L~L~~Npl~~~~-~~~~  240 (267)
T 3rw6_A          168 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERE-L-----DKIKGLKLEELWLDGNSLCDTF-RDQS  240 (267)
T ss_dssp             HCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSGGG-G-----GGGTTSCCSEEECTTSTTGGGC-SSHH
T ss_pred             hCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCchh-h-----hhcccCCcceEEccCCcCcccc-Ccch
Confidence            3455555555555440 11233455678888888888888776622 2     2233  8888888886643333 2   


Q ss_pred             ---hhhhhcCCCccEEEe
Q 048213          504 ---SSIISSFVGLQCLEI  518 (532)
Q Consensus       504 ---~~~~~~L~~L~~L~l  518 (532)
                         ..++..+|+|+.|+=
T Consensus       241 ~y~~~il~~~P~L~~LDg  258 (267)
T 3rw6_A          241 TYISAIRERFPKLLRLDG  258 (267)
T ss_dssp             HHHHHHHHHCTTCCEESS
T ss_pred             hHHHHHHHHCcccCeECC
Confidence               123367888888764

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.89  E-value=0.00014  Score=68.32  Aligned_cols=171  Identities=15%  Similarity=0.158  Sum_probs=93.0

Q ss_pred             cccccccchHHHHHHHHHhc---C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc------
Q 048213          104 DYEAFESRMSTFNDILNALK---S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE------  165 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~---~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~------  165 (532)
                      .-..++|.+..++++.+.+.   .         ...+-+.|+|++|+||||+|+.+++.....  |  ......      
T Consensus        10 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~--~--~~i~~~~~~~~~   85 (257)
T 1lv7_A           10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP--F--FTISGSDFVEMF   85 (257)
T ss_dssp             CGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC--E--EEECSCSSTTSC
T ss_pred             CHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCC--E--EEEeHHHHHHHh
Confidence            35568888887776655432   1         123568899999999999999999875422  2  111111      


Q ss_pred             --CchhhHHHHHHHHhccCcEEEEEcCCCCccc----------------ccccccccC--CCCCCeEEEEeecChHHh-h
Q 048213          166 --SESGRARSLCNRLKKEKMILVILDNIWENLD----------------FHAVGIPHG--DDHKGCKVLLTARSLDVL-S  224 (532)
Q Consensus       166 --~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~----------------~~~l~~~~~--~~~~gs~ilvTtr~~~v~-~  224 (532)
                        ........+.+........++++|+++....                ...+...+.  ....+..||.||...... .
T Consensus        86 ~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l~~  165 (257)
T 1lv7_A           86 VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDP  165 (257)
T ss_dssp             CCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCG
T ss_pred             hhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhCCH
Confidence              1112233444444434568999999853210                011111111  113345677777665422 1


Q ss_pred             hcC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCC-chHHHHH
Q 048213          225 RKM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAG-LPVSIVT  280 (532)
Q Consensus       225 ~~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~g-lPLai~~  280 (532)
                      ...   .-...+.+...+.++-.+++..........++.  ....++..+.| .+--|..
T Consensus       166 ~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~--~~~~la~~~~G~~~~dl~~  223 (257)
T 1lv7_A          166 ALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI--DAAIIARGTPGFSGADLAN  223 (257)
T ss_dssp             GGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCCHHHHHH
T ss_pred             HHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccc--cHHHHHHHcCCCCHHHHHH
Confidence            111   123467788888888888887766422111111  13456667777 5544443

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.89  E-value=0.00064  Score=66.62  Aligned_cols=193  Identities=16%  Similarity=0.059  Sum_probs=104.1

Q ss_pred             cccccccchHHHHHHHHHhcC-----CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHH
Q 048213          104 DYEAFESRMSTFNDILNALKS-----PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRL  178 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~~-----~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l  178 (532)
                      .-..++|.+..++.+-..+..     .....+.++|++|+||||||+.+++.....  |...-............+...+
T Consensus        23 ~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~--~~~~sg~~~~~~~~l~~~~~~~  100 (334)
T 1in4_A           23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTN--IHVTSGPVLVKQGDMAAILTSL  100 (334)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCC--EEEEETTTCCSHHHHHHHHHHC
T ss_pred             cHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCC--EEEEechHhcCHHHHHHHHHHc
Confidence            345678888777776655542     344679999999999999999999876432  2111000001111122222222


Q ss_pred             hccCcEEEEEcCCCCcc--cccccccccCCC--------C----------CCeEEEE-eecChHHhh-hcCCCCceEEcc
Q 048213          179 KKEKMILVILDNIWENL--DFHAVGIPHGDD--------H----------KGCKVLL-TARSLDVLS-RKMDSQQDFWVG  236 (532)
Q Consensus       179 ~~~k~~LlVlDdv~~~~--~~~~l~~~~~~~--------~----------~gs~ilv-Ttr~~~v~~-~~~~~~~~~~l~  236 (532)
                        .++.++++|++....  ..+.+...+...        +          ....++- |++...+.. ..........++
T Consensus       101 --~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~~~Ls~~l~sR~~l~~~Ld  178 (334)
T 1in4_A          101 --ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELD  178 (334)
T ss_dssp             --CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECC
T ss_pred             --cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCcccCCHHHHHhcCceeeCC
Confidence              244578889886542  111111100000        0          0122332 333322211 111223368899


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHH------cc--C-ChHHHHHHHHHhc
Q 048213          237 VLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARAL------RN--K-RLFDWKDALEQLR  301 (532)
Q Consensus       237 ~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l------~~--~-~~~~w~~~l~~~~  301 (532)
                      +.+.++-.+++.+.+.... ..-..+.+..|++.+.|.|-.+..+-..+      .+  . +.+....+++.+.
T Consensus       179 ~~~~~~l~~iL~~~~~~~~-~~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a~~~~~~~It~~~v~~al~~~~  251 (334)
T 1in4_A          179 FYTVKELKEIIKRAASLMD-VEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDMLTVVKADRINTDIVLKTMEVLN  251 (334)
T ss_dssp             CCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHHTCSSBCHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHcC-CCcCHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHhC
Confidence            9999999999988764111 12335678999999999996543332221      11  2 5666666666654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.85  E-value=5e-05  Score=83.28  Aligned_cols=144  Identities=13%  Similarity=0.131  Sum_probs=84.7

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC----CCCEEEEe-------ccCchhhHHH
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK----LFDRVIFV-------EESESGRARS  173 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~~~-------~~~~~~~~~~  173 (532)
                      ...++||+.++++++..+......-+.++|++|+|||++|+.+++......    ..+..++.       ..........
T Consensus       179 ld~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~~G~~e~~l~~  258 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGEFEDRLKK  258 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC----------CTTHHH
T ss_pred             CCCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccccccchHHHHHHH
Confidence            346999999999999999866666788999999999999999998752110    00111110       0111223444


Q ss_pred             HHHHHhccCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHH----h--hhcCCCCceEEccCCCHHHHHHHH
Q 048213          174 LCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDV----L--SRKMDSQQDFWVGVLKEDEAWSLF  247 (532)
Q Consensus       174 l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v----~--~~~~~~~~~~~l~~L~~~~~~~Lf  247 (532)
                      +.+.....++.+|++|  ...+..+.+...+.  ....++|.||.....    .  .........+.++..+.++..+++
T Consensus       259 ~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il  334 (758)
T 3pxi_A          259 VMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQPSVDESIQIL  334 (758)
T ss_dssp             HHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCCCHHHHHHHH
T ss_pred             HHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHH
Confidence            5555554577899999  22222233333332  223556665554431    0  001112247899999999999999


Q ss_pred             HHHhC
Q 048213          248 KKMAG  252 (532)
Q Consensus       248 ~~~~~  252 (532)
                      .....
T Consensus       335 ~~~~~  339 (758)
T 3pxi_A          335 QGLRD  339 (758)
T ss_dssp             HHTTT
T ss_pred             HHHHH
Confidence            86543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.85  E-value=0.00011  Score=80.48  Aligned_cols=145  Identities=13%  Similarity=0.138  Sum_probs=89.0

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC----CCCEEEEe---------c---cCch
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK----LFDRVIFV---------E---ESES  168 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~~~---------~---~~~~  168 (532)
                      ...++||+.+++++++.+......-+.|+|++|+|||++|+.+++......    ..+..++.         .   ....
T Consensus       185 ~d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~~~g~~e  264 (758)
T 1r6b_X          185 IDPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE  264 (758)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHH
T ss_pred             CCCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhccccccchHH
Confidence            346899999999999999876667789999999999999999998653211    01222211         0   1112


Q ss_pred             hhHHHHHHHHhccCcEEEEEcCCCCcc--------c---ccccccccCCCCCCeEEEEeecChHHhhh------cCCCCc
Q 048213          169 GRARSLCNRLKKEKMILVILDNIWENL--------D---FHAVGIPHGDDHKGCKVLLTARSLDVLSR------KMDSQQ  231 (532)
Q Consensus       169 ~~~~~l~~~l~~~k~~LlVlDdv~~~~--------~---~~~l~~~~~~~~~gs~ilvTtr~~~v~~~------~~~~~~  231 (532)
                      .....+.+.+...+..+|++|++....        .   .+.+...+ . ..+..+|.+|........      ......
T Consensus       265 ~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l-~-~~~~~~I~at~~~~~~~~~~~d~aL~~Rf~  342 (758)
T 1r6b_X          265 KRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLL-S-SGKIRVIGSTTYQEFSNIFEKDRALARRFQ  342 (758)
T ss_dssp             HHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCS-S-SCCCEEEEEECHHHHHCCCCCTTSSGGGEE
T ss_pred             HHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHH-h-CCCeEEEEEeCchHHhhhhhcCHHHHhCce
Confidence            234445555544457999999997541        1   11222222 2 234556666654432110      111123


Q ss_pred             eEEccCCCHHHHHHHHHHHh
Q 048213          232 DFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       232 ~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      .+.++..+.++..+++....
T Consensus       343 ~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          343 KIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             EEECCCCCHHHHHHHHHHHH
T ss_pred             EEEcCCCCHHHHHHHHHHHH
Confidence            68899999999888887644

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=97.85  E-value=0.0001  Score=72.07  Aligned_cols=156  Identities=12%  Similarity=0.043  Sum_probs=86.0

Q ss_pred             HHHHHHHhcCC--CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc-hhh--------HHHHHHHHhccCc
Q 048213          115 FNDILNALKSP--DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE-SGR--------ARSLCNRLKKEKM  183 (532)
Q Consensus       115 ~~~i~~~l~~~--~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~-~~~--------~~~l~~~l~~~k~  183 (532)
                      ...+.......  ....+.|+|++|+||||||+.+++..... .+.......... ...        ...+.+.+.  +.
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~-~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~--~~   99 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR-GYRVIYSSADDFAQAMVEHLKKGTINEFRNMYK--SV   99 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT-TCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHH--TC
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC-CCEEEEEEHHHHHHHHHHHHHcCcHHHHHHHhc--CC
Confidence            33444444332  35689999999999999999999876432 133222221111 011        111222222  35


Q ss_pred             EEEEEcCCCCccc---c-cccccccCC-CCCCeEEEEeecChHHh--------hhcCCCCceEEccCCCHHHHHHHHHHH
Q 048213          184 ILVILDNIWENLD---F-HAVGIPHGD-DHKGCKVLLTARSLDVL--------SRKMDSQQDFWVGVLKEDEAWSLFKKM  250 (532)
Q Consensus       184 ~LlVlDdv~~~~~---~-~~l~~~~~~-~~~gs~ilvTtr~~~v~--------~~~~~~~~~~~l~~L~~~~~~~Lf~~~  250 (532)
                      .+|++||+.....   + +.+...+.. ...|..||+||....-.        ........++.+.+ +.++..+++...
T Consensus       100 ~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~  178 (324)
T 1l8q_A          100 DLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIKEK  178 (324)
T ss_dssp             SEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHHHH
T ss_pred             CEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHHHH
Confidence            7999999976531   1 222112110 12356788887643210        00112225689999 999999999887


Q ss_pred             hCCCCCCcchHHHHHHHHHHcCCchH
Q 048213          251 AGDYIEGSEFKWVAKDVAKKCAGLPV  276 (532)
Q Consensus       251 ~~~~~~~~~~~~~~~~i~~~c~glPL  276 (532)
                      +.... ..-.++....|++.+ |..-
T Consensus       179 ~~~~~-~~l~~~~l~~l~~~~-g~~r  202 (324)
T 1l8q_A          179 LKEFN-LELRKEVIDYLLENT-KNVR  202 (324)
T ss_dssp             HHHTT-CCCCHHHHHHHHHHC-SSHH
T ss_pred             HHhcC-CCCCHHHHHHHHHhC-CCHH
Confidence            64111 112256677888888 7654

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.84  E-value=7.3e-06  Score=73.20  Aligned_cols=57  Identities=12%  Similarity=0.046  Sum_probs=33.5

Q ss_pred             hhccccccEEEeccc-cccC------cccccccccccEEeecccccccc----------ccCCcceEEeccccc
Q 048213          388 LGLLTNLQTLCLYYC-KLQD------TSVLGELKILEILRLRVNELTRA----------GSSQLKHLSVRGLRA  444 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~-~l~~------~~~i~~l~~L~~L~l~~~~l~~~----------~l~~Lr~L~l~~~~~  444 (532)
                      +...++|++|++++| .+.+      ...+...++|++|+|++|.+...          ..+.|++|+|++|.+
T Consensus        32 l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i~~~g~~~l~~~L~~n~~L~~L~L~~N~i  105 (185)
T 1io0_A           32 QNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFI  105 (185)
T ss_dssp             HTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCC
T ss_pred             HhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCCChHHHHHHHHHHHhCCCcCEEECcCCcC
Confidence            455667777888777 6654      12344556677777777766543          224455555555543

>1io0_A Tropomodulin; LRR protein, right-handed super-helix, protein binding; 1.45A {Gallus gallus} SCOP: c.10.1.1

Probab=97.81  E-value=9.9e-06  Score=72.32  Aligned_cols=111  Identities=14%  Similarity=0.003  Sum_probs=77.3

Q ss_pred             cccccccccEEeeccc-ccccc----------ccCCcceEEeccccccCCC----CCcccccCCCCCEEecCCccccccc
Q 048213          409 VLGELKILEILRLRVN-ELTRA----------GSSQLKHLSVRGLRASAPN----PTESEVALPKLETVCLSSINIERIW  473 (532)
Q Consensus       409 ~i~~l~~L~~L~l~~~-~l~~~----------~l~~Lr~L~l~~~~~~~~~----~~~~~~~l~~L~~L~L~~~~l~~lp  473 (532)
                      .+...+.|++|+|++| .+...          ..++|++|+|++|.+ ...    +...+...++|++|+|++|.|..-.
T Consensus        31 ~l~~~~~L~~L~L~~n~~i~~~g~~~l~~~L~~~~~L~~L~Ls~n~i-~~~g~~~l~~~L~~n~~L~~L~L~~N~i~~~g  109 (185)
T 1io0_A           31 IQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRS-NDPVAFALAEMLKVNNTLKSLNVESNFISGSG  109 (185)
T ss_dssp             HHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCC-CHHHHHHHHHHHHHCSSCCEEECCSSCCCHHH
T ss_pred             HHhcCCCCCEEEecCCCCCCHHHHHHHHHHHHhCCCcCEEECcCCCC-ChHHHHHHHHHHHhCCCcCEEECcCCcCCHHH
Confidence            4667889999999999 88764          457899999999976 221    1234455689999999999887522


Q ss_pred             ccccccccccCCCccEEEe--ccCCCCCccc----hhhhhhcCCCccEEEeecCC
Q 048213          474 QNQVAAMSCGIQNLKRLIL--FNCWNLTCLF----TSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       474 ~~~~~~~~~~L~~L~~L~L--~~c~~l~~l~----p~~~~~~L~~L~~L~l~~c~  522 (532)
                      -..+.......++|++|+|  ++ +.++.-.    ...+ ...++|++|+|++|.
T Consensus       110 ~~~l~~~L~~n~~L~~L~L~~~~-N~i~~~g~~~l~~~L-~~n~~L~~L~L~~n~  162 (185)
T 1io0_A          110 ILALVEALQSNTSLIELRIDNQS-QPLGNNVEMEIANML-EKNTTLLKFGYHFTQ  162 (185)
T ss_dssp             HHHHHHGGGGCSSCCEEECCCCS-SCCCHHHHHHHHHHH-HHCSSCCEEECCCSS
T ss_pred             HHHHHHHHHhCCCceEEEecCCC-CCCCHHHHHHHHHHH-HhCCCcCEEeccCCC
Confidence            1111111145678999999  54 4565421    2333 466899999999885

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis}

Probab=97.80  E-value=1.4e-05  Score=79.28  Aligned_cols=136  Identities=18%  Similarity=0.213  Sum_probs=85.1

Q ss_pred             chhhhccccccEEEecccccc----------Cc-ccccccccccEEeecccc-c--cccccCCcceEEeccccccCCCCC
Q 048213          385 PSSLGLLTNLQTLCLYYCKLQ----------DT-SVLGELKILEILRLRVNE-L--TRAGSSQLKHLSVRGLRASAPNPT  450 (532)
Q Consensus       385 p~~~~~l~~L~~L~l~~~~l~----------~~-~~i~~l~~L~~L~l~~~~-l--~~~~l~~Lr~L~l~~~~~~~~~~~  450 (532)
                      +.++..+++|+.|.+......          ++ ..+..+++|+.|.|++|. +  ..+.+++|++|.|..|.. .....
T Consensus       132 ~~s~~~l~~L~~L~l~~~~~e~~~is~~~~~~L~~ll~~~P~L~~L~L~g~~~l~l~~~~~~~L~~L~L~~~~l-~~~~l  210 (362)
T 2ra8_A          132 VENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGTNNLSIGKKPRPNLKSLEIISGGL-PDSVV  210 (362)
T ss_dssp             HTTHHHHTTCSEEEECCCCTTTCCGGGCBCCBCHHHHHTCTTCCEEEEECCBTCBCCSCBCTTCSEEEEECSBC-CHHHH
T ss_pred             HHhhhhcchhhheeecCcchhhcccccccccCHHHHHhcCCCCcEEEEeCCCCceeccccCCCCcEEEEecCCC-ChHHH
Confidence            345667889999988654221          12 345678999999998873 2  222578999999998865 22222


Q ss_pred             ccc--ccCCCCCEEecCCc--c------cccccccccccccccCCCccEEEeccCCCCCccchhhhh--hcCCCccEEEe
Q 048213          451 ESE--VALPKLETVCLSSI--N------IERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSII--SSFVGLQCLEI  518 (532)
Q Consensus       451 ~~~--~~l~~L~~L~L~~~--~------l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~--~~L~~L~~L~l  518 (532)
                      ..+  ..+|+|++|+|+.+  +      +..+...+ .  ...+++|++|+|++|...... +..++  +.+++|++|+|
T Consensus       211 ~~l~~~~lp~L~~L~L~~~~~~~~~~~~~~~l~~~l-~--~~~~p~Lr~L~L~~~~i~~~~-~~~la~a~~~~~L~~LdL  286 (362)
T 2ra8_A          211 EDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLF-S--KDRFPNLKWLGIVDAEEQNVV-VEMFLESDILPQLETMDI  286 (362)
T ss_dssp             HHHHHSBCTTCCEEEEECBCGGGTCCSCGGGTGGGS-C--TTTCTTCCEEEEESCTTHHHH-HHHHHHCSSGGGCSEEEC
T ss_pred             HHHHHccCCCCcEEEEeccccccccchhHHHHHHHH-h--cCCCCCcCEEeCCCCCCchHH-HHHHHhCccCCCCCEEEC
Confidence            223  37899999998632  1      22221111 0  023699999999987643222 22332  25789999999


Q ss_pred             ecCCcccc
Q 048213          519 CECPVLKE  526 (532)
Q Consensus       519 ~~c~~L~~  526 (532)
                      +.| .|..
T Consensus       287 s~n-~L~d  293 (362)
T 2ra8_A          287 SAG-VLTD  293 (362)
T ss_dssp             CSS-CCBH
T ss_pred             CCC-CCCh
Confidence            865 3543

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.78  E-value=0.00015  Score=72.87  Aligned_cols=167  Identities=16%  Similarity=0.156  Sum_probs=92.3

Q ss_pred             cccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe---cc--
Q 048213          104 DYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV---EE--  165 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~---~~--  165 (532)
                      ....+.|-++.+++|.+.+.             -...+-|.++|++|+|||+||+++++.....  |-..-..   ..  
T Consensus       170 ~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~--~~~v~~~~l~~~~~  247 (428)
T 4b4t_K          170 TYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAA--FIRVNGSEFVHKYL  247 (428)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCE--EEEEEGGGTCCSSC
T ss_pred             CHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCC--eEEEecchhhcccc
Confidence            34567888888888877654             1345779999999999999999999986543  3222100   01  


Q ss_pred             -CchhhHHHHHHHHhccCcEEEEEcCCCCcc--------c--------ccccccccC--CCCCCeEEEEeecChHHh-hh
Q 048213          166 -SESGRARSLCNRLKKEKMILVILDNIWENL--------D--------FHAVGIPHG--DDHKGCKVLLTARSLDVL-SR  225 (532)
Q Consensus       166 -~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--------~--------~~~l~~~~~--~~~~gs~ilvTtr~~~v~-~~  225 (532)
                       .....+..++........+++++|+++...        .        ...+...+.  ....+..||.||...... ..
T Consensus       248 Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~~~LD~A  327 (428)
T 4b4t_K          248 GEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPA  327 (428)
T ss_dssp             SHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCSSSCCHH
T ss_pred             chhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhcChh
Confidence             112234445555544578999999996321        0        111111111  123455677788765432 11


Q ss_pred             cCC---CCceEEccCCC-HHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          226 KMD---SQQDFWVGVLK-EDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       226 ~~~---~~~~~~l~~L~-~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                      ...   -...+.+..++ .++-..+|..+.......++.  -...+++.+.|.
T Consensus       328 llRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~--dl~~lA~~t~G~  378 (428)
T 4b4t_K          328 LLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEA--DLDSLIIRNDSL  378 (428)
T ss_dssp             HHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTC--CHHHHHHHTTTC
T ss_pred             hhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCccc--CHHHHHHHCCCC
Confidence            111   12356675554 455556666655322111111  135667777765

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.76  E-value=2.4e-05  Score=74.18  Aligned_cols=145  Identities=17%  Similarity=0.154  Sum_probs=80.7

Q ss_pred             ccccccchHHHHHHHHHhc------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEE-E------Eecc
Q 048213          105 YEAFESRMSTFNDILNALK------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRV-I------FVEE  165 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~-~------~~~~  165 (532)
                      ...++|.+..++.+.+.+.            ....+-+.|+|++|+|||++|+.+++.....  |-.. .      +...
T Consensus        10 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~--~~~v~~~~~~~~~~~~   87 (268)
T 2r62_A           10 FKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVP--FFSMGGSSFIEMFVGL   87 (268)
T ss_dssp             STTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCC--CCCCCSCTTTTSCSSS
T ss_pred             HHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCC--EEEechHHHHHhhcch
Confidence            4568888877777766543            1223457899999999999999999875432  2110 0      0000


Q ss_pred             CchhhHHHHHHHHhccCcEEEEEcCCCCcc-----------------cccccccccCC---CCCCeEEEEeecChHHhh-
Q 048213          166 SESGRARSLCNRLKKEKMILVILDNIWENL-----------------DFHAVGIPHGD---DHKGCKVLLTARSLDVLS-  224 (532)
Q Consensus       166 ~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-----------------~~~~l~~~~~~---~~~gs~ilvTtr~~~v~~-  224 (532)
                      .. .....+.+.....+..+|++|+++...                 ....+...+..   ......||.||....... 
T Consensus        88 ~~-~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~~~~ld~  166 (268)
T 2r62_A           88 GA-SRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDP  166 (268)
T ss_dssp             CS-SSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSCCTTSCG
T ss_pred             HH-HHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecCCchhcCH
Confidence            11 111122233332356899999996431                 12223222211   112345677776554221 


Q ss_pred             hcC---CCCceEEccCCCHHHHHHHHHHHhC
Q 048213          225 RKM---DSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       225 ~~~---~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      ...   .-...+.+...+.++-.+++...+.
T Consensus       167 ~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~  197 (268)
T 2r62_A          167 ALMRPGRFDRQVLVDKPDFNGRVEILKVHIK  197 (268)
T ss_dssp             GGGSSSSSCCCCBCCCCCTTTHHHHHHHHTS
T ss_pred             hHcCCCCCCeEEEecCcCHHHHHHHHHHHHh
Confidence            111   1234677888888888888877654

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.76  E-value=0.00028  Score=72.70  Aligned_cols=173  Identities=11%  Similarity=0.125  Sum_probs=98.7

Q ss_pred             ccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---EeccCc-
Q 048213          105 YEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEESE-  167 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~~~-  167 (532)
                      ...++|.+..+++|.+++.             ....+-|.|+|++|+|||++|+.+++....  .|-..-   +...-. 
T Consensus       203 ~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~--~fv~vn~~~l~~~~~g  280 (489)
T 3hu3_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGA--FFFLINGPEIMSKLAG  280 (489)
T ss_dssp             GGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSS--EEEEEEHHHHHTSCTT
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCC--CEEEEEchHhhhhhcc
Confidence            3468899999998888764             234567999999999999999999886532  121111   000001 


Q ss_pred             --hhhHHHHHHHHhccCcEEEEEcCCCCcc-------------cccccccccC--CCCCCeEEEEeecChHHh-hhcC--
Q 048213          168 --SGRARSLCNRLKKEKMILVILDNIWENL-------------DFHAVGIPHG--DDHKGCKVLLTARSLDVL-SRKM--  227 (532)
Q Consensus       168 --~~~~~~l~~~l~~~k~~LlVlDdv~~~~-------------~~~~l~~~~~--~~~~gs~ilvTtr~~~v~-~~~~--  227 (532)
                        ......+.+....++..+|+||+++...             ....+...+.  ....+..||.||...... ....  
T Consensus       281 ~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~  360 (489)
T 3hu3_A          281 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRF  360 (489)
T ss_dssp             HHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGST
T ss_pred             hhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCC
Confidence              1122233333334577899999995321             0111211111  123355667777765332 1111  


Q ss_pred             -CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc-hHHHHHH
Q 048213          228 -DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL-PVSIVTV  281 (532)
Q Consensus       228 -~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~  281 (532)
                       .-...+.+...+.++-.++|...+.......+  ....+++..+.|. +-.+..+
T Consensus       361 gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~--~~l~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          361 GRFDREVDIGIPDATGRLEILQIHTKNMKLADD--VDLEQVANETHGHVGADLAAL  414 (489)
T ss_dssp             TSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTT--CCHHHHHHTCTTCCHHHHHHH
T ss_pred             CcCceEEEeCCCCHHHHHHHHHHHHhcCCCcch--hhHHHHHHHccCCcHHHHHHH
Confidence             22346889999999999999988753221111  1135566677764 5444444

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.74  E-value=1.8e-05  Score=70.17  Aligned_cols=104  Identities=13%  Similarity=0.057  Sum_probs=56.4

Q ss_pred             chHHHHHHHHHhcC---CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHH------------HHH
Q 048213          111 RMSTFNDILNALKS---PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRAR------------SLC  175 (532)
Q Consensus       111 R~~~~~~i~~~l~~---~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~------------~l~  175 (532)
                      ....++.+.+++.+   .....+.|+|+.|+||||||+.+++.......+......   ..+...            .+.
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~---~~~~~~~~~~~~~~~~~~~~~   95 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFD---TKDLIFRLKHLMDEGKDTKFL   95 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEE---HHHHHHHHHHHHHHTCCSHHH
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEE---HHHHHHHHHHHhcCchHHHHH
Confidence            34444555444432   335789999999999999999999876522222222211   111111            222


Q ss_pred             HHHhccCcEEEEEcCCCC--cccccc--cccccCC-CCCCeEEEEeecC
Q 048213          176 NRLKKEKMILVILDNIWE--NLDFHA--VGIPHGD-DHKGCKVLLTARS  219 (532)
Q Consensus       176 ~~l~~~k~~LlVlDdv~~--~~~~~~--l~~~~~~-~~~gs~ilvTtr~  219 (532)
                      +.+.  +.-+|||||++.  .+.|..  +...+.. ...|..+|+||..
T Consensus        96 ~~~~--~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~~~ii~tsn~  142 (180)
T 3ec2_A           96 KTVL--NSPVLVLDDLGSERLSDWQRELISYIITYRYNNLKSTIITTNY  142 (180)
T ss_dssp             HHHH--TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             HHhc--CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcCCCEEEEcCC
Confidence            2333  456899999983  233321  1111111 1246678888864

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.74  E-value=0.00049  Score=70.35  Aligned_cols=167  Identities=17%  Similarity=0.173  Sum_probs=94.1

Q ss_pred             ccccccchHHHHHHHHHhc---C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---EeccC---
Q 048213          105 YEAFESRMSTFNDILNALK---S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEES---  166 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~---~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~~---  166 (532)
                      -..++|.++.++++.+...   .         .-.+-|.|+|++|+|||+||+.+++.....  |-..-   +...-   
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~--f~~is~~~~~~~~~g~   92 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVP--FFHISGSDFVELFVGV   92 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCC--EEEEEGGGTTTCCTTH
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCC--eeeCCHHHHHHHHhcc
Confidence            4467888887766665432   1         123458899999999999999999876432  32211   00000   


Q ss_pred             chhhHHHHHHHHhccCcEEEEEcCCCCcc----------------cccccccccC--CCCCCeEEEEeecChHHhh-hcC
Q 048213          167 ESGRARSLCNRLKKEKMILVILDNIWENL----------------DFHAVGIPHG--DDHKGCKVLLTARSLDVLS-RKM  227 (532)
Q Consensus       167 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~~~--~~~~gs~ilvTtr~~~v~~-~~~  227 (532)
                      .......+..........+|+||+++...                ....+...+.  ....+..||.||....... ...
T Consensus        93 ~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~all  172 (476)
T 2ce7_A           93 GAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALL  172 (476)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGGGG
T ss_pred             cHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchhhc
Confidence            11122333333333578999999996531                1112211111  1124567777887765431 112


Q ss_pred             C---CCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          228 D---SQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       228 ~---~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      .   -...+.++..+.++-.+++..++......++.  ....++..+.|..
T Consensus       173 R~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v--~l~~la~~t~G~s  221 (476)
T 2ce7_A          173 RPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDV--NLEIIAKRTPGFV  221 (476)
T ss_dssp             STTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             ccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchh--hHHHHHHhcCCCc
Confidence            1   22378888888888888887776532211111  1345777888876

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.69  E-value=1.4e-05  Score=68.05  Aligned_cols=106  Identities=9%  Similarity=0.028  Sum_probs=58.3

Q ss_pred             cccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHH-HHHHHhccC
Q 048213          106 EAFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARS-LCNRLKKEK  182 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~-l~~~l~~~k  182 (532)
                      -.++|+...++++.+.+.  .....-|.|+|..|+|||++|+.+++...     .   +...+....... ....+...+
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~~-----~---~~~~~~~~~~~~~~~~~~~~a~   75 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNGT-----P---WVSPARVEYLIDMPMELLQKAE   75 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTTS-----C---EECCSSTTHHHHCHHHHHHHTT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC-----C---eEEechhhCChHhhhhHHHhCC
Confidence            357899888888888765  12334578999999999999999887543     1   111111111111 122222224


Q ss_pred             cEEEEEcCCCCcc--cccccccccCCC-CCCeEEEEeecC
Q 048213          183 MILVILDNIWENL--DFHAVGIPHGDD-HKGCKVLLTARS  219 (532)
Q Consensus       183 ~~LlVlDdv~~~~--~~~~l~~~~~~~-~~gs~ilvTtr~  219 (532)
                      .-.|++|++....  ....+...+... ..+.++|+||..
T Consensus        76 ~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~iI~~tn~  115 (143)
T 3co5_A           76 GGVLYVGDIAQYSRNIQTGITFIIGKAERCRVRVIASCSY  115 (143)
T ss_dssp             TSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCEEEEEEEE
T ss_pred             CCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEEEEEecCC
Confidence            4678999998652  122222111111 345678877764

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.53  E-value=0.00017  Score=69.80  Aligned_cols=46  Identities=17%  Similarity=0.215  Sum_probs=36.7

Q ss_pred             ccccchHHHHHHHHHhcCC---------CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          107 AFESRMSTFNDILNALKSP---------DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~~~---------~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++|.+..++.+...+...         ....+.++|++|+|||++|+.+++...
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~   72 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF   72 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc
Confidence            5778888888887777521         235799999999999999999998653

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.50  E-value=0.00059  Score=65.86  Aligned_cols=47  Identities=19%  Similarity=0.187  Sum_probs=38.1

Q ss_pred             cccccchHHHHHHHHHhcC--------------CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          106 EAFESRMSTFNDILNALKS--------------PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~--------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++|.+..++.+...+..              .....+.++|++|+|||++|+.+++...
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~   75 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   75 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4578999999888877643              2346788999999999999999998763

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.45  E-value=0.0001  Score=66.55  Aligned_cols=104  Identities=13%  Similarity=0.012  Sum_probs=55.1

Q ss_pred             HHHHHHHHhcCC----CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCch---------hhHHHHHHHHhc
Q 048213          114 TFNDILNALKSP----DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESES---------GRARSLCNRLKK  180 (532)
Q Consensus       114 ~~~~i~~~l~~~----~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~---------~~~~~l~~~l~~  180 (532)
                      .++.+.+++...    ....+.|+|++|+|||+||+.+++....+. ............         .....+.+.+.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (202)
T 2w58_A           37 AIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRN-VSSLIVYVPELFRELKHSLQDQTMNEKLDYIKK  115 (202)
T ss_dssp             HHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTT-CCEEEEEHHHHHHHHHHC---CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEEEhHHHHHHHHHHhccchHHHHHHHhcC
Confidence            444555555422    127899999999999999999998765432 333221111000         001222333442


Q ss_pred             cCcEEEEEcCCCCc--ccccc--ccc-ccCCC-CCCeEEEEeecCh
Q 048213          181 EKMILVILDNIWEN--LDFHA--VGI-PHGDD-HKGCKVLLTARSL  220 (532)
Q Consensus       181 ~k~~LlVlDdv~~~--~~~~~--l~~-~~~~~-~~gs~ilvTtr~~  220 (532)
                       . -+|||||++..  ..|..  +.. .+... ..+.++|+||...
T Consensus       116 -~-~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~~~~i~tsn~~  159 (202)
T 2w58_A          116 -V-PVLMLDDLGAEAMSSWVRDDVFGPILQYRMFENLPTFFTSNFD  159 (202)
T ss_dssp             -S-SEEEEEEECCC---CCGGGTTHHHHHHHHHHTTCCEEEEESSC
T ss_pred             -C-CEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCCCCEEEEcCCC
Confidence             2 38999999653  33332  211 11111 2355688888753

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.40  E-value=0.00039  Score=69.95  Aligned_cols=122  Identities=16%  Similarity=0.164  Sum_probs=73.8

Q ss_pred             hhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecccccc----CCCCCccccc
Q 048213          388 LGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRAS----APNPTESEVA  455 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~----~~~~~~~~~~  455 (532)
                      |..+++|+.+.+..+ +..  ...+.+ .+|+.+.+. +++..+      .+++|+.+.+.++...    ..-....|.+
T Consensus       222 F~~~~~L~~l~l~~~-l~~I~~~aF~~-~~L~~i~lp-~~i~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF~~  298 (401)
T 4fdw_A          222 FLKTSQLKTIEIPEN-VSTIGQEAFRE-SGITTVKLP-NGVTNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCLEG  298 (401)
T ss_dssp             TTTCTTCCCEECCTT-CCEECTTTTTT-CCCSEEEEE-TTCCEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTTTT
T ss_pred             hhCCCCCCEEecCCC-ccCcccccccc-CCccEEEeC-CCccEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHhhC
Confidence            455555666655543 222  123333 456666663 333333      6778888888776431    0123456777


Q ss_pred             CCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          456 LPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       456 l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      +++|+.++|.+ +++.++...+    .++.+|+.|.|..  ++..+.+..| .++ +|+.|++.++
T Consensus       299 c~~L~~l~l~~-~i~~I~~~aF----~~c~~L~~l~lp~--~l~~I~~~aF-~~~-~L~~l~l~~n  355 (401)
T 4fdw_A          299 CPKLARFEIPE-SIRILGQGLL----GGNRKVTQLTIPA--NVTQINFSAF-NNT-GIKEVKVEGT  355 (401)
T ss_dssp             CTTCCEECCCT-TCCEECTTTT----TTCCSCCEEEECT--TCCEECTTSS-SSS-CCCEEEECCS
T ss_pred             CccCCeEEeCC-ceEEEhhhhh----cCCCCccEEEECc--cccEEcHHhC-CCC-CCCEEEEcCC
Confidence            88888888874 4777776652    2567888888853  4777755555 667 8888888765

>4fdw_A Leucine rich hypothetical protein; putative cell surface protein, BIG3 domain, LRR domain, STRU genomics; 2.05A {Bacteroides ovatus} PDB: 4fd0_A

Probab=97.40  E-value=0.00041  Score=69.79  Aligned_cols=102  Identities=13%  Similarity=0.075  Sum_probs=64.4

Q ss_pred             cccccccccEEeecccccccc-----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccc-----cccccccc
Q 048213          409 VLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIE-----RIWQNQVA  478 (532)
Q Consensus       409 ~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~-----~lp~~~~~  478 (532)
                      .+.++++|+.+.+..+ +..+     .-.+|+.+.+.++ . ..-....|.++++|+.+++.++.+.     .++...+ 
T Consensus       221 aF~~~~~L~~l~l~~~-l~~I~~~aF~~~~L~~i~lp~~-i-~~I~~~aF~~c~~L~~l~l~~~~~~~~~~~~I~~~aF-  296 (401)
T 4fdw_A          221 AFLKTSQLKTIEIPEN-VSTIGQEAFRESGITTVKLPNG-V-TNIASRAFYYCPELAEVTTYGSTFNDDPEAMIHPYCL-  296 (401)
T ss_dssp             TTTTCTTCCCEECCTT-CCEECTTTTTTCCCSEEEEETT-C-CEECTTTTTTCTTCCEEEEESSCCCCCTTCEECTTTT-
T ss_pred             HhhCCCCCCEEecCCC-ccCccccccccCCccEEEeCCC-c-cEEChhHhhCCCCCCEEEeCCccccCCcccEECHHHh-
Confidence            4555566666666542 3333     1245666666443 1 1223456788888999988887554     4555541 


Q ss_pred             cccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeec
Q 048213          479 AMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICE  520 (532)
Q Consensus       479 ~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~  520 (532)
                         .++++|+.+.|.  +.++.++...| .++++|+.|.|..
T Consensus       297 ---~~c~~L~~l~l~--~~i~~I~~~aF-~~c~~L~~l~lp~  332 (401)
T 4fdw_A          297 ---EGCPKLARFEIP--ESIRILGQGLL-GGNRKVTQLTIPA  332 (401)
T ss_dssp             ---TTCTTCCEECCC--TTCCEECTTTT-TTCCSCCEEEECT
T ss_pred             ---hCCccCCeEEeC--CceEEEhhhhh-cCCCCccEEEECc
Confidence               357889999887  35888855555 7889999998843

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.40  E-value=0.00075  Score=73.14  Aligned_cols=167  Identities=11%  Similarity=0.130  Sum_probs=94.8

Q ss_pred             ccccccchHHHHHHHHHhc----C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---EeccCc-
Q 048213          105 YEAFESRMSTFNDILNALK----S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEESE-  167 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~----~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~~~-  167 (532)
                      ...+.|-++.+++|.+.+.    .         ..++-|.++|++|+|||+||+++++.....  |-.+-   +..... 
T Consensus       203 ~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~--~~~v~~~~l~sk~~g  280 (806)
T 3cf2_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF--FFLINGPEIMSKLAG  280 (806)
T ss_dssp             GGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCE--EEEEEHHHHHSSCTT
T ss_pred             hhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCe--EEEEEhHHhhcccch
Confidence            4457787777777766543    1         245789999999999999999999876543  21111   011111 


Q ss_pred             --hhhHHHHHHHHhccCcEEEEEcCCCCccc-------------ccccccccC--CCCCCeEEEEeecChHHhhhcC---
Q 048213          168 --SGRARSLCNRLKKEKMILVILDNIWENLD-------------FHAVGIPHG--DDHKGCKVLLTARSLDVLSRKM---  227 (532)
Q Consensus       168 --~~~~~~l~~~l~~~k~~LlVlDdv~~~~~-------------~~~l~~~~~--~~~~gs~ilvTtr~~~v~~~~~---  227 (532)
                        ......+.+.......++|++|+++....             ...+...+.  ....+..||.||..........   
T Consensus       281 ese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~  360 (806)
T 3cf2_A          281 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRF  360 (806)
T ss_dssp             HHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTST
T ss_pred             HHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCC
Confidence              12334444444445789999999975310             011111110  1123445666766554331111   


Q ss_pred             -CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          228 -DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       228 -~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                       .-...+.+...+.++-.++|..+........+.  ....|++.+.|.-
T Consensus       361 GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dv--dl~~lA~~T~Gfs  407 (806)
T 3cf2_A          361 GRFDREVDIGIPDATGRLEILQIHTKNMKLADDV--DLEQVANETHGHV  407 (806)
T ss_dssp             TSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTC--CHHHHHHHCCSCC
T ss_pred             cccceEEecCCCCHHHHHHHHHHHhcCCCCCccc--CHHHHHHhcCCCC
Confidence             123478888888888889988776422211111  1456777777763

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.36  E-value=0.0033  Score=58.73  Aligned_cols=165  Identities=14%  Similarity=0.125  Sum_probs=85.9

Q ss_pred             cccccccchHHHHHHHHHhc---C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc-----C
Q 048213          104 DYEAFESRMSTFNDILNALK---S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE-----S  166 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~---~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~-----~  166 (532)
                      ....++|.++.+.++.+...   .         .-.+-+.|+|+.|+||||||+.++......  |  ......     .
T Consensus        14 ~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~--~--i~~~~~~~~~~~   89 (254)
T 1ixz_A           14 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP--F--ITASGSDFVEMF   89 (254)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC--E--EEEEHHHHHHSC
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC--E--EEeeHHHHHHHH
Confidence            34567787766655544322   1         112338999999999999999999875421  1  111110     0


Q ss_pred             chh---hHHHHHHHHhccCcEEEEEcCCCCcc------------c----ccccccccCCC--CCCeEEEEeecChHHhhh
Q 048213          167 ESG---RARSLCNRLKKEKMILVILDNIWENL------------D----FHAVGIPHGDD--HKGCKVLLTARSLDVLSR  225 (532)
Q Consensus       167 ~~~---~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~~~~~~~--~~gs~ilvTtr~~~v~~~  225 (532)
                      ...   ....+.+........++++|+++...            .    ...+...+...  ....-++.||........
T Consensus        90 ~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~  169 (254)
T 1ixz_A           90 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDP  169 (254)
T ss_dssp             TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCG
T ss_pred             hhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCH
Confidence            111   12233333332345899999995321            0    11221122111  223345566666654421


Q ss_pred             -cC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCc
Q 048213          226 -KM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGL  274 (532)
Q Consensus       226 -~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~gl  274 (532)
                       ..   .-...+.++..+.++-.+++...+.......+.  ....++..+.|.
T Consensus       170 ~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~--~~~~la~~~~G~  220 (254)
T 1ixz_A          170 ALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGF  220 (254)
T ss_dssp             GGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTC
T ss_pred             HHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCccc--CHHHHHHHcCCC
Confidence             11   223467888888888888887766422111111  133566666664

>3rw6_A Nuclear RNA export factor 1; retroviral constitutive transport element (CTE), RNA recogni motif (RRM); HET: GTP CCC; 2.30A {Homo sapiens} PDB: 3rw7_A 1koo_A 1koh_A 1ft8_A 1fo1_A

Probab=97.35  E-value=0.00016  Score=68.08  Aligned_cols=85  Identities=24%  Similarity=0.230  Sum_probs=48.1

Q ss_pred             hccccccEEEeccccccCcc----cccccccccEEeeccccccccccCCcceEEeccccccCCCCCcccccCCCCCEEec
Q 048213          389 GLLTNLQTLCLYYCKLQDTS----VLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTESEVALPKLETVCL  464 (532)
Q Consensus       389 ~~l~~L~~L~l~~~~l~~~~----~i~~l~~L~~L~l~~~~l~~~~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L  464 (532)
                      .++++|+.|+|++|.+..++    .+..+++|++|+|++|++..+                  .....+..+ +|++|+|
T Consensus       167 ~~l~~L~~L~Ls~N~l~~l~~l~~~~~~l~~L~~L~Ls~N~i~~~------------------~~l~~l~~l-~L~~L~L  227 (267)
T 3rw6_A          167 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE------------------RELDKIKGL-KLEELWL  227 (267)
T ss_dssp             HHCTTCCEEECTTSCCCCCGGGTTHHHHSTTCCEEECTTSCCCSG------------------GGGGGGTTS-CCSEEEC
T ss_pred             hhCCCCCEEECCCCCCCCCccchhHHhhCCCCCEEECCCCccCCc------------------hhhhhcccC-CcceEEc
Confidence            45678888888888887743    334677777777777766543                  001112223 6777777


Q ss_pred             CCccccc-cccc--ccccccccCCCccEEEe
Q 048213          465 SSINIER-IWQN--QVAAMSCGIQNLKRLIL  492 (532)
Q Consensus       465 ~~~~l~~-lp~~--~~~~~~~~L~~L~~L~L  492 (532)
                      ++|.+.. +|..  ........+++|+.||=
T Consensus       228 ~~Npl~~~~~~~~~y~~~il~~~P~L~~LDg  258 (267)
T 3rw6_A          228 DGNSLCDTFRDQSTYISAIRERFPKLLRLDG  258 (267)
T ss_dssp             TTSTTGGGCSSHHHHHHHHHHHCTTCCEESS
T ss_pred             cCCcCccccCcchhHHHHHHHHCcccCeECC
Confidence            7776653 2211  00011134677777654

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.21  E-value=0.002  Score=61.10  Aligned_cols=145  Identities=12%  Similarity=0.128  Sum_probs=81.0

Q ss_pred             cccccccchHHHHHHHHHhc----C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccC----
Q 048213          104 DYEAFESRMSTFNDILNALK----S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEES----  166 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~----~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~----  166 (532)
                      .-..+.|-++.+++|.+.+.    .         .-.+-+.|+|++|+||||||+.++......    .......+    
T Consensus         8 ~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~----~i~i~g~~l~~~   83 (274)
T 2x8a_A            8 TWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLN----FISVKGPELLNM   83 (274)
T ss_dssp             ----CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCE----EEEEETTTTCSS
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCC----EEEEEcHHHHhh
Confidence            34567777777777766442    1         112339999999999999999999865431    11111111    


Q ss_pred             -ch---hhHHHHHHHHhccCcEEEEEcCCCCccc---------c----cccccccCC--CCCCeEEEEeecChHHhhhc-
Q 048213          167 -ES---GRARSLCNRLKKEKMILVILDNIWENLD---------F----HAVGIPHGD--DHKGCKVLLTARSLDVLSRK-  226 (532)
Q Consensus       167 -~~---~~~~~l~~~l~~~k~~LlVlDdv~~~~~---------~----~~l~~~~~~--~~~gs~ilvTtr~~~v~~~~-  226 (532)
                       ..   ..+..+.+.......+++++|+++....         .    ..+...+..  .....-++.+|....+.... 
T Consensus        84 ~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al  163 (274)
T 2x8a_A           84 YVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAI  163 (274)
T ss_dssp             TTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHH
T ss_pred             hhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhh
Confidence             11   1233444443234678999999975310         0    011111111  12344566777776654211 


Q ss_pred             C---CCCceEEccCCCHHHHHHHHHHHhC
Q 048213          227 M---DSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       227 ~---~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      .   .-...+.++..+.++-.++|.....
T Consensus       164 ~r~gRfd~~i~~~~P~~~~r~~il~~~~~  192 (274)
T 2x8a_A          164 LRPGRLDKTLFVGLPPPADRLAILKTITK  192 (274)
T ss_dssp             HSTTSSCEEEECCSCCHHHHHHHHHHHTT
T ss_pred             cCcccCCeEEEeCCcCHHHHHHHHHHHHh
Confidence            1   2345678888899888899887663

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.18  E-value=0.007  Score=57.36  Aligned_cols=167  Identities=14%  Similarity=0.112  Sum_probs=88.1

Q ss_pred             ccccccccchHHHHHHHHHhc---C---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc-----
Q 048213          103 KDYEAFESRMSTFNDILNALK---S---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE-----  165 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~---~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~-----  165 (532)
                      .....++|.++.++++.+...   .         .-.+-+.|+|+.|+||||||+.++......  |  ......     
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~--~--i~~~~~~~~~~  112 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP--F--ITASGSDFVEM  112 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCC--E--EEEEHHHHHHS
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCC--E--EEecHHHHHHH
Confidence            335567888777666554332   1         011238999999999999999999876421  1  111111     


Q ss_pred             Cch---hhHHHHHHHHhccCcEEEEEcCCCCcc------------c----ccccccccCCC--CCCeEEEEeecChHHhh
Q 048213          166 SES---GRARSLCNRLKKEKMILVILDNIWENL------------D----FHAVGIPHGDD--HKGCKVLLTARSLDVLS  224 (532)
Q Consensus       166 ~~~---~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~~~~~~~--~~gs~ilvTtr~~~v~~  224 (532)
                      ...   .....+.+........++++|++....            .    ...+...+...  .....++.||.......
T Consensus       113 ~~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld  192 (278)
T 1iy2_A          113 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILD  192 (278)
T ss_dssp             TTTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSC
T ss_pred             HhhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCC
Confidence            011   112233333332356899999995321            0    11121222211  12234555666554431


Q ss_pred             h-c---CCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          225 R-K---MDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       225 ~-~---~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      . .   ..-...+.+...+.++-.+++...+......++.  ....++..+.|..
T Consensus       193 ~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~--~~~~la~~~~G~~  245 (278)
T 1iy2_A          193 PALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFV  245 (278)
T ss_dssp             HHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             HhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCccc--CHHHHHHHcCCCC
Confidence            1 1   1233578888888888888888766422111111  1345666666654

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.18  E-value=0.00035  Score=65.98  Aligned_cols=47  Identities=17%  Similarity=0.226  Sum_probs=34.1

Q ss_pred             cccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          106 EAFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++|....+.++.+.+.  ......|.|+|..|+|||++|+.+++...
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            357899888888876664  22335678999999999999999988643

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=97.14  E-value=0.0016  Score=68.08  Aligned_cols=144  Identities=20%  Similarity=0.149  Sum_probs=76.3

Q ss_pred             cccccchHHHHHHHHHhc------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec-cCc-----------
Q 048213          106 EAFESRMSTFNDILNALK------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE-ESE-----------  167 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~-~~~-----------  167 (532)
                      ..++|-++..+.+.+.+.      ......+.++|++|+||||||+.++......  |-...... ...           
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~--~~~i~~~~~~~~~~~~g~~~~~i  158 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRK--FVRISLGGVRDESEIRGHRRTYV  158 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTCE--EEEECCCC---------------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCCC--eEEEEecccchhhhhhhHHHHHh
Confidence            346787777776655433      2345689999999999999999999875322  21111000 000           


Q ss_pred             hhhHHHHHHHHhc--cCcEEEEEcCCCCccc------ccccccccCCC---------------CCCeEEEEeecChHHh-
Q 048213          168 SGRARSLCNRLKK--EKMILVILDNIWENLD------FHAVGIPHGDD---------------HKGCKVLLTARSLDVL-  223 (532)
Q Consensus       168 ~~~~~~l~~~l~~--~k~~LlVlDdv~~~~~------~~~l~~~~~~~---------------~~gs~ilvTtr~~~v~-  223 (532)
                      ......+.+.+..  ..+-++++|+++....      ...+...+...               .....+|.||...... 
T Consensus       159 g~~~~~~~~~~~~a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~~~l~  238 (543)
T 3m6a_A          159 GAMPGRIIQGMKKAGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLATIP  238 (543)
T ss_dssp             -----CHHHHHHTTCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSSTTTSC
T ss_pred             ccCchHHHHHHHHhhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCccccCC
Confidence            0011122222221  1445889999985421      12232222110               0334666666654321 


Q ss_pred             hhcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          224 SRKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       224 ~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                      ........++.+.+++.++-.+++..+.
T Consensus       239 ~aL~~R~~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          239 GPLRDRMEIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             HHHHHHEEEEECCCCCHHHHHHHHHHTH
T ss_pred             HHHHhhcceeeeCCCCHHHHHHHHHHHH
Confidence            0011112468899999888888877654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.12  E-value=0.0041  Score=63.91  Aligned_cols=165  Identities=13%  Similarity=0.111  Sum_probs=90.3

Q ss_pred             ccccccchHHHHHHHHHhc---CC---------CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc-----Cc
Q 048213          105 YEAFESRMSTFNDILNALK---SP---------DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE-----SE  167 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~---~~---------~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~-----~~  167 (532)
                      ...++|.++.+.++.+...   ..         -.+-+.|+|++|+|||+||+.++......  |  ......     ..
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~--~--i~i~g~~~~~~~~  105 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP--F--ITASGSDFVEMFV  105 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCC--E--EEEEGGGGTSSCT
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC--E--EEEehhHHHHhhh
Confidence            4567888877766655432   11         12348999999999999999999876421  2  111111     11


Q ss_pred             hhhHHHHHHHHhcc---CcEEEEEcCCCCccc----------------ccccccccCC--CCCCeEEEEeecChHHhhh-
Q 048213          168 SGRARSLCNRLKKE---KMILVILDNIWENLD----------------FHAVGIPHGD--DHKGCKVLLTARSLDVLSR-  225 (532)
Q Consensus       168 ~~~~~~l~~~l~~~---k~~LlVlDdv~~~~~----------------~~~l~~~~~~--~~~gs~ilvTtr~~~v~~~-  225 (532)
                      ......+...+...   ...++++|+++....                ...+...+..  ...+..++.||........ 
T Consensus       106 g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~a  185 (499)
T 2dhr_A          106 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPA  185 (499)
T ss_dssp             THHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTT
T ss_pred             hhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcc
Confidence            12223333333322   347999999964310                1122111211  1234456667776655321 


Q ss_pred             cC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          226 KM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       226 ~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      ..   .-...+.++..+.++-.+++..++......++.  ....|+..+.|..
T Consensus       186 Llr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv--~l~~lA~~t~G~~  236 (499)
T 2dhr_A          186 LLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFV  236 (499)
T ss_dssp             TSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSS--TTHHHHTTSCSCC
T ss_pred             cccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHH--HHHHHHHhcCCCC
Confidence            11   123478899889888888888765422111111  1345667777764

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.10  E-value=0.0014  Score=71.78  Aligned_cols=144  Identities=14%  Similarity=0.117  Sum_probs=77.8

Q ss_pred             cccccchHHHHHHHHHhcC---------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc----hhhHH
Q 048213          106 EAFESRMSTFNDILNALKS---------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE----SGRAR  172 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~----~~~~~  172 (532)
                      ..++|.+..++.+...+..         .....+.++|++|+|||++|+.+++..... .......+....    .....
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~-~~~~i~i~~s~~~~~~~~~~~  569 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGD-EESMIRIDMSEYMEKHSTSGG  569 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSC-TTCEEEEEGGGGCSSCCCC--
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCC-CcceEEEechhcccccccccc
Confidence            4588999988888877761         112369999999999999999999875321 112221111100    00022


Q ss_pred             HHHHHHhccCcEEEEEcCCCCcc--cccccccccCC-----------CCCCeEEEEeecCh-----HHh--------h-h
Q 048213          173 SLCNRLKKEKMILVILDNIWENL--DFHAVGIPHGD-----------DHKGCKVLLTARSL-----DVL--------S-R  225 (532)
Q Consensus       173 ~l~~~l~~~k~~LlVlDdv~~~~--~~~~l~~~~~~-----------~~~gs~ilvTtr~~-----~v~--------~-~  225 (532)
                      .+...+......+|+||++....  ..+.+...+..           .....+||.||...     .+.        . -
T Consensus       570 ~l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l  649 (758)
T 3pxi_A          570 QLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGELKRAFRPEF  649 (758)
T ss_dssp             -CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCHHH
T ss_pred             hhhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCHHH
Confidence            33333433345689999997542  12222111100           12356788888731     100        0 0


Q ss_pred             cCCCCceEEccCCCHHHHHHHHHHH
Q 048213          226 KMDSQQDFWVGVLKEDEAWSLFKKM  250 (532)
Q Consensus       226 ~~~~~~~~~l~~L~~~~~~~Lf~~~  250 (532)
                      ......++.+.+++.++-..++...
T Consensus       650 ~~Rl~~~i~~~~l~~~~~~~i~~~~  674 (758)
T 3pxi_A          650 INRIDEIIVFHSLEKKHLTEIVSLM  674 (758)
T ss_dssp             HTTSSEEEECC--CHHHHHHHHHHH
T ss_pred             HhhCCeEEecCCCCHHHHHHHHHHH
Confidence            1122347888899888877776654

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.06  E-value=0.00064  Score=65.24  Aligned_cols=66  Identities=17%  Similarity=0.126  Sum_probs=39.0

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---EeccCchhh---HHHHHHHH----hccCcEEEEEcCCCC
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEESESGR---ARSLCNRL----KKEKMILVILDNIWE  193 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~~~~~~---~~~l~~~l----~~~k~~LlVlDdv~~  193 (532)
                      ..+.+.++|++|+|||+||+.+++.....  |-..-   +........   ...+.+..    ...+..+|+||+++.
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~~~--~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~  110 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMGIN--PIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDA  110 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHTCC--CEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC-
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCC--EEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechhh
Confidence            34678899999999999999999987432  32211   000001111   22222222    234778999999963

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.01  E-value=0.00079  Score=64.95  Aligned_cols=45  Identities=18%  Similarity=0.230  Sum_probs=36.6

Q ss_pred             ccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          107 AFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++|+...+.++.+.+.  ......|.|+|.+|+|||++|+.+++..
T Consensus         3 ~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            3 HMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            57899888888887765  2334567899999999999999998854

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=96.95  E-value=0.0014  Score=67.16  Aligned_cols=90  Identities=13%  Similarity=0.029  Sum_probs=53.8

Q ss_pred             ccccccchHHHHHHHHHh---cCC--CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE----Eec-cCchhhHHHH
Q 048213          105 YEAFESRMSTFNDILNAL---KSP--DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI----FVE-ESESGRARSL  174 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l---~~~--~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~----~~~-~~~~~~~~~l  174 (532)
                      ...++|.++.++.+..++   ..+  ..+-+.++|++|+|||++|+.+++.......|-..-    +.. .........+
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLMEN  115 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCCSSSCHHHHHHHH
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHHHhhhhhHHHHHH
Confidence            467889998877654433   333  336789999999999999999999865332232221    000 0111112222


Q ss_pred             HHHH---hccCcEEEEEcCCCCc
Q 048213          175 CNRL---KKEKMILVILDNIWEN  194 (532)
Q Consensus       175 ~~~l---~~~k~~LlVlDdv~~~  194 (532)
                      .+..   ......+|++|+++..
T Consensus       116 f~~a~~~~~~~~~il~iDEid~l  138 (456)
T 2c9o_A          116 FRRAIGLRIKETKEVYEGEVTEL  138 (456)
T ss_dssp             HHHTEEEEEEEEEEEEEEEEEEE
T ss_pred             HHHHHhhhhcCCcEEEEechhhc
Confidence            2222   2235789999999643

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.83  E-value=0.0036  Score=68.54  Aligned_cols=46  Identities=15%  Similarity=0.122  Sum_probs=36.6

Q ss_pred             cccccchHHHHHHHHHhcC---------CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          106 EAFESRMSTFNDILNALKS---------PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|.++.++.+...+..         .....+.++|++|+|||++|+.+++..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            3578998888888777651         123478999999999999999999876

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.69  E-value=0.0023  Score=54.54  Aligned_cols=68  Identities=10%  Similarity=0.032  Sum_probs=41.5

Q ss_pred             HHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          119 LNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       119 ~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      +..+..-....++|+|+.|+|||||++.+++..... .+.............      .+. .+.-+||+||+...
T Consensus        28 ~~~l~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~-g~~~~~~~~~~~~~~------~~~-~~~~lLilDE~~~~   95 (149)
T 2kjq_A           28 VYVLRHKHGQFIYVWGEEGAGKSHLLQAWVAQALEA-GKNAAYIDAASMPLT------DAA-FEAEYLAVDQVEKL   95 (149)
T ss_dssp             HHHCCCCCCSEEEEESSSTTTTCHHHHHHHHHHHTT-TCCEEEEETTTSCCC------GGG-GGCSEEEEESTTCC
T ss_pred             HHHHHhcCCCEEEEECCCCCCHHHHHHHHHHHHHhc-CCcEEEEcHHHhhHH------HHH-hCCCEEEEeCcccc
Confidence            333433255789999999999999999999876542 233333222211111      112 23458899998764

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.62  E-value=0.0029  Score=60.63  Aligned_cols=65  Identities=11%  Similarity=0.142  Sum_probs=40.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEE-E-----EeccCchhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRV-I-----FVEESESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~-~-----~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      +++.|+|++|+|||+||.+++.....+-.|-.. .     ....+.......+.+.+.+ .+ +||+|++...
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~-~~-LLVIDsI~aL  194 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ-HR-VIVIDSLKNV  194 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH-CS-EEEEECCTTT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhh-CC-EEEEeccccc
Confidence            567899999999999999998762211112111 0     0012233445556677764 45 9999998653

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.46  E-value=0.0018  Score=57.26  Aligned_cols=24  Identities=25%  Similarity=0.209  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.|.|+|++|+|||||++.+....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            568899999999999999998764

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=96.40  E-value=0.0028  Score=61.18  Aligned_cols=29  Identities=24%  Similarity=0.503  Sum_probs=23.7

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++.+||+|.|-||+||||.|..++.-...
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA~   74 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFSI   74 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHHH
Confidence            56799999999999999999887665443

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.40  E-value=0.0032  Score=56.57  Aligned_cols=43  Identities=19%  Similarity=0.201  Sum_probs=33.6

Q ss_pred             cchHHHHHHHHHhcC---CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          110 SRMSTFNDILNALKS---PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       110 gR~~~~~~i~~~l~~---~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|++.++++.+.+..   ....+|+|.|+.|+||||+++.+.....
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            355667777777763   3457999999999999999999987543

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.37  E-value=0.0064  Score=67.35  Aligned_cols=46  Identities=17%  Similarity=0.243  Sum_probs=36.6

Q ss_pred             cccccchHHHHHHHHHhcC---------CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          106 EAFESRMSTFNDILNALKS---------PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|.+..++.+...+..         .....+.|+|+.|+|||++|+.+++..
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999988888777651         123578999999999999999998865

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.26  E-value=0.0043  Score=56.07  Aligned_cols=40  Identities=20%  Similarity=0.342  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhcC--CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          113 STFNDILNALKS--PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       113 ~~~~~i~~~l~~--~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.+++|.+.+..  ....+|+|+|+.|+|||||++.+.....
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            455666666653  4568999999999999999999987654

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A*

Probab=96.23  E-value=0.0061  Score=50.44  Aligned_cols=34  Identities=12%  Similarity=0.075  Sum_probs=21.9

Q ss_pred             CCCEEecCCcccccccccccccccccCCCccEEEeccC
Q 048213          458 KLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC  495 (532)
Q Consensus       458 ~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c  495 (532)
                      +|++|+|++|+|+.+|...+    ..+++|++|+|.++
T Consensus        32 ~l~~L~Ls~N~l~~l~~~~f----~~l~~L~~L~L~~N   65 (130)
T 3rfe_A           32 DTTELVLTGNNLTALPPGLL----DALPALRTAHLGAN   65 (130)
T ss_dssp             TCSEEECTTSCCSSCCTTTG----GGCTTCCEEECCSS
T ss_pred             CCCEEECCCCcCCccChhhh----hhccccCEEEecCC
Confidence            56777777777777766652    24666777777654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.16  E-value=0.0039  Score=60.14  Aligned_cols=41  Identities=27%  Similarity=0.357  Sum_probs=29.9

Q ss_pred             hHHHHHHHHHhcC---CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          112 MSTFNDILNALKS---PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       112 ~~~~~~i~~~l~~---~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...++.+.+++..   .....+.|+|+.|+|||+||..+++...
T Consensus       134 ~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          134 MEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             HHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            3344444455542   1247889999999999999999998765

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.15  E-value=0.011  Score=58.65  Aligned_cols=25  Identities=24%  Similarity=0.158  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...+.++|++|+|||++|+.+++..
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHh
Confidence            3568899999999999999999876

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=96.06  E-value=0.043  Score=53.56  Aligned_cols=154  Identities=6%  Similarity=-0.092  Sum_probs=95.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCE-EEEeccCchhhHHHHHHHHh----ccCcEEEEEcCCCC-c--cc
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDR-VIFVEESESGRARSLCNRLK----KEKMILVILDNIWE-N--LD  196 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~-~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~-~--~~  196 (532)
                      .-.++..++|+.|.||++.|..+.+..... .|+. ...... .......+.+.+.    .+.+-++|+|++.. .  +.
T Consensus        16 ~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~plf~~~kvvii~~~~~kl~~~~   93 (343)
T 1jr3_D           16 GLRAAYLLLGNDPLLLQESQDAVRQVAAAQ-GFEEHHTFSID-PNTDWNAIFSLCQAMSLFASRQTLLLLLPENGPNAAI   93 (343)
T ss_dssp             CCCSEEEEEESCHHHHHHHHHHHHHHHHHH-TCCEEEEEECC-TTCCHHHHHHHHHHHHHCCSCEEEEEECCSSCCCTTH
T ss_pred             CCCcEEEEECCcHHHHHHHHHHHHHHHHhC-CCCeeEEEEec-CCCCHHHHHHHhcCcCCccCCeEEEEECCCCCCChHH
Confidence            445789999999999999999988764322 2432 111111 1233344444432    24677889999865 2  45


Q ss_pred             ccccccccCCCCCCeEEEEeecC-------hHHhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHH
Q 048213          197 FHAVGIPHGDDHKGCKVLLTARS-------LDVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAK  269 (532)
Q Consensus       197 ~~~l~~~~~~~~~gs~ilvTtr~-------~~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~  269 (532)
                      ++.+...+..-..++.+|+++..       ..+.........++...+++.++....+.+.+.... ..-..+.+..+++
T Consensus        94 ~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~~~~~g-~~i~~~a~~~l~~  172 (343)
T 1jr3_D           94 NEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAARAKQLN-LELDDAANQVLCY  172 (343)
T ss_dssp             HHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHHHHHTT-CEECHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHH
Confidence            56665444333456777766643       233333344456889999999998888777653111 1222567888999


Q ss_pred             HcCCchHHHHHH
Q 048213          270 KCAGLPVSIVTV  281 (532)
Q Consensus       270 ~c~glPLai~~~  281 (532)
                      .++|.+.++...
T Consensus       173 ~~~gdl~~~~~e  184 (343)
T 1jr3_D          173 CYEGNLLALAQA  184 (343)
T ss_dssp             SSTTCHHHHHHH
T ss_pred             HhchHHHHHHHH
Confidence            999988776553

>4fs7_A Uncharacterized protein; leucine-rich repeats, protein binding, extracellular protein structural genomics; HET: MSE; 1.19A {Bacteroides ovatus}

Probab=95.97  E-value=0.023  Score=56.72  Aligned_cols=123  Identities=15%  Similarity=0.099  Sum_probs=78.0

Q ss_pred             hhccccccEEEeccccccC-cccccccccccEEeecccccccc---ccCCcceEEeccccccCCCCCcccccCCCCCEEe
Q 048213          388 LGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA---GSSQLKHLSVRGLRASAPNPTESEVALPKLETVC  463 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~---~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~  463 (532)
                      +..+.+++.+.+..+...- ...+..+..+..+....+.+...   .+.+|+.+.+.++-.  .-....|.+..+|+.++
T Consensus       249 f~~~~~l~~~~~~~~~~~i~~~~F~~~~~l~~~~~~~~~i~~~~F~~~~~L~~i~l~~~i~--~I~~~aF~~c~~L~~i~  326 (394)
T 4fs7_A          249 FYGCTDLESISIQNNKLRIGGSLFYNCSGLKKVIYGSVIVPEKTFYGCSSLTEVKLLDSVK--FIGEEAFESCTSLVSID  326 (394)
T ss_dssp             TTTCSSCCEEEECCTTCEECSCTTTTCTTCCEEEECSSEECTTTTTTCTTCCEEEECTTCC--EECTTTTTTCTTCCEEC
T ss_pred             ccccccceeEEcCCCcceeeccccccccccceeccCceeeccccccccccccccccccccc--eechhhhcCCCCCCEEE
Confidence            4455566666665443221 33455666666666655444333   667788888866511  22345677888899998


Q ss_pred             cCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeec
Q 048213          464 LSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICE  520 (532)
Q Consensus       464 L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~  520 (532)
                      |.. +++.+++..+    .++.+|+.+.+..  +++.+....| .++++|+.+++..
T Consensus       327 lp~-~v~~I~~~aF----~~c~~L~~i~lp~--~l~~I~~~aF-~~C~~L~~i~lp~  375 (394)
T 4fs7_A          327 LPY-LVEEIGKRSF----RGCTSLSNINFPL--SLRKIGANAF-QGCINLKKVELPK  375 (394)
T ss_dssp             CCT-TCCEECTTTT----TTCTTCCEECCCT--TCCEECTTTB-TTCTTCCEEEEEG
T ss_pred             eCC-cccEEhHHhc----cCCCCCCEEEECc--cccEehHHHh-hCCCCCCEEEECC
Confidence            875 4777766651    2578899988864  3778855555 7888899888753

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=95.97  E-value=0.016  Score=54.10  Aligned_cols=35  Identities=20%  Similarity=0.185  Sum_probs=27.1

Q ss_pred             HHHHHHhcCC--CceEEEEEccCCCchHHHHHHHHHH
Q 048213          116 NDILNALKSP--DVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       116 ~~i~~~l~~~--~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-+..|+...  ....+.++|++|.|||.+|.++++.
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            4455555532  2457999999999999999999985

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=95.95  E-value=0.0043  Score=60.90  Aligned_cols=50  Identities=16%  Similarity=0.194  Sum_probs=36.4

Q ss_pred             ccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          103 KDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+-..++|.+..+..+..........-+.|+|++|+|||++|+.+++...
T Consensus        21 ~~f~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           21 FPFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCchhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhCc
Confidence            33456889988666654444333334589999999999999999998653

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=95.88  E-value=0.0047  Score=54.05  Aligned_cols=24  Identities=13%  Similarity=0.059  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+|.|.|++|+||||+|+.+....
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            578999999999999999998864

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=95.87  E-value=0.0047  Score=53.61  Aligned_cols=25  Identities=16%  Similarity=0.139  Sum_probs=22.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+|+|.|+.|+||||+|+.+.....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5789999999999999999987654

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=95.80  E-value=0.0045  Score=53.80  Aligned_cols=20  Identities=35%  Similarity=0.358  Sum_probs=18.9

Q ss_pred             eEEEEEccCCCchHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEV  147 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v  147 (532)
                      .+|+|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999999

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=95.76  E-value=0.018  Score=62.41  Aligned_cols=147  Identities=12%  Similarity=0.180  Sum_probs=78.1

Q ss_pred             ccccccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-------E
Q 048213          103 KDYEAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-------F  162 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-------~  162 (532)
                      .....+.|.++.+++|.+.+.             -...+-|.++|++|.|||.+|+++++.....  |-..-       +
T Consensus       474 v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~--f~~v~~~~l~s~~  551 (806)
T 3cf2_A          474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN--FISIKGPELLTMW  551 (806)
T ss_dssp             CCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE--EEECCHHHHHTTT
T ss_pred             CCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc--eEEeccchhhccc
Confidence            334556777777777766543             1134568899999999999999999876532  11110       1


Q ss_pred             eccCchhhHHHHHHHHhccCcEEEEEcCCCCcc--------c--------ccccccccCC--CCCCeEEEEeecChHHh-
Q 048213          163 VEESESGRARSLCNRLKKEKMILVILDNIWENL--------D--------FHAVGIPHGD--DHKGCKVLLTARSLDVL-  223 (532)
Q Consensus       163 ~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--------~--------~~~l~~~~~~--~~~gs~ilvTtr~~~v~-  223 (532)
                      .. .....+..+++.-.....++|++|+++...        .        ...+...+..  ...+.-||.||...... 
T Consensus       552 vG-ese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN~p~~lD  630 (806)
T 3cf2_A          552 FG-ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIID  630 (806)
T ss_dssp             CS-SCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEEEECC-CCSSSSC
T ss_pred             cc-hHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCchhCC
Confidence            11 123345566666555578999999997531        0        1112111111  12333444466544332 


Q ss_pred             hhcC---CCCceEEccCCCHHHHHHHHHHHhC
Q 048213          224 SRKM---DSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       224 ~~~~---~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      ....   .-...+.+...+.++-.++|..+..
T Consensus       631 ~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~  662 (806)
T 3cf2_A          631 PAILRPGRLDQLIYIPLPDEKSRVAILKANLR  662 (806)
T ss_dssp             HHHHSTTTSCCEEEC-----CHHHHTTTTTSS
T ss_pred             HhHcCCCcceEEEEECCcCHHHHHHHHHHHhc
Confidence            1111   2335677776666666677665543

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=95.75  E-value=0.011  Score=58.03  Aligned_cols=94  Identities=14%  Similarity=0.129  Sum_probs=58.0

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhcc--CC---------CC-----EEEE---eccCchhhHHHHHHHHhccCcEEE
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENE--KL---------FD-----RVIF---VEESESGRARSLCNRLKKEKMILV  186 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--~~---------F~-----~~~~---~~~~~~~~~~~l~~~l~~~k~~Ll  186 (532)
                      .-.+++|+|+.|+|||||.+.+.......  ..         |.     ..+.   ...........+...|.. ..=+|
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~-~Pdvi  200 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALRE-DPDII  200 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTS-CCSEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhh-CcCEE
Confidence            33599999999999999999987643321  00         00     0010   001112344567777775 66788


Q ss_pred             EEcCCCCcccccccccccCCCCCCeEEEEeecChHHh
Q 048213          187 ILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVL  223 (532)
Q Consensus       187 VlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~  223 (532)
                      ++|.+.+.+.++.+...   ...|..||+|+.....+
T Consensus       201 llDEp~d~e~~~~~~~~---~~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          201 LVGEMRDLETIRLALTA---AETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             EESCCCSHHHHHHHHHH---HHTTCEEEEEESCSSHH
T ss_pred             ecCCCCCHHHHHHHHHH---HhcCCEEEEEEccChHH
Confidence            99999877665554322   23466688888876654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.70  E-value=0.0067  Score=54.32  Aligned_cols=27  Identities=30%  Similarity=0.202  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+|+|+|+.|+||||+|+.+.....
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            346899999999999999999987653

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.63  E-value=0.0065  Score=53.45  Aligned_cols=24  Identities=17%  Similarity=0.274  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++++|+|+.|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            689999999999999999998754

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=95.60  E-value=0.0073  Score=53.50  Aligned_cols=24  Identities=33%  Similarity=0.259  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..+++|+|+.|+|||||++.+...
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            478999999999999999999875

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.59  E-value=0.007  Score=52.93  Aligned_cols=22  Identities=27%  Similarity=0.270  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999987

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.58  E-value=0.0059  Score=53.11  Aligned_cols=25  Identities=20%  Similarity=0.214  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+|+|+|+.|+||||+++.+.....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999987643

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.56  E-value=0.0074  Score=53.16  Aligned_cols=26  Identities=19%  Similarity=0.273  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+.|.|+|+.|+||||+|+.+.....
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999999987653

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=95.56  E-value=0.033  Score=56.26  Aligned_cols=26  Identities=23%  Similarity=0.460  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..++|+|.+|+|||||+..+......
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~  177 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQ  177 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhh
Confidence            46899999999999999999876553

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.52  E-value=0.014  Score=56.70  Aligned_cols=43  Identities=21%  Similarity=0.171  Sum_probs=32.0

Q ss_pred             cchHHHHHHHHHhc----CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          110 SRMSTFNDILNALK----SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       110 gR~~~~~~i~~~l~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +-+...+++++.+.    .+....|.|+|+.|+||||+++.++....
T Consensus         3 ~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l~   49 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIIN   49 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHhC
Confidence            33445566665553    45567799999999999999999987654

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=95.49  E-value=0.0088  Score=53.57  Aligned_cols=29  Identities=17%  Similarity=0.114  Sum_probs=25.1

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .....+|+|+|+.|+||||+|+.+.....
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34568999999999999999999988764

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=95.48  E-value=0.0078  Score=58.61  Aligned_cols=45  Identities=16%  Similarity=0.218  Sum_probs=37.6

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          106 EAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++|+++.++.+...+..+  .-+.++|++|+|||+||+.+++...
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~~   71 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTMD   71 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHTT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHhC
Confidence            46789999998888877654  4688999999999999999988653

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.47  E-value=0.0091  Score=53.45  Aligned_cols=27  Identities=30%  Similarity=0.288  Sum_probs=23.1

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ....+++|+|+.|+|||||++.+....
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            445799999999999999999998754

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=95.44  E-value=0.024  Score=55.61  Aligned_cols=36  Identities=14%  Similarity=-0.062  Sum_probs=27.6

Q ss_pred             HHHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          116 NDILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       116 ~~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -++++.+. -..-..++|+|++|+|||||++.+.+..
T Consensus       162 iraID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          162 ARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             HHHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             ceeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHH
Confidence            35556555 2344789999999999999999988754

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=95.43  E-value=0.0075  Score=54.07  Aligned_cols=25  Identities=16%  Similarity=0.282  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998764

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=95.42  E-value=0.013  Score=53.38  Aligned_cols=39  Identities=15%  Similarity=0.070  Sum_probs=29.8

Q ss_pred             HHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          114 TFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       114 ~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+.+...+.......|+|+|.+|+|||||+..+.....
T Consensus        25 ~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~~   63 (226)
T 2hf9_A           25 LADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNLK   63 (226)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            344444444455678999999999999999999987653

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=95.36  E-value=0.018  Score=54.83  Aligned_cols=28  Identities=11%  Similarity=-0.051  Sum_probs=24.0

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ....+|+|+|+.|+||||||+.+.....
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4568999999999999999999877554

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.35  E-value=0.01  Score=52.53  Aligned_cols=25  Identities=20%  Similarity=0.222  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+|.|.|+.|+||||+|+.+.....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5789999999999999999988754

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=95.34  E-value=0.0092  Score=61.35  Aligned_cols=45  Identities=20%  Similarity=0.158  Sum_probs=37.8

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          106 EAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++|+++.++.+...+..+  .-|.|+|++|+|||+||+.+++...
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHHh
Confidence            46889999998888877655  4688999999999999999988653

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=95.31  E-value=0.012  Score=52.11  Aligned_cols=25  Identities=20%  Similarity=0.170  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998765

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.29  E-value=0.01  Score=55.32  Aligned_cols=25  Identities=28%  Similarity=0.182  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++.|.|+.|+||||||+.++....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            5789999999999999999987643

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=95.28  E-value=0.011  Score=52.31  Aligned_cols=25  Identities=16%  Similarity=0.246  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+|.|.|+.|+||||+|+.+.....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5799999999999999999988654

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=95.27  E-value=0.011  Score=51.50  Aligned_cols=25  Identities=28%  Similarity=0.360  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+++|+|+.|+||||+++.+....
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998753

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.27  E-value=0.0099  Score=53.26  Aligned_cols=24  Identities=21%  Similarity=0.216  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+++|+|+.|+|||||++.+....
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            689999999999999999998753

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=95.26  E-value=0.01  Score=52.10  Aligned_cols=25  Identities=36%  Similarity=0.414  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++|.|.|++|+||||+|+.+....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            3678999999999999999998764

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=95.26  E-value=0.018  Score=56.85  Aligned_cols=46  Identities=15%  Similarity=0.013  Sum_probs=36.8

Q ss_pred             ccccchHHHHHHHHHhc-------------C--CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          107 AFESRMSTFNDILNALK-------------S--PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~-------------~--~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++|.+..++.+...+.             .  .....+.++|++|+|||++|+.+++...
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~   76 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLD   76 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence            46898888888887772             1  1346789999999999999999998763

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=95.26  E-value=0.011  Score=53.23  Aligned_cols=27  Identities=22%  Similarity=0.208  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+++|+|+.|+|||||++.+.....
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            457899999999999999999987643

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.25  E-value=0.018  Score=54.74  Aligned_cols=26  Identities=15%  Similarity=0.092  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...+|.|.|++|+||||+|+.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998754

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=95.24  E-value=0.013  Score=53.09  Aligned_cols=41  Identities=17%  Similarity=0.089  Sum_probs=31.4

Q ss_pred             hHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          112 MSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       112 ~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+..+.+.+.+.....++|+|+|.+|+|||||+..+.....
T Consensus        15 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           15 KRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            44455555555455678999999999999999999987753

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.22  E-value=0.01  Score=53.31  Aligned_cols=25  Identities=28%  Similarity=0.289  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++|+|+|++|+||||+++.+....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4789999999999999999998765

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=95.21  E-value=0.014  Score=50.62  Aligned_cols=28  Identities=21%  Similarity=0.154  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..++++|+|+.|+|||||+..+......
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~   30 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVR   30 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHh
Confidence            4578999999999999999999886543

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=95.18  E-value=0.031  Score=56.18  Aligned_cols=29  Identities=24%  Similarity=0.279  Sum_probs=24.6

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ...+|.++|.+|+||||++..++.....+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            46899999999999999999988766543

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.18  E-value=0.01  Score=51.71  Aligned_cols=25  Identities=24%  Similarity=0.282  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.|.|.|++|+||||+|+.++....
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999987653

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.18  E-value=0.012  Score=53.03  Aligned_cols=27  Identities=30%  Similarity=0.222  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+|+|+|+.|+|||||++.+.....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            447899999999999999999988643

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.17  E-value=0.012  Score=50.89  Aligned_cols=27  Identities=22%  Similarity=0.357  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+|+|.|+.|+||||+|+.+.....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHhC
Confidence            457899999999999999999987644

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.16  E-value=0.012  Score=52.08  Aligned_cols=22  Identities=32%  Similarity=0.446  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      .+++|+|+.|+|||||++.+..
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4789999999999999999976

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=95.16  E-value=0.013  Score=52.31  Aligned_cols=26  Identities=27%  Similarity=0.174  Sum_probs=23.1

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ....+|+|.|+.|+||||+|+.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            45679999999999999999999875

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.15  E-value=0.014  Score=52.20  Aligned_cols=27  Identities=19%  Similarity=0.230  Sum_probs=23.2

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ....+|+|.|+.|+||||+|+.+++..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            345789999999999999999998754

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.15  E-value=0.015  Score=51.25  Aligned_cols=28  Identities=25%  Similarity=0.173  Sum_probs=24.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+|.|.|++|+||||+++.++.....
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            4578999999999999999999887553

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.13  E-value=0.013  Score=52.49  Aligned_cols=25  Identities=20%  Similarity=0.200  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+++|+|+.|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3689999999999999999998754

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.13  E-value=0.012  Score=52.47  Aligned_cols=24  Identities=29%  Similarity=0.427  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|+|.|+.|+||||+|+.+.+...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            689999999999999999988654

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=95.11  E-value=0.044  Score=53.56  Aligned_cols=26  Identities=27%  Similarity=0.289  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -.++.|+|++|+||||||.+++....
T Consensus        61 G~i~~I~GppGsGKSTLal~la~~~~   86 (356)
T 3hr8_A           61 GRIVEIFGQESSGKTTLALHAIAEAQ   86 (356)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            37999999999999999999987654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.11  E-value=0.014  Score=51.84  Aligned_cols=25  Identities=24%  Similarity=0.279  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|+|.|+.|+||||+|+.+.+..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998764

>4h09_A Hypothetical leucine rich repeat protein; two LRR_5 domains, PF13306 family, structural genomics, JOIN for structural genomics, JCSG; 2.50A {Eubacterium ventriosum}

Probab=95.08  E-value=0.055  Score=53.51  Aligned_cols=122  Identities=15%  Similarity=0.106  Sum_probs=70.1

Q ss_pred             hhccccccEEEeccccccC-cccccccccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCCCC
Q 048213          388 LGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPKLE  460 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~  460 (532)
                      +....+|..+.+..+-..- ...+..+.+|+.+.+..+ ++.+      .+..|+.+.+..+-.  ......|.++.+|+
T Consensus       213 f~~~~~l~~i~~~~~~~~i~~~~f~~~~~L~~i~lp~~-v~~I~~~aF~~~~~l~~i~l~~~i~--~i~~~aF~~c~~L~  289 (379)
T 4h09_A          213 FSYGKNLKKITITSGVTTLGDGAFYGMKALDEIAIPKN-VTSIGSFLLQNCTALKTLNFYAKVK--TVPYLLCSGCSNLT  289 (379)
T ss_dssp             TTTCSSCSEEECCTTCCEECTTTTTTCSSCCEEEECTT-CCEECTTTTTTCTTCCEEEECCCCS--EECTTTTTTCTTCC
T ss_pred             cccccccceeeeccceeEEccccccCCccceEEEcCCC-ccEeCccccceeehhccccccccce--eccccccccccccc
Confidence            3344555555554331111 234556667777776543 3333      456677777655411  22234566777788


Q ss_pred             EEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEee
Q 048213          461 TVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC  519 (532)
Q Consensus       461 ~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~  519 (532)
                      .+.+.++.++.+++..+    .++.+|+.+.|.  ..++.+....| .++++|+.+.|.
T Consensus       290 ~i~l~~~~i~~I~~~aF----~~c~~L~~i~lp--~~l~~I~~~aF-~~C~~L~~i~ip  341 (379)
T 4h09_A          290 KVVMDNSAIETLEPRVF----MDCVKLSSVTLP--TALKTIQVYAF-KNCKALSTISYP  341 (379)
T ss_dssp             EEEECCTTCCEECTTTT----TTCTTCCEEECC--TTCCEECTTTT-TTCTTCCCCCCC
T ss_pred             cccccccccceehhhhh----cCCCCCCEEEcC--ccccEEHHHHh-hCCCCCCEEEEC
Confidence            88887777777766652    256778877775  24666644444 567777776663

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=95.07  E-value=0.013  Score=51.47  Aligned_cols=24  Identities=29%  Similarity=0.311  Sum_probs=21.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++|+|+.|+|||||++.++....
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~   25 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            589999999999999999987654

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.06  E-value=0.014  Score=51.69  Aligned_cols=25  Identities=20%  Similarity=0.125  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999988754

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=95.05  E-value=0.011  Score=51.99  Aligned_cols=25  Identities=20%  Similarity=0.194  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++|+|.|++|+||||+|+.+.....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcC
Confidence            4689999999999999999987643

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=95.04  E-value=0.015  Score=51.34  Aligned_cols=25  Identities=28%  Similarity=0.194  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ....|+|+|+.|+||||+|+.+...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999876

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.02  E-value=0.014  Score=54.41  Aligned_cols=29  Identities=10%  Similarity=0.147  Sum_probs=23.6

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .....+|+|.|+.|+||||+|+.+.....
T Consensus        19 ~~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           19 GGEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            34567899999999999999999987543

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.01  E-value=0.02  Score=55.22  Aligned_cols=44  Identities=14%  Similarity=0.141  Sum_probs=29.9

Q ss_pred             ccchHHHHHHHHHhcC----CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          109 ESRMSTFNDILNALKS----PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       109 ~gR~~~~~~i~~~l~~----~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|....+..+...+..    ....+|+|.|+.|+||||+|+.+..-..
T Consensus        70 ~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           70 VTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             HHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3444444444444432    3456999999999999999999876543

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=95.01  E-value=0.013  Score=52.50  Aligned_cols=22  Identities=27%  Similarity=0.273  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      .+|+|.|+.|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999987

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=95.00  E-value=0.01  Score=51.61  Aligned_cols=22  Identities=27%  Similarity=0.326  Sum_probs=19.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVA  148 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~  148 (532)
                      ..+++|+|+.|+|||||++.++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHc
Confidence            4689999999999999999643

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=94.99  E-value=0.014  Score=53.19  Aligned_cols=24  Identities=29%  Similarity=0.261  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+|+|+|+.|+||||+|+.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998754

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.97  E-value=0.041  Score=49.59  Aligned_cols=67  Identities=13%  Similarity=0.014  Sum_probs=40.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhcc---C----------CCCEEEEeccCchhhHHHHHHHHhc----cCcEEEE
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENE---K----------LFDRVIFVEESESGRARSLCNRLKK----EKMILVI  187 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~----------~F~~~~~~~~~~~~~~~~l~~~l~~----~k~~LlV  187 (532)
                      .....|.|+|.+|+|||||...+.......   .          .+...+++..........+...+..    ..-+++|
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v   89 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFM   89 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEeeCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEE
Confidence            345678999999999999999998754211   0          1122235544444433444444432    2457788


Q ss_pred             EcCC
Q 048213          188 LDNI  191 (532)
Q Consensus       188 lDdv  191 (532)
                      +|-.
T Consensus        90 ~D~~   93 (218)
T 1nrj_B           90 VDST   93 (218)
T ss_dssp             EETT
T ss_pred             EECC
Confidence            8765

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=94.97  E-value=0.012  Score=52.64  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++++|+|+.|+|||||++.+....
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            689999999999999999998754

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=94.95  E-value=0.016  Score=50.99  Aligned_cols=24  Identities=25%  Similarity=0.214  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..|+|.|+.|+||||+|+.+.+..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998754

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=94.94  E-value=0.028  Score=51.96  Aligned_cols=27  Identities=15%  Similarity=0.027  Sum_probs=23.6

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ....+|+|.|++|+||||+|+.+.+..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            456789999999999999999998754

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=94.94  E-value=0.058  Score=66.00  Aligned_cols=23  Identities=17%  Similarity=0.069  Sum_probs=19.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      +-|.++|++|+|||++|+.+...
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~ 1290 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRN 1290 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CeEEEECCCCCCHHHHHHHHHhc
Confidence            57789999999999999777654

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=94.93  E-value=0.024  Score=53.99  Aligned_cols=27  Identities=30%  Similarity=0.541  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .++|+|.|-||+||||+|..++.....
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~   28 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAE   28 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHH
Confidence            468888999999999999998876543

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=94.93  E-value=0.024  Score=53.26  Aligned_cols=26  Identities=31%  Similarity=0.558  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|.|-||+||||+|..++.....
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~   27 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHA   27 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHH
Confidence            57888999999999999998876553

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.92  E-value=0.015  Score=51.74  Aligned_cols=25  Identities=24%  Similarity=0.218  Sum_probs=22.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+|+|.|+.|+||||+|+.+.....
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            6899999999999999999988643

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=94.92  E-value=0.015  Score=52.28  Aligned_cols=24  Identities=33%  Similarity=0.392  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..+|+|+|+.|+||||+|+.+...
T Consensus        21 ~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           21 TFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHh
Confidence            478999999999999999999764

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=94.91  E-value=0.013  Score=50.74  Aligned_cols=25  Identities=24%  Similarity=0.200  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++|.|.|+.|+||||+|+.+.....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999987643

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=94.86  E-value=0.017  Score=54.12  Aligned_cols=25  Identities=24%  Similarity=0.359  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|.|.|++|+||||+|+.+....
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998763

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=94.86  E-value=0.017  Score=53.53  Aligned_cols=26  Identities=23%  Similarity=0.141  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...+++|+|+.|+|||||++.++...
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999998654

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=94.85  E-value=0.018  Score=51.67  Aligned_cols=26  Identities=19%  Similarity=0.192  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .+|+|.|+.|+||||+|+.+......
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            68999999999999999999987654

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=94.84  E-value=0.018  Score=51.27  Aligned_cols=26  Identities=12%  Similarity=0.230  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++++|+|+.|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            34789999999999999999998764

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=94.83  E-value=0.058  Score=47.09  Aligned_cols=67  Identities=12%  Similarity=0.133  Sum_probs=39.6

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhcc-----C---------CCCEEEEeccCchhhHHHHHHHHhccCcEEEEEcC
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENE-----K---------LFDRVIFVEESESGRARSLCNRLKKEKMILVILDN  190 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-----~---------~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDd  190 (532)
                      .....|+|+|.+|+|||||...+.......     +         .+...+++..............+....-+++|+|-
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~~~~~t~g~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~   93 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDS   93 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCEEEEEETTEEEEEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEET
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCCcccCcCCeEEEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEEC
Confidence            445678999999999999999987642100     0         01111244444444444455556554556677764


Q ss_pred             C
Q 048213          191 I  191 (532)
Q Consensus       191 v  191 (532)
                      .
T Consensus        94 ~   94 (181)
T 1fzq_A           94 A   94 (181)
T ss_dssp             T
T ss_pred             c
Confidence            3

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.82  E-value=0.019  Score=52.05  Aligned_cols=28  Identities=18%  Similarity=0.215  Sum_probs=24.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...++|.|.|++|+||||.|+.+++...
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~g   54 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKFH   54 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHHC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            3568999999999999999999988754

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=94.82  E-value=0.018  Score=52.29  Aligned_cols=27  Identities=19%  Similarity=0.162  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ....|.|.|+.|+||||+|+.++....
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            346799999999999999999988653

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.81  E-value=0.013  Score=51.47  Aligned_cols=26  Identities=23%  Similarity=0.225  Sum_probs=18.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+|.|.|+.|+||||+|+.+.....
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            36899999999999999999987643

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=94.80  E-value=0.052  Score=53.35  Aligned_cols=38  Identities=24%  Similarity=0.370  Sum_probs=29.5

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          115 FNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       115 ~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++++.+.  ..+..+|+|+|.+|+|||||+..+.....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~  104 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLI  104 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            444555554  45678999999999999999999877653

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=94.78  E-value=0.045  Score=50.12  Aligned_cols=53  Identities=17%  Similarity=0.128  Sum_probs=36.8

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKK  180 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~  180 (532)
                      ....|+|.|+.|+||||+++.+......  .++...............+.+.+.+
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~--~~~~~~~~~p~~~~~g~~i~~~~~~   77 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK--DYDVIMTREPGGVPTGEEIRKIVLE   77 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT--TSCEEEECTTTTCHHHHHHHHHTTC
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc--CCCceeecCCCCCchHHHHHHHHhC
Confidence            3478999999999999999999987764  3555443333333444556665553

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=94.77  E-value=0.018  Score=50.82  Aligned_cols=25  Identities=20%  Similarity=0.175  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|+|.|+.|+||||+|+.+....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998764

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=94.77  E-value=0.021  Score=51.03  Aligned_cols=26  Identities=27%  Similarity=0.139  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+|+|.|+.|+||||+|+.+.....
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45899999999999999999987653

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=94.76  E-value=0.015  Score=52.12  Aligned_cols=22  Identities=32%  Similarity=0.240  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      .+|+|.|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999975

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=94.75  E-value=0.03  Score=52.27  Aligned_cols=26  Identities=27%  Similarity=0.201  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++.+.|.||+||||++..++....
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            57889999999999999999877654

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=94.74  E-value=0.018  Score=49.61  Aligned_cols=24  Identities=13%  Similarity=0.039  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|+|.|+.|+||||+|+.+.+...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            689999999999999999988643

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.70  E-value=0.03  Score=54.06  Aligned_cols=27  Identities=26%  Similarity=0.331  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+++|+|.+|+||||++..++....
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~  130 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYA  130 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            457999999999999999999887554

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=94.70  E-value=0.018  Score=51.86  Aligned_cols=25  Identities=12%  Similarity=0.146  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3689999999999999999998754

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=94.69  E-value=0.057  Score=52.80  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -+++.|+|.+|+||||||.+++....
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~~~~   86 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVANAQ   86 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            47899999999999999999886543

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=94.69  E-value=0.039  Score=52.66  Aligned_cols=27  Identities=22%  Similarity=0.305  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+++++|++|+||||++..++....
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            457999999999999999999887654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.67  E-value=0.02  Score=50.66  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|+|.|+.|+||||+|+.+.+...
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999988653

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=94.67  E-value=0.02  Score=55.14  Aligned_cols=28  Identities=21%  Similarity=0.300  Sum_probs=24.1

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ....+|+|+|+.|+|||||++.+..-..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            4457999999999999999999987544

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=94.64  E-value=0.027  Score=52.47  Aligned_cols=26  Identities=19%  Similarity=0.045  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...+|.|+|++|+||||+|+.+....
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            35789999999999999999998764

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=94.61  E-value=0.022  Score=52.81  Aligned_cols=26  Identities=15%  Similarity=0.148  Sum_probs=22.7

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ....+|+|.|+.|+|||||++.+...
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34478999999999999999999875

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=94.61  E-value=0.035  Score=53.23  Aligned_cols=27  Identities=22%  Similarity=0.207  Sum_probs=23.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+++|+|++|+||||++..++....
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~  129 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFV  129 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHH
Confidence            357999999999999999999887654

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.56  E-value=0.086  Score=44.74  Aligned_cols=61  Identities=10%  Similarity=0.117  Sum_probs=35.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhccC----CC----------CEEEEeccCchhhHHHHHHHHhccCcEEEEEcC
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAENEK----LF----------DRVIFVEESESGRARSLCNRLKKEKMILVILDN  190 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~~~----~F----------~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDd  190 (532)
                      |+++|.+|+|||||...+....-...    .|          ...+++..............+.+..-+++|+|-
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   77 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDS   77 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEET
T ss_pred             EEEECCCCCCHHHHHHHHHcCCcCcccCcCceeEEEEEECCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEEC
Confidence            78999999999999999876532110    01          112244444444444444445544556666664

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.56  E-value=0.021  Score=52.18  Aligned_cols=25  Identities=20%  Similarity=0.139  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...|.|.|+.|+||||+|+.+....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999998754

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=94.55  E-value=0.017  Score=52.47  Aligned_cols=25  Identities=28%  Similarity=0.260  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||++.+....
T Consensus        23 G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           23 IYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998754

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=94.54  E-value=0.043  Score=46.75  Aligned_cols=24  Identities=17%  Similarity=0.299  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-|+++|.+|+|||||...+....
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            468899999999999999988653

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=94.54  E-value=0.066  Score=54.91  Aligned_cols=28  Identities=25%  Similarity=0.324  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..++|.|+|.+|+||||++..++.....
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~  127 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQR  127 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4679999999999999999998875543

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=94.53  E-value=0.024  Score=51.06  Aligned_cols=27  Identities=11%  Similarity=0.133  Sum_probs=23.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..+|+|.|+.|+||||+|+.+......
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            468999999999999999999886543

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=94.51  E-value=0.038  Score=54.00  Aligned_cols=29  Identities=28%  Similarity=0.430  Sum_probs=24.7

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ....+++.+.|.||+||||+|..++....
T Consensus        15 ~~~~~i~~~~gkGGvGKTt~a~~lA~~la   43 (348)
T 3io3_A           15 HDSLKWIFVGGKGGVGKTTTSSSVAVQLA   43 (348)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            45568999999999999999999887654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=94.51  E-value=0.023  Score=51.07  Aligned_cols=26  Identities=15%  Similarity=0.107  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+|+|.|+.|+||||+|+.+.....
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~   35 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLK   35 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999988654

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=94.50  E-value=0.023  Score=50.41  Aligned_cols=26  Identities=23%  Similarity=0.248  Sum_probs=22.9

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ....+|+|.|+.|+||||+|+.+...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            34578999999999999999999875

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.50  E-value=0.022  Score=51.83  Aligned_cols=26  Identities=19%  Similarity=0.057  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...|.|.|+.|+||||+|+.++....
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999999988654

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=94.49  E-value=0.013  Score=52.81  Aligned_cols=25  Identities=20%  Similarity=0.270  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+|+|.|+.|+||||+|+.+.....
T Consensus         1 ~~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            1 MLIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             CEEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3789999999999999999987654

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.48  E-value=0.024  Score=52.77  Aligned_cols=26  Identities=23%  Similarity=0.192  Sum_probs=22.8

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...+|+|+|+.|+||||+++.++...
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            34699999999999999999998654

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=94.47  E-value=0.024  Score=48.59  Aligned_cols=27  Identities=22%  Similarity=0.123  Sum_probs=23.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..-.+++|+|+.|+|||||++.++.-.
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            344799999999999999999998864

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=94.47  E-value=0.018  Score=51.57  Aligned_cols=37  Identities=16%  Similarity=0.024  Sum_probs=21.5

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          115 FNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       115 ~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+.+.+.....+.--|+|+|.+|+|||||...+.+..
T Consensus        18 ~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           18 GSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             hhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3333343334455678899999999999999888643

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=94.45  E-value=0.14  Score=50.19  Aligned_cols=39  Identities=18%  Similarity=-0.022  Sum_probs=29.9

Q ss_pred             HHHHHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          114 TFNDILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       114 ~~~~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .--++++.+. -..-..++|+|.+|+|||+|+..+.+...
T Consensus       161 tGiraID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~  200 (427)
T 3l0o_A          161 YSTRLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIA  200 (427)
T ss_dssp             HHHHHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHH
T ss_pred             ccchhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHh
Confidence            3446677776 24457899999999999999999888643

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.43  E-value=0.055  Score=49.87  Aligned_cols=24  Identities=29%  Similarity=0.166  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.++.|.|.+|+|||++|.+++.+
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~~~   53 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFIYK   53 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            368999999999999999887654

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=94.40  E-value=0.025  Score=54.26  Aligned_cols=28  Identities=21%  Similarity=0.302  Sum_probs=24.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+++|+|++|+||||++..++.-...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~  128 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQN  128 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4579999999999999999999876553

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=94.40  E-value=0.024  Score=51.20  Aligned_cols=23  Identities=26%  Similarity=0.332  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998764

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=94.39  E-value=0.03  Score=56.49  Aligned_cols=26  Identities=31%  Similarity=0.360  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+|.|+|.+|+||||+|..++....
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~  124 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQ  124 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999887554

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.35  E-value=0.042  Score=47.04  Aligned_cols=23  Identities=17%  Similarity=0.406  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|+++|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKG   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999998864

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=94.35  E-value=0.05  Score=46.97  Aligned_cols=25  Identities=20%  Similarity=0.135  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..-|+|+|.+|+|||||...+....
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4568999999999999999998754

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=94.33  E-value=0.024  Score=51.51  Aligned_cols=26  Identities=8%  Similarity=0.034  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -.+++|+|+.|+|||||.+.+.....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            47999999999999999999987643

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=94.32  E-value=0.054  Score=54.39  Aligned_cols=28  Identities=25%  Similarity=0.197  Sum_probs=24.0

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+|.++|++|+||||++..++.....
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~  123 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKK  123 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3689999999999999999998876554

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.27  E-value=0.043  Score=46.81  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|.+|+|||||...+.+.
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999999874

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=94.27  E-value=0.044  Score=53.25  Aligned_cols=30  Identities=27%  Similarity=0.381  Sum_probs=24.7

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ....+++.+.|-||+||||+|..++.....
T Consensus        13 ~~~~~i~~~sgkGGvGKTt~a~~lA~~la~   42 (334)
T 3iqw_A           13 QRSLRWIFVGGKGGVGKTTTSCSLAIQLAK   42 (334)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHHTT
T ss_pred             CCCeEEEEEeCCCCccHHHHHHHHHHHHHh
Confidence            455688889999999999999998876554

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=94.24  E-value=0.039  Score=46.84  Aligned_cols=22  Identities=23%  Similarity=0.389  Sum_probs=19.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.++|.+|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999999865

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=94.23  E-value=0.052  Score=46.14  Aligned_cols=24  Identities=17%  Similarity=0.307  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      --|+|+|.+|+|||||...+....
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999987653

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=94.23  E-value=0.085  Score=51.67  Aligned_cols=26  Identities=31%  Similarity=0.321  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -+++.|.|.+|+||||||.+++....
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~~~   88 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAAAQ   88 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999887654

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=94.22  E-value=0.028  Score=50.15  Aligned_cols=25  Identities=16%  Similarity=0.130  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...|+|.|+.|+||||+++.+.+..
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999998764

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=94.21  E-value=0.027  Score=50.88  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=20.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999997754

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=94.20  E-value=0.045  Score=47.78  Aligned_cols=24  Identities=17%  Similarity=0.111  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-|+|+|.+|+|||||...+....
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999988653

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=94.18  E-value=0.047  Score=47.97  Aligned_cols=24  Identities=25%  Similarity=0.111  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-|+|+|.+|+|||||...+....
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999998653

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.18  E-value=0.017  Score=50.20  Aligned_cols=26  Identities=23%  Similarity=0.161  Sum_probs=22.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++++|+|..|+|||||++.+..-...
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            68999999999999999999876554

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=94.17  E-value=0.075  Score=47.26  Aligned_cols=24  Identities=17%  Similarity=0.137  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..-|+|+|.+|+|||||...+...
T Consensus        29 ~~ki~vvG~~~vGKSsli~~l~~~   52 (201)
T 2hup_A           29 LFKLVLVGDASVGKTCVVQRFKTG   52 (201)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            456899999999999999998764

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.16  E-value=0.042  Score=46.98  Aligned_cols=23  Identities=13%  Similarity=0.157  Sum_probs=20.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|+++|.+|+|||||...+....
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999988653

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=94.15  E-value=0.029  Score=48.97  Aligned_cols=25  Identities=20%  Similarity=0.129  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..+|+|.|+.|+||||+++.+....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4688999999999999999998764

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=94.14  E-value=0.068  Score=47.40  Aligned_cols=26  Identities=8%  Similarity=0.074  Sum_probs=21.3

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ....-|+|+|.+|+|||||...+...
T Consensus        26 ~~~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           26 QKAYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             --CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhC
Confidence            34467899999999999999998764

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=94.11  E-value=0.035  Score=58.83  Aligned_cols=48  Identities=15%  Similarity=0.062  Sum_probs=39.4

Q ss_pred             ccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          103 KDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .....++|.+..++.+...+..+  ..+.|+|+.|+||||||+.++....
T Consensus        38 ~~l~~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           38 KLIDQVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             SHHHHCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             cccceEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccCC
Confidence            33567899988888877777655  5889999999999999999988643

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.11  E-value=0.047  Score=48.08  Aligned_cols=24  Identities=25%  Similarity=0.052  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      --|+|+|.+|+|||||...+....
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCcCHHHHHHHHhcCC
Confidence            468899999999999999988764

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=94.09  E-value=0.034  Score=50.38  Aligned_cols=23  Identities=26%  Similarity=0.176  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999875

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=94.05  E-value=0.032  Score=52.88  Aligned_cols=25  Identities=24%  Similarity=0.462  Sum_probs=21.8

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      ....+|+|.|+.|+||||+|+.+..
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999873

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=94.04  E-value=0.037  Score=49.87  Aligned_cols=28  Identities=18%  Similarity=0.086  Sum_probs=24.0

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ....+|.|.|+.|+||||+|+.+.....
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4457899999999999999999987654

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=93.99  E-value=0.026  Score=52.35  Aligned_cols=25  Identities=32%  Similarity=0.238  Sum_probs=22.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+|+|+|+.|+||||+++.++....
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            6899999999999999999987543

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=93.95  E-value=0.062  Score=46.73  Aligned_cols=25  Identities=16%  Similarity=0.311  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..-|+|+|.+|+|||||...+....
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            3568899999999999999988653

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=93.95  E-value=0.044  Score=47.37  Aligned_cols=23  Identities=17%  Similarity=0.105  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|+|+|..|+|||||...+...
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998864

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.95  E-value=0.033  Score=53.92  Aligned_cols=24  Identities=33%  Similarity=0.188  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+|+|.|+.|+||||||..++...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999998764

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=93.94  E-value=0.13  Score=46.30  Aligned_cols=52  Identities=15%  Similarity=0.092  Sum_probs=37.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKK  180 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~  180 (532)
                      ..|+|.|+.|+||||+++.+......+ .+................+++.+..
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~~~-~~~v~~~~~p~~~~~g~~i~~~l~~   58 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLRER-GIEVQLTREPGGTPLAERIRELLLA   58 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHTT-TCCEEEEESSCSSHHHHHHHHHHHS
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHc-CCCcccccCCCCCHHHHHHHHHHhc
Confidence            688999999999999999999876543 3555544444444455667777764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.94  E-value=0.031  Score=49.46  Aligned_cols=25  Identities=20%  Similarity=0.155  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+++|+|+.|+|||||++.++....
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            3689999999999999999988665

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=93.94  E-value=0.062  Score=51.99  Aligned_cols=29  Identities=24%  Similarity=0.232  Sum_probs=24.4

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ....+++|+|+.|+||||++..++.....
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~  155 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKN  155 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            34689999999999999999998876543

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=93.92  E-value=0.031  Score=50.87  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||++.++...
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3799999999999999999998743

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=93.91  E-value=0.041  Score=50.79  Aligned_cols=25  Identities=32%  Similarity=0.444  Sum_probs=20.8

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhcc
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      |+|.|-||+||||+|..++.....+
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~   27 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASD   27 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTT
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHC
Confidence            6669999999999999988766543

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=93.91  E-value=0.047  Score=48.59  Aligned_cols=38  Identities=18%  Similarity=0.142  Sum_probs=27.3

Q ss_pred             HHHHHHHhcC-CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          115 FNDILNALKS-PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       115 ~~~i~~~l~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +..+..++.. ..-..+.|+|++|+||||+|..+++...
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4444444432 1234799999999999999999988754

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=93.90  E-value=0.077  Score=47.31  Aligned_cols=23  Identities=22%  Similarity=0.151  Sum_probs=19.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .+..|.|.+|+|||++|......
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~   28 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMAN   28 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            46789999999999999876444

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.90  E-value=0.12  Score=46.25  Aligned_cols=51  Identities=20%  Similarity=0.175  Sum_probs=37.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLKK  180 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~~  180 (532)
                      ..|+|-|..|+||||+++.+++...  ..++.............+.+++.+.+
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~--~~~~v~~~~eP~~t~~g~~ir~~l~~   53 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLV--KDYDVIMTREPGGVPTGEEIRKIVLE   53 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHT--TTSCEEEEESSTTCHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHH--CCCCEEEeeCCCCChHHHHHHHHHhc
Confidence            4688999999999999999998774  24666654444555566777777764

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=93.89  E-value=0.039  Score=48.05  Aligned_cols=26  Identities=23%  Similarity=0.208  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++++|+|+.|+|||||+..+.....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~   31 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALC   31 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcc
Confidence            57899999999999999999987643

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.89  E-value=0.07  Score=47.07  Aligned_cols=24  Identities=17%  Similarity=0.296  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..-|+|+|.+|+|||||...+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            356899999999999999998864

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=93.88  E-value=0.051  Score=46.41  Aligned_cols=23  Identities=13%  Similarity=0.088  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|+|+|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            35789999999999999998864

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=93.88  E-value=0.036  Score=53.26  Aligned_cols=27  Identities=19%  Similarity=0.151  Sum_probs=23.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ....+|+|.|+.|+|||||++.+....
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            445799999999999999999998754

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=93.87  E-value=0.063  Score=47.69  Aligned_cols=25  Identities=16%  Similarity=0.311  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..-|+|+|.+|+|||||...+....
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCC
Confidence            4568999999999999999987653

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=93.87  E-value=0.034  Score=51.30  Aligned_cols=26  Identities=15%  Similarity=0.042  Sum_probs=22.6

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .. .+++|+|+.|+|||||.+.++.-.
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCC
Confidence            45 799999999999999999998643

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=93.83  E-value=0.12  Score=50.92  Aligned_cols=26  Identities=31%  Similarity=0.280  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -.++.|.|.+|+||||||..++....
T Consensus        74 G~li~I~G~pGsGKTtlal~la~~~~   99 (366)
T 1xp8_A           74 GRITEIYGPESGGKTTLALAIVAQAQ   99 (366)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHHHHHH
Confidence            36889999999999999999877643

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=93.82  E-value=0.022  Score=52.20  Aligned_cols=24  Identities=25%  Similarity=0.173  Sum_probs=16.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHH-HH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVA-IK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~-~~  150 (532)
                      ..+++|+|+.|+|||||++.+. ..
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC--
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcC
Confidence            3689999999999999999998 54

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=93.80  E-value=0.038  Score=50.58  Aligned_cols=26  Identities=15%  Similarity=0.216  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+|+|.|++|+||||+|+.+.....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            36899999999999999999987653

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.80  E-value=0.11  Score=45.48  Aligned_cols=35  Identities=23%  Similarity=0.258  Sum_probs=26.9

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          115 FNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       115 ~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ...+.+ +.......|+|+|.+|+|||||...+...
T Consensus         5 ~~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            5 FTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            344555 44455678899999999999999998854

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=93.79  E-value=0.039  Score=48.42  Aligned_cols=24  Identities=21%  Similarity=0.326  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.|+++|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            467899999999999999998653

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=93.78  E-value=0.11  Score=49.64  Aligned_cols=24  Identities=13%  Similarity=-0.040  Sum_probs=20.9

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++-|.|++|+||||||.+++....
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~   53 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYM   53 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH
Confidence            689999999999999988876654

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=93.78  E-value=0.059  Score=51.38  Aligned_cols=28  Identities=32%  Similarity=0.395  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+++|+|.+|+||||++..++.....
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~  124 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKG  124 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3579999999999999999998876543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.77  E-value=0.044  Score=48.31  Aligned_cols=25  Identities=20%  Similarity=0.142  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..-|+|+|..|+|||||...+....
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3568999999999999999998754

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=93.76  E-value=0.039  Score=50.00  Aligned_cols=25  Identities=20%  Similarity=0.131  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..|.|.|+.|+||||+|+.+.....
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5789999999999999999988653

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=93.75  E-value=0.055  Score=48.26  Aligned_cols=26  Identities=23%  Similarity=0.325  Sum_probs=21.1

Q ss_pred             eEEEEE-ccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIY-GMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~-G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|+ +-||+||||+|..++.....
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~   28 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSR   28 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHH
Confidence            578887 78999999999998776543

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=93.75  E-value=0.04  Score=49.50  Aligned_cols=24  Identities=33%  Similarity=0.336  Sum_probs=21.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|.|.|++|+||+|.|+.++....
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g   25 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG   25 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            678999999999999999998754

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=93.73  E-value=0.037  Score=49.53  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +|+|.|+.|+||||+|+.+.....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            899999999999999999987543

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=93.73  E-value=0.051  Score=46.46  Aligned_cols=24  Identities=13%  Similarity=0.118  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      --|+|+|.+|+|||||...+....
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            358899999999999999988754

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=93.73  E-value=0.044  Score=47.70  Aligned_cols=24  Identities=25%  Similarity=0.295  Sum_probs=21.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .--|+|+|.+|+|||||...+.+.
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356789999999999999999865

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=93.72  E-value=0.031  Score=50.36  Aligned_cols=23  Identities=26%  Similarity=0.167  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .+++|+|+.|+|||||++.++.-
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            58999999999999999999865

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=93.71  E-value=0.052  Score=47.08  Aligned_cols=23  Identities=17%  Similarity=0.115  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-|+|+|.+|+|||||...+...
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46889999999999999998865

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=93.69  E-value=0.045  Score=47.79  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      --|+|+|.+|+|||||...+.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            357899999999999999998654

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=93.69  E-value=0.04  Score=49.71  Aligned_cols=23  Identities=22%  Similarity=0.056  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998765

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=93.69  E-value=0.035  Score=47.40  Aligned_cols=23  Identities=13%  Similarity=0.176  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|+|+|.+|+|||||...+...
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999999875

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=93.68  E-value=0.069  Score=45.47  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=18.7

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      -|+++|.+|+|||||...+.+
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            578999999999999998854

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=93.67  E-value=0.07  Score=46.79  Aligned_cols=24  Identities=13%  Similarity=0.090  Sum_probs=21.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..-|+|+|..|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            357899999999999999998764

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=93.66  E-value=0.046  Score=50.08  Aligned_cols=26  Identities=23%  Similarity=0.047  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...|.|.|+.|+||||+|+.+.+...
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35799999999999999999988754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=93.65  E-value=0.045  Score=52.35  Aligned_cols=27  Identities=30%  Similarity=0.340  Sum_probs=23.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..+++|+|+.|+||||++..++.....
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            469999999999999999999876543

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=93.63  E-value=0.042  Score=50.05  Aligned_cols=23  Identities=30%  Similarity=0.245  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .|.|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998764

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=93.62  E-value=0.031  Score=51.42  Aligned_cols=24  Identities=21%  Similarity=0.220  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcC
Confidence            368999999999999999998764

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=93.61  E-value=0.072  Score=46.81  Aligned_cols=23  Identities=35%  Similarity=0.190  Sum_probs=19.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|+|+|.+|+|||||.+.+.+.
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHhh
Confidence            45889999999999999776653

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.60  E-value=0.042  Score=52.84  Aligned_cols=24  Identities=21%  Similarity=0.052  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++|.|+|+.|+||||||..++...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999998764

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=93.59  E-value=0.092  Score=45.92  Aligned_cols=23  Identities=17%  Similarity=0.056  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-|+|+|.+|+|||||...+...
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999999864

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=93.59  E-value=0.05  Score=46.97  Aligned_cols=23  Identities=17%  Similarity=0.264  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-|+|+|.+|+|||||...+...
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999998764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=93.59  E-value=0.026  Score=53.73  Aligned_cols=26  Identities=12%  Similarity=0.141  Sum_probs=19.7

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +..+|+|.|+.|+||||+|+.+....
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999988753

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=93.58  E-value=0.032  Score=50.92  Aligned_cols=24  Identities=21%  Similarity=0.234  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999998754

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=93.57  E-value=0.044  Score=55.15  Aligned_cols=48  Identities=19%  Similarity=0.181  Sum_probs=36.2

Q ss_pred             cccccchHHHHHHHHHhcC--------------CCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          106 EAFESRMSTFNDILNALKS--------------PDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~--------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..++|-++.++.+...+..              ...+-+.++|++|+||||+|+.++.....
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~   76 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            3577888877777665521              13467899999999999999999987643

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=93.52  E-value=0.064  Score=48.56  Aligned_cols=22  Identities=18%  Similarity=0.157  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.|+|.+|+|||+|...+.++
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~   36 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYD   36 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCcCHHHHHHHHHhC
Confidence            3779999999999999988754

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=93.50  E-value=0.12  Score=46.17  Aligned_cols=25  Identities=12%  Similarity=-0.033  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...|+|+|.+|+|||||...+....
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578999999999999999988653

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=93.48  E-value=0.074  Score=48.15  Aligned_cols=26  Identities=15%  Similarity=0.038  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      .|.+.|.||+||||+|..++.....+
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~   33 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQ   33 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            47889999999999999888765543

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=93.48  E-value=0.053  Score=47.82  Aligned_cols=24  Identities=13%  Similarity=0.123  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      --|+|+|..|+|||||...+....
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999998754

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=93.48  E-value=0.073  Score=46.79  Aligned_cols=26  Identities=19%  Similarity=-0.112  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .++.|+|+.|+||||++..++.+...
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~   29 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKL   29 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57889999999999999777765543

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=93.47  E-value=0.062  Score=47.75  Aligned_cols=24  Identities=21%  Similarity=0.043  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-|+|+|.+|+|||||...+....
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999987653

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.46  E-value=0.044  Score=47.49  Aligned_cols=24  Identities=21%  Similarity=0.083  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      --|+++|.+|+|||||...+....
T Consensus        11 ~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           11 FKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            468999999999999999987654

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=93.43  E-value=0.044  Score=52.26  Aligned_cols=24  Identities=21%  Similarity=0.299  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++|+|.|+.|+||||||..++...
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhC
Confidence            689999999999999999998753

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=93.38  E-value=0.059  Score=47.50  Aligned_cols=23  Identities=22%  Similarity=0.186  Sum_probs=19.6

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-|+|+|..|+|||||...+...
T Consensus        27 ~ki~vvG~~~~GKSsLi~~l~~~   49 (192)
T 2il1_A           27 LQVIIIGSRGVGKTSLMERFTDD   49 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHCC-
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45889999999999999998754

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=93.34  E-value=0.14  Score=48.16  Aligned_cols=29  Identities=24%  Similarity=0.217  Sum_probs=23.3

Q ss_pred             CCCceEEEEEcc-CCCchHHHHHHHHHHhh
Q 048213          124 SPDVNMLGIYGM-GGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       124 ~~~~~vv~I~G~-gGiGKTtLA~~v~~~~~  152 (532)
                      +.+.++|.|.|. ||+||||+|..++....
T Consensus        79 ~~~~kvI~vts~kgG~GKTt~a~nLA~~lA  108 (271)
T 3bfv_A           79 DSAVQSIVITSEAPGAGKSTIAANLAVAYA  108 (271)
T ss_dssp             TCCCCEEEEECSSTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCcHHHHHHHHHHHHH
Confidence            456789999975 89999999998876544

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.34  E-value=0.059  Score=48.09  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..-|+|+|.+|+|||||...+...
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            356889999999999999998764

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=93.31  E-value=0.044  Score=49.43  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      -.++.|+|++|+||||||..++.
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999887

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=93.30  E-value=0.037  Score=52.17  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.+++|+|+.|+|||||++.+..-
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcC
Confidence            368999999999999999998764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.29  E-value=0.17  Score=45.49  Aligned_cols=51  Identities=27%  Similarity=0.212  Sum_probs=36.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCC-CEEEEeccCchhhHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLF-DRVIFVEESESGRARSLCNRLK  179 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F-~~~~~~~~~~~~~~~~l~~~l~  179 (532)
                      ..|.+.|+.|+||||+++.+.......+ + ................+++.+.
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~-~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQLG-IRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcC-CCcceeeeCCCCCHHHHHHHHHHh
Confidence            5789999999999999999998776543 4 3333333344445666777766

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=93.28  E-value=0.038  Score=50.85  Aligned_cols=24  Identities=13%  Similarity=0.198  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        31 Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           31 GALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            368999999999999999998764

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=93.25  E-value=0.05  Score=47.05  Aligned_cols=24  Identities=21%  Similarity=0.301  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..-|+|+|..|+|||||...+...
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457899999999999999998875

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=93.24  E-value=0.11  Score=47.21  Aligned_cols=54  Identities=17%  Similarity=0.105  Sum_probs=34.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc---CCCCEEEEeccCchhhHHHHHHHHhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE---KLFDRVIFVEESESGRARSLCNRLKK  180 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~---~~F~~~~~~~~~~~~~~~~l~~~l~~  180 (532)
                      ...|.|.|+.|+||||+++.+++.....   ..++...............+++.+..
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~rep~~t~~g~~ir~~l~~   81 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTREPGGTRLGETLREILLN   81 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEEEESSSSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhccccceeeeeecCCCCChHHHHHHHHHHc
Confidence            3689999999999999999999876543   03555444444444445667766664

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=93.23  E-value=0.078  Score=52.43  Aligned_cols=28  Identities=21%  Similarity=0.264  Sum_probs=22.7

Q ss_pred             CCceEEEEEc-cCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYG-MGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G-~gGiGKTtLA~~v~~~~~  152 (532)
                      .+.++|+|+| -||+||||+|..++....
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La  169 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHA  169 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHH
Confidence            3578899985 999999999998876543

>1pgv_A TMD-1, tropomodulin TMD-1; structural genomics, PSI, protein structure initiative, southeast collaboratory for structural genomics secsg; 1.80A {Caenorhabditis elegans} SCOP: c.10.1.1

Probab=93.22  E-value=0.077  Score=47.01  Aligned_cols=39  Identities=13%  Similarity=0.169  Sum_probs=20.9

Q ss_pred             cccccEEEeccc-cccC------cccccccccccEEeecccccccc
Q 048213          391 LTNLQTLCLYYC-KLQD------TSVLGELKILEILRLRVNELTRA  429 (532)
Q Consensus       391 l~~L~~L~l~~~-~l~~------~~~i~~l~~L~~L~l~~~~l~~~  429 (532)
                      -+.|+.|+++++ .+.+      ...+..-..|+.|+|++|.+...
T Consensus        40 n~~L~~L~L~~nn~igd~ga~~la~aL~~N~~L~~L~L~~n~igd~   85 (197)
T 1pgv_A           40 DTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDS   85 (197)
T ss_dssp             CSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHH
T ss_pred             CCCccEEECCCCCCCCHHHHHHHHHHHhhCCCcCEEEccCCCCChH
Confidence            345667777664 5443      12334445566666666655543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=93.21  E-value=0.044  Score=52.89  Aligned_cols=25  Identities=20%  Similarity=0.274  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++|.|+|+.|+||||||..++...
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHC
Confidence            3689999999999999999998753

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=93.20  E-value=0.11  Score=51.92  Aligned_cols=37  Identities=16%  Similarity=0.214  Sum_probs=27.0

Q ss_pred             HHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          117 DILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       117 ~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +.++.|. =..-..++|+|..|+|||+|+..+++....
T Consensus       140 raID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~  177 (465)
T 3vr4_D          140 SAIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATV  177 (465)
T ss_dssp             HHHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBC
T ss_pred             eEEecccccccCCEEEEeCCCCcChHHHHHHHHHHHHh
Confidence            3445444 123356789999999999999999987654

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=93.20  E-value=0.039  Score=51.64  Aligned_cols=25  Identities=20%  Similarity=0.264  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-.+++|+|+.|+|||||.+.++.-
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999998764

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=93.19  E-value=0.054  Score=51.54  Aligned_cols=25  Identities=20%  Similarity=0.042  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++|.|.|+.|+||||||..++...
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC
Confidence            4689999999999999999998763

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.18  E-value=0.095  Score=46.27  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=21.6

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ...--|+|+|.+|+|||||...+...
T Consensus        26 ~~~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           26 SAEVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhC
Confidence            34456889999999999999998875

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=93.18  E-value=0.047  Score=50.68  Aligned_cols=23  Identities=26%  Similarity=0.280  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999999874

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=93.15  E-value=0.043  Score=46.95  Aligned_cols=23  Identities=13%  Similarity=0.104  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|+|+|.+|+|||||...+...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVED   26 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhC
Confidence            45889999999999999998764

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=93.14  E-value=0.061  Score=47.24  Aligned_cols=24  Identities=17%  Similarity=0.141  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..|+|+|.+|+|||||...+.+..
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999998753

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=93.13  E-value=0.041  Score=51.64  Aligned_cols=25  Identities=24%  Similarity=0.203  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            3689999999999999999997643

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=93.10  E-value=0.11  Score=52.16  Aligned_cols=36  Identities=17%  Similarity=0.215  Sum_probs=26.7

Q ss_pred             HHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          118 ILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       118 i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .++.|. =..-..++|+|.+|+|||+|+..+++....
T Consensus       137 aID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~a  173 (464)
T 3gqb_B          137 TIDVMNTLVRGQKLPIFSGSGLPANEIAAQIARQATV  173 (464)
T ss_dssp             HHHTTSCCBTTCBCCEEEETTSCHHHHHHHHHHHCBC
T ss_pred             eeecccccccCCEEEEecCCCCCchHHHHHHHHHHHh
Confidence            344444 223357789999999999999999887654

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=93.08  E-value=0.053  Score=51.80  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.07  E-value=0.042  Score=50.66  Aligned_cols=24  Identities=25%  Similarity=0.278  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999998764

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=93.06  E-value=0.038  Score=49.96  Aligned_cols=23  Identities=35%  Similarity=0.434  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .+++|+|+.|+|||||.+.++.-
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            68999999999999999998764

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=93.06  E-value=0.05  Score=51.06  Aligned_cols=25  Identities=24%  Similarity=0.231  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-.+++|+|+.|+|||||.+.++.-
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999999874

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=93.06  E-value=0.063  Score=52.57  Aligned_cols=27  Identities=30%  Similarity=0.340  Sum_probs=23.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..+++|+|+.|+||||++..++.....
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            469999999999999999999876543

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=93.03  E-value=0.12  Score=46.36  Aligned_cols=23  Identities=26%  Similarity=0.079  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      --|+|+|..|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsLi~~l~~~   48 (217)
T 2f7s_A           26 IKLLALGDSGVGKTTFLYRYTDN   48 (217)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            46889999999999999998764

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=93.02  E-value=0.1  Score=53.08  Aligned_cols=28  Identities=25%  Similarity=0.316  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+++|+|..|+|||||++.++.....
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~  319 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQ  319 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhh
Confidence            3579999999999999999999876543

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=93.01  E-value=0.043  Score=51.18  Aligned_cols=25  Identities=20%  Similarity=0.058  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||.+.++.-.
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999987643

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=93.01  E-value=0.17  Score=48.23  Aligned_cols=29  Identities=24%  Similarity=0.174  Sum_probs=23.6

Q ss_pred             CCCceEEEEEcc-CCCchHHHHHHHHHHhh
Q 048213          124 SPDVNMLGIYGM-GGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       124 ~~~~~vv~I~G~-gGiGKTtLA~~v~~~~~  152 (532)
                      +.+.++|.|.|. ||+||||+|..++....
T Consensus       101 ~~~~kvI~vts~kgG~GKTtva~nLA~~lA  130 (299)
T 3cio_A          101 ETENNILMITGATPDSGKTFVSSTLAAVIA  130 (299)
T ss_dssp             SCSCCEEEEEESSSSSCHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCChHHHHHHHHHHHH
Confidence            456789999986 89999999998876544

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=93.00  E-value=0.045  Score=50.10  Aligned_cols=25  Identities=20%  Similarity=0.171  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||.+.++.-.
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3689999999999999999987643

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=93.00  E-value=0.053  Score=49.33  Aligned_cols=25  Identities=20%  Similarity=0.146  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+++|+|++|+|||||+..++....
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~~~   48 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAKGL   48 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            6899999999999999999986543

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=93.00  E-value=0.044  Score=51.26  Aligned_cols=25  Identities=16%  Similarity=0.206  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-.+++|+|+.|+|||||.+.++.-
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcC
Confidence            3478999999999999999998764

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=92.97  E-value=0.061  Score=47.36  Aligned_cols=25  Identities=20%  Similarity=0.209  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .--|+|+|..|+|||||...+....
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999988753

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=92.97  E-value=0.08  Score=45.22  Aligned_cols=22  Identities=23%  Similarity=0.175  Sum_probs=19.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      --|+|+|.+|+|||||...+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3578999999999999999863

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=92.96  E-value=0.047  Score=50.47  Aligned_cols=26  Identities=15%  Similarity=0.025  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-.+++|+|+.|+|||||.+.++.-.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34789999999999999999987643

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=92.94  E-value=0.12  Score=45.64  Aligned_cols=24  Identities=8%  Similarity=0.068  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .--|+|+|..|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            346889999999999999999875

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=92.92  E-value=0.1  Score=51.08  Aligned_cols=28  Identities=29%  Similarity=0.388  Sum_probs=21.8

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ....++...|-||+||||+|..++....
T Consensus        16 ~~~~i~v~sgKGGvGKTTvaanLA~~lA   43 (354)
T 2woj_A           16 TTHKWIFVGGKGGVGKTTSSCSIAIQMA   43 (354)
T ss_dssp             SSCCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHHH
Confidence            3345666779999999999998876654

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=92.91  E-value=0.046  Score=50.64  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+++|+|+.|+|||||.+.++.-.
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            689999999999999999987643

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=92.91  E-value=0.056  Score=51.64  Aligned_cols=27  Identities=19%  Similarity=0.164  Sum_probs=23.2

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..-.+++|+|+.|+|||||++.+..-.
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            344799999999999999999998754

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=92.90  E-value=0.06  Score=47.51  Aligned_cols=25  Identities=12%  Similarity=0.161  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ...|+|+|..|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3578999999999999999998753

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=92.89  E-value=0.11  Score=49.55  Aligned_cols=27  Identities=26%  Similarity=0.278  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..+++++|.+|+||||++..++.....
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~  124 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKK  124 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            578999999999999999998876543

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=92.89  E-value=0.15  Score=46.18  Aligned_cols=56  Identities=23%  Similarity=0.157  Sum_probs=38.1

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-EeccCchhhHHHHHHHHhc
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-FVEESESGRARSLCNRLKK  180 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-~~~~~~~~~~~~l~~~l~~  180 (532)
                      .....|.|.|+.|+||||+++.+.+.......++... ..........+.+++.+..
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~~t~~g~~ir~~l~~   75 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGGTLLNESVRNLLFK   75 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSCSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCCCChHHHHHHHHHhC
Confidence            4457899999999999999999998765412245544 3333334445667777763

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=92.86  E-value=0.1  Score=53.60  Aligned_cols=46  Identities=2%  Similarity=-0.175  Sum_probs=34.6

Q ss_pred             cccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          108 FESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       108 ~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      -..|.+..+.+.+...  .....+|.+.|+.|+||||+|+.++.....
T Consensus       374 ~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          374 WFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            3456666666666552  335578999999999999999999998764

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=92.84  E-value=0.062  Score=50.23  Aligned_cols=92  Identities=13%  Similarity=0.087  Sum_probs=50.7

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-----------------Eec----cCchhhHHHHHHHHhccCc
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-----------------FVE----ESESGRARSLCNRLKKEKM  183 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-----------------~~~----~~~~~~~~~l~~~l~~~k~  183 (532)
                      ..-.+++|+|+.|+|||||++.+..-....  +...+                 ...    .........+...|.. ..
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~--~~G~I~~~g~~i~~~~~~~~~~v~q~~~gl~~~~l~~~la~aL~~-~p   99 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYINQT--KSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALRE-DP   99 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHHHH--CCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHHHH-CC
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCCCC--CCCEEEEcCCcceeecCCcceeeeHHHhCCCHHHHHHHHHHHHhh-CC
Confidence            344799999999999999999987643321  01111                 000    0111234455566654 44


Q ss_pred             EEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHH
Q 048213          184 ILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDV  222 (532)
Q Consensus       184 ~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v  222 (532)
                      =+|++|...+.+....+...   ...|..|++||.....
T Consensus       100 ~illlDEp~D~~~~~~~l~~---~~~g~~vl~t~H~~~~  135 (261)
T 2eyu_A          100 DVIFVGEMRDLETVETALRA---AETGHLVFGTLHTNTA  135 (261)
T ss_dssp             SEEEESCCCSHHHHHHHHHH---HHTTCEEEEEECCSSH
T ss_pred             CEEEeCCCCCHHHHHHHHHH---HccCCEEEEEeCcchH
Confidence            56777887644332222111   1235567777776543

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=92.83  E-value=0.057  Score=47.79  Aligned_cols=24  Identities=25%  Similarity=0.192  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -+.|.|.|+.|+||||||..+...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            367899999999999999998764

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=92.83  E-value=0.048  Score=50.81  Aligned_cols=25  Identities=24%  Similarity=0.421  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-.+++|+|+.|+|||||.+.++.-
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3368999999999999999998764

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=92.80  E-value=0.072  Score=47.00  Aligned_cols=27  Identities=15%  Similarity=0.092  Sum_probs=22.1

Q ss_pred             cCCCceEEEEEccCCCchHHHHHHHHH
Q 048213          123 KSPDVNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       123 ~~~~~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      ......-|+|+|.+|+|||||...+..
T Consensus        25 ~~~~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           25 FGKKQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             TTTSCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             ccCCccEEEEECCCCCCHHHHHHHHHh
Confidence            344456789999999999999999864

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=92.79  E-value=0.098  Score=50.62  Aligned_cols=25  Identities=32%  Similarity=0.355  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++...|.||+||||+|..++....
T Consensus        15 ~i~v~sgKGGvGKTTvA~~LA~~lA   39 (324)
T 3zq6_A           15 TFVFIGGKGGVGKTTISAATALWMA   39 (324)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCchHHHHHHHHHHHHH
Confidence            5667779999999999998876544

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=92.77  E-value=0.075  Score=49.47  Aligned_cols=29  Identities=28%  Similarity=0.340  Sum_probs=22.7

Q ss_pred             CCceEEEEE-ccCCCchHHHHHHHHHHhhc
Q 048213          125 PDVNMLGIY-GMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       125 ~~~~vv~I~-G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...++|+|+ +-||+||||+|..++.....
T Consensus         4 ~~~~vI~v~s~kGGvGKTt~a~~LA~~la~   33 (257)
T 1wcv_1            4 AKVRRIALANQKGGVGKTTTAINLAAYLAR   33 (257)
T ss_dssp             -CCCEEEECCSSCCHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEEeCCCCchHHHHHHHHHHHHHH
Confidence            345788887 68899999999998876543

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=92.77  E-value=0.056  Score=54.33  Aligned_cols=27  Identities=26%  Similarity=0.354  Sum_probs=23.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ....+|.|+|++|+||||+|+.++...
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            456899999999999999999988754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=92.77  E-value=0.05  Score=50.84  Aligned_cols=24  Identities=25%  Similarity=0.094  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        46 Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           46 GTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcc
Confidence            368999999999999999999764

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=92.76  E-value=0.058  Score=49.48  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.++.|+|++|+|||||+..++..
T Consensus        24 G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           24 GSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            368999999999999999999875

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=92.72  E-value=0.11  Score=47.02  Aligned_cols=26  Identities=15%  Similarity=0.095  Sum_probs=20.6

Q ss_pred             eEEEEEcc-CCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGM-GGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~-gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|.|.|. ||+||||+|..++.....
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~la~   28 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAAKA   28 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57788875 899999999998776543

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=92.71  E-value=0.081  Score=53.31  Aligned_cols=29  Identities=17%  Similarity=0.194  Sum_probs=24.7

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ..++|.++|.+|+||||++..++.....+
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            46799999999999999999988766544

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=92.71  E-value=0.051  Score=51.14  Aligned_cols=26  Identities=19%  Similarity=0.089  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34689999999999999999997643

---

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	532
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	6e-23
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	3e-06
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	4e-05
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-04
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	4e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	8e-04
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	0.001
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.001
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	0.002
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	0.003
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	0.003

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 96.4 bits (239), Expect = 6e-23
 Identities = 39/283 (13%), Positives = 85/283 (30%), Gaps = 54/283 (19%)

Query: 93  IPDDSLLLSNKDYE----AFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVA 148
           + D  LLL N   +      E  +      L+ +   D   L ++G  G  K+  A +  
Sbjct: 6   MLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQAL 65

Query: 149 IKAEN--EKLFDRVIFV----------------------------------EESESGRAR 172
            K++      +D ++++                                    +     R
Sbjct: 66  SKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKR 125

Query: 173 SLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLSRKMDSQQD 232
            +CN L      L + D++ +                  + L+T R +++ +    + + 
Sbjct: 126 MICNALIDRPNTLFVFDDVVQEETIRW------AQELRLRCLVTTRDVEISNAASQTCEF 179

Query: 233 FWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFD 292
             V  L+ DE +   +        G + + V     +  +G P +++   ++   K    
Sbjct: 180 IEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEK 239

Query: 293 WKDALEQLRWPSSTNFKDIQPTAYKAIELSYVKLDGDELKNIF 335
                 +L    S     ++         SY  L    L+   
Sbjct: 240 MAQLNNKLE---SRGLVGVE----CITPYSYKSLA-MALQRCV 274

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 47.3 bits (111), Expect = 3e-06
 Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 4/68 (5%)

Query: 378 YMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR----AGSSQ 433
           Y N +S  S +  LT LQ L     K+ D S L  L  +  L    N+++     A  ++
Sbjct: 315 YFNNISDISPVSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQISDLTPLANLTR 374

Query: 434 LKHLSVRG 441
           +  L +  
Sbjct: 375 ITQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 43.5 bits (101), Expect = 4e-05
 Identities = 14/45 (31%), Positives = 21/45 (46%)

Query: 380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVN 424
           N +S  SSL  LTN+  L   + ++ D + L  L  +  L L   
Sbjct: 339 NKVSDVSSLANLTNINWLSAGHNQISDLTPLANLTRITQLGLNDQ 383

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 41.5 bits (96), Expect = 2e-04
 Identities = 32/144 (22%), Positives = 50/144 (34%), Gaps = 18/144 (12%)

Query: 378 YMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGSSQLKHL 437
             N L    +L  LTNL  L L   ++ + + L  L  L  L+L  N+++    S L  L
Sbjct: 227 NGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQIS--NISPLAGL 284

Query: 438 SVRGLRASAPN---PTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFN 494
           +         N          L  L  + L   NI  I      +    +  L+RL   N
Sbjct: 285 TALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDI------SPVSSLTKLQRLFFAN 338

Query: 495 CWNLTCLFTSSIISSFVGLQCLEI 518
              ++       +SS   L  +  
Sbjct: 339 N-KVS------DVSSLANLTNINW 355

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 39.6 bits (91), Expect = 4e-04
 Identities = 14/49 (28%), Positives = 19/49 (38%)

Query: 374 IDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLR 422
                 N +S  S L  L NL  + L   ++ D S L     L I+ L 
Sbjct: 177 TLKADDNKISDISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLT 225

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.6 bits (90), Expect = 8e-04
 Identities = 26/146 (17%), Positives = 47/146 (32%), Gaps = 19/146 (13%)

Query: 374 IDLTYMNL--LSLPSSLGLLTNLQTLCLYYCKLQD------TSVLGELKILEILRLRVNE 425
           +D+    L        L LL   Q + L  C L +      +S L     L  L LR NE
Sbjct: 7   LDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNE 66

Query: 426 LTRAG-----------SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQ 474
           L   G           S +++ LS++    +          L  L T+    ++   +  
Sbjct: 67  LGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGD 126

Query: 475 NQVAAMSCGIQNLKRLILFNCWNLTC 500
             +  +  G+ + +  +         
Sbjct: 127 AGLQLLCEGLLDPQCRLEKLQLEYCS 152

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 38.5 bits (88), Expect = 0.001
 Identities = 26/152 (17%), Positives = 48/152 (31%), Gaps = 11/152 (7%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQ--DTSVLGELKILEILRLRVNELTRAG 430
           V+  + + L  +P    L  +   L L   K+          LK L  L L  N++++  
Sbjct: 14  VVQCSDLGLEKVPK--DLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKIS 71

Query: 431 SSQLKHL-SVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKR 489
                 L  +  L  S     E    LP+     L  + +      +V         L +
Sbjct: 72  PGAFAPLVKLERLYLSKNQLKE----LPEKMPKTLQELRVHENEITKV--RKSVFNGLNQ 125

Query: 490 LILFNCWNLTCLFTSSIISSFVGLQCLEICEC 521
           +I+          +     +F G++ L     
Sbjct: 126 MIVVELGTNPLKSSGIENGAFQGMKKLSYIRI 157

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 38.7 bits (88), Expect = 0.001
 Identities = 12/69 (17%), Positives = 26/69 (37%), Gaps = 7/69 (10%)

Query: 373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRAGS- 431
            ++++   L+ LP+       L+ L   +  L    V    + L+ L +  N L      
Sbjct: 288 ELNVSNNKLIELPALPP---RLERLIASFNHL--AEVPELPQNLKQLHVEYNPLREFPDI 342

Query: 432 -SQLKHLSV 439
              ++ L +
Sbjct: 343 PESVEDLRM 351

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (85), Expect = 0.002
 Identities = 21/149 (14%), Positives = 39/149 (26%), Gaps = 22/149 (14%)

Query: 375 DLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELT-----RA 429
           +L    +  L   +    +     L    L+    L    I  +L  R +          
Sbjct: 3   ELKPEQVEQLKLIMSKRYDGSQQALDLKGLRSDPDLVAQNIDVVLNRRSSMAATLRIIEE 62

Query: 430 GSSQLKHLSVRGLRASAPNPTESEVA-LPKLETVCLSSINIERIWQ-------------- 474
              +L  L++   R    +   S V   P L+ + LS   ++   +              
Sbjct: 63  NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWL 122

Query: 475 --NQVAAMSCGIQNLKRLILFNCWNLTCL 501
             N ++            I      L  L
Sbjct: 123 DGNSLSDTFRDQSTYISAIRERFPKLLRL 151

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

 Score = 36.6 bits (83), Expect = 0.003
 Identities = 11/48 (22%), Positives = 22/48 (45%), Gaps = 2/48 (4%)

Query: 374 IDLTYM--NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEIL 419
           ++L  M   +  + ++L  L   + L L    ++  S L  ++ L IL
Sbjct: 28  VELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRIL 75

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

 Score = 37.4 bits (85), Expect = 0.003
 Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 2/54 (3%)

Query: 373 VIDLTYMNLL-SLPSSLGLLTNLQTLCLYYCKLQDT-SVLGELKILEILRLRVN 424
            +DL    +  +LP  L  L  L +L + +  L       G L+  ++     N
Sbjct: 248 GLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANN 301

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	532
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.51
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.5
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.46
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.45
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.42
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.39
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.38
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.33
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.33
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.32
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.27
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.26
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.25
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.23
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.22
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.21
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.2
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.2
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.19
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.19
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.19
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.16
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.07
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.04
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	98.97
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.96
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	98.92
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.91
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.8
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.77
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.75
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.74
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.71
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.66
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	98.66
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.65
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.63
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.62
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	98.57
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.55
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.51
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.48
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.46
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.43
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.37
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.32
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.31
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.28
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.26
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.24
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.16
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.14
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.06
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.95
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	97.92
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.92
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.7
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.64
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	97.5
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.41
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.3
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.04
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.85
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.82
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.77
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.75
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.72
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.69
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.69
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.69
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.64
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.63
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.62
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.58
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.57
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.56
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.55
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.51
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.5
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.49
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.48
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.37
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.37
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.37
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.36
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.32
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.3
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.3
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.3
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.27
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.25
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.21
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.19
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.18
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.18
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.14
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.11
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.0
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.99
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.87
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.83
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.77
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.77
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	95.57
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.56
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.55
d1okkd2	207	GTPase domain of the signal recognition particle r	95.51
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.51
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.5
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.49
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.49
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.46
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.44
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.43
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.36
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.35
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.34
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.32
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.27
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.26
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.24
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.22
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.21
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	95.2
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.14
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.1
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.06
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.98
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	94.97
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	94.96
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.95
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	94.94
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.93
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.91
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.84
d1j8yf2	211	GTPase domain of the signal sequence recognition p	94.83
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.82
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.8
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.71
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.64
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.64
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.57
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.56
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.52
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.52
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.48
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	94.47
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.46
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.43
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.42
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.42
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	94.41
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.33
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.33
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.28
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.14
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.14
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.08
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.08
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.07
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.06
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.06
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	94.05
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.02
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	93.99
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	93.99
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	93.94
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.91
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	93.88
d2awna2	232	Maltose transport protein MalK, N-terminal domain	93.88
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.87
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.86
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	93.86
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	93.82
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	93.76
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	93.74
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.72
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.65
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.64
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.63
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	93.6
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	93.58
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.55
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.51
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.47
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	93.47
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.46
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	93.34
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.31
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	93.3
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.25
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.24
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.24
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	93.22
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	93.18
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.18
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	93.17
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.07
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.03
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	93.02
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	92.97
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.93
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.87
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	92.82
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	92.77
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	92.75
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.7
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	92.54
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	92.51
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	92.49
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.49
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	92.34
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.33
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.31
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.27
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	92.26
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	92.13
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	91.98
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.92
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	91.87
d1nrjb_	209	Signal recognition particle receptor beta-subunit	91.85
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	91.82
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	91.75
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.71
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	91.66
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	91.65
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.61
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	91.24
d2fh5b1	207	Signal recognition particle receptor beta-subunit	91.16
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	91.02
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	90.93
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	90.84
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	90.83
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	90.79
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	90.66
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	90.56
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	90.4
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	90.31
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.25
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	90.24
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	90.22
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.08
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	90.01
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	89.97
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	89.89
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.7
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	89.55
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	89.4
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.36
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	89.28
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	89.2
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	89.05
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	88.99
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	88.93
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	88.92
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	88.92
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	88.91
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	88.56
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	88.53
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	87.84
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	87.76
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	87.5
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	87.49
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	87.28
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	87.21
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	86.51
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	85.88
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	85.41
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	85.3
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	85.07
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	84.87
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	84.75
d1tuea_	205	Replication protein E1 helicase domain {Human papi	83.28
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	82.29
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	81.58
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	81.56
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	81.06

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=8.1e-40  Score=313.64  Aligned_cols=219  Identities=14%  Similarity=0.142  Sum_probs=177.4

Q ss_pred             ccccccchHHHHHHHHHhc---CCCceEEEEEccCCCchHHHHHHHHHHhh--ccCCCCEEEEeccCchh----------
Q 048213          105 YEAFESRMSTFNDILNALK---SPDVNMLGIYGMGGIRKTTPAKEVAIKAE--NEKLFDRVIFVEESESG----------  169 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~--~~~~F~~~~~~~~~~~~----------  169 (532)
                      ...++||+.++++|+++|.   +.+.++|+|+||||+||||||+++|++..  .+.+|++.+|...+...          
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~   98 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD   98 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHH
Confidence            4567899999999999986   45678999999999999999999999855  66779988754322110          


Q ss_pred             -------------------------hHHHHHHHHhccCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecChHHhh
Q 048213          170 -------------------------RARSLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARSLDVLS  224 (532)
Q Consensus       170 -------------------------~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~~~v~~  224 (532)
                                               ....+.+.+. ++|+|+||||||+.++|+.+.      ..||+||||||+..++.
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~-~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~  171 (277)
T d2a5yb3          99 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALID-RPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISN  171 (277)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTT-STTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGG
T ss_pred             HHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhc-cCCeeEecchhhHHhhhhhhc------ccCceEEEEeehHHHHH
Confidence                                     0112233334 689999999999999887653      24899999999999986


Q ss_pred             hcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHHHHHHHHccCChHHHHHHHHHhcCCC
Q 048213          225 RKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIVTVARALRNKRLFDWKDALEQLRWPS  304 (532)
Q Consensus       225 ~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~l~~~~~~~  304 (532)
                      ......+.|.+++|+.++|++||.++++.....+..++++++|+++|+|+||||+++|+.++.++.+.|....+.+... 
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~-  250 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESR-  250 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHH-
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHHhcC-
Confidence            4444457899999999999999999998666666778899999999999999999999999999999999988877521 


Q ss_pred             CCCCCCchhHHHHHHHhhcCCCCCchHHHHHHHH
Q 048213          305 STNFKDIQPTAYKAIELSYVKLDGDELKNIFLLI  338 (532)
Q Consensus       305 ~~~~~~~~~~~~~~l~~sy~~L~~~~~k~~f~~l  338 (532)
                            ....+.+++.+||+.||++ +|+||.++
T Consensus       251 ------~~~~v~~il~~sY~~L~~~-lk~c~~~l  277 (277)
T d2a5yb3         251 ------GLVGVECITPYSYKSLAMA-LQRCVEVL  277 (277)
T ss_dssp             ------CSSTTCCCSSSSSSSHHHH-HHHHHHTS
T ss_pred             ------cHHHHHHHHHHHHhcccHH-HHHHHHhC
Confidence                  1345778899999999999 99999763

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.51  E-value=9.6e-14  Score=124.65  Aligned_cols=165  Identities=18%  Similarity=0.193  Sum_probs=133.3

Q ss_pred             HHHHHHHhcccCCcccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeeccccccc
Q 048213          349 LLMYGMGLGLFQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTR  428 (532)
Q Consensus       349 Li~~w~aeg~~~~~~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~  428 (532)
                      +++......-+.+..+..++...+.+++.++.+.+++ +++.+++|++|++++|.+.+++.++++++|++|++++|.+..
T Consensus        20 ~i~~~l~~~~~~~~~~~~~l~~l~~L~l~~~~i~~l~-~l~~l~nL~~L~Ls~N~l~~~~~l~~l~~L~~L~l~~n~~~~   98 (199)
T d2omxa2          20 KMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSID-GVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIAD   98 (199)
T ss_dssp             HHHHHTTCSSTTSEECHHHHTTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCC
T ss_pred             HHHHHhCCCCCCCccCHHHhcCCCEEECCCCCCCCcc-ccccCCCcCcCccccccccCcccccCCccccccccccccccc
Confidence            4454544444445556677777788999999998875 489999999999999999997779999999999999998777


Q ss_pred             c----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchh
Q 048213          429 A----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTS  504 (532)
Q Consensus       429 ~----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~  504 (532)
                      +    .++.|+.|++++|..   .....+..+++|+.|++++|.+..+|. +     ..+++|+.|++.+| .+..+++ 
T Consensus        99 ~~~l~~l~~L~~L~l~~~~~---~~~~~~~~l~~L~~L~l~~n~l~~~~~-l-----~~~~~L~~L~l~~n-~l~~l~~-  167 (199)
T d2omxa2          99 ITPLANLTNLTGLTLFNNQI---TDIDPLKNLTNLNRLELSSNTISDISA-L-----SGLTSLQQLNFSSN-QVTDLKP-  167 (199)
T ss_dssp             CGGGTTCTTCSEEECCSSCC---CCCGGGTTCTTCSEEECCSSCCCCCGG-G-----TTCTTCSEEECCSS-CCCCCGG-
T ss_pred             cccccccccccccccccccc---ccccccchhhhhHHhhhhhhhhccccc-c-----cccccccccccccc-cccCCcc-
Confidence            6    678999999998865   234467889999999999999887653 3     56799999999975 5788833 


Q ss_pred             hhhhcCCCccEEEeecCCcccccc
Q 048213          505 SIISSFVGLQCLEICECPVLKEII  528 (532)
Q Consensus       505 ~~~~~L~~L~~L~l~~c~~L~~i~  528 (532)
                       + +++++|++|++++|+ ++++.
T Consensus       168 -l-~~l~~L~~L~ls~N~-i~~i~  188 (199)
T d2omxa2         168 -L-ANLTTLERLDISSNK-VSDIS  188 (199)
T ss_dssp             -G-TTCTTCCEEECCSSC-CCCCG
T ss_pred             -c-cCCCCCCEEECCCCC-CCCCc
Confidence             4 789999999999984 76653

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=3.4e-14  Score=133.90  Aligned_cols=144  Identities=24%  Similarity=0.243  Sum_probs=91.8

Q ss_pred             hHHhhhhcccccCCch-hhhccccccEEEeccccccCcccccccccccEEeecccccccc-----ccCCcceEEeccccc
Q 048213          371 RVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRA  444 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~  444 (532)
                      .+++++.+|.+..+|. .|..+++|++|++++|.+..++.+..+++|++|++++|++...     .+++|+.|+++++..
T Consensus        33 l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L~l~~~~~  112 (266)
T d1p9ag_          33 TTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRL  112 (266)
T ss_dssp             CCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEEECCSSCC
T ss_pred             CCEEECcCCcCCCcCHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            3567888888887764 4788888888888888887766677788888888888877654     456666776666644


Q ss_pred             cCCCCCc------------------------ccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCc
Q 048213          445 SAPNPTE------------------------SEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTC  500 (532)
Q Consensus       445 ~~~~~~~------------------------~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~  500 (532)
                       ....+.                        .+..+++|++|++++|+++.+|...+    ..+++|++|+|+++ .++.
T Consensus       113 -~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~l~~~~~~~~----~~l~~L~~L~Ls~N-~L~~  186 (266)
T d1p9ag_         113 -TSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLL----NGLENLDTLLLQEN-SLYT  186 (266)
T ss_dssp             -CCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSCCSCCCTTTT----TTCTTCCEEECCSS-CCCC
T ss_pred             -ceeeccccccccccccccccccccceeccccccccccchhcccccccccccCcccc----ccccccceeecccC-CCcc
Confidence             222222                        33445555555555555555554431    24566666666653 3566


Q ss_pred             cchhhhhhcCCCccEEEeecCC
Q 048213          501 LFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       501 l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      + |.++ ..+++|++|+|+++|
T Consensus       187 l-p~~~-~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         187 I-PKGF-FGSHLLPFAFLHGNP  206 (266)
T ss_dssp             C-CTTT-TTTCCCSEEECCSCC
T ss_pred             c-ChhH-CCCCCCCEEEecCCC
Confidence            6 4444 356666666666544

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.46  E-value=2.8e-13  Score=124.26  Aligned_cols=158  Identities=13%  Similarity=0.154  Sum_probs=114.3

Q ss_pred             cCCcccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCc
Q 048213          359 FQGIKRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQL  434 (532)
Q Consensus       359 ~~~~~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~L  434 (532)
                      +.+..+..++...+.+++.++.+.+++ ++..+++|++|++++|.+.++..+.++++|+++++++|.++.+    .+++|
T Consensus        31 ~~d~~~~~~l~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~~~~i~~l~~l~~L  109 (227)
T d1h6ua2          31 VTDTVTQADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVSAIAGLQSI  109 (227)
T ss_dssp             TTSEECHHHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCCGGGTTCTTC
T ss_pred             cCCcCCHHHcCCcCEEECCCCCCCcch-hHhcCCCCcEeecCCceeeccccccccccccccccccccccccccccccccc
Confidence            334556778888888899999998884 5899999999999999988877788899999999988876665    56667


Q ss_pred             ceEEeccccccC-------------------CCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccC
Q 048213          435 KHLSVRGLRASA-------------------PNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC  495 (532)
Q Consensus       435 r~L~l~~~~~~~-------------------~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c  495 (532)
                      +.+.++++....                   ......+.+.++|++|++++|.+...+. +     .++++|+.|+|++|
T Consensus       110 ~~l~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~~~~~~~-l-----~~l~~L~~L~Ls~n  183 (227)
T d1h6ua2         110 KTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTP-L-----ANLSKLTTLKADDN  183 (227)
T ss_dssp             CEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSCCCCCGG-G-----TTCTTCCEEECCSS
T ss_pred             cccccccccccccchhccccchhhhhchhhhhchhhhhccccccccccccccccccchh-h-----cccccceecccCCC
Confidence            777776663300                   0011245667778888888887765433 2     46788888888875


Q ss_pred             CCCCccchhhhhhcCCCccEEEeecCCcccccc
Q 048213          496 WNLTCLFTSSIISSFVGLQCLEICECPVLKEII  528 (532)
Q Consensus       496 ~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i~  528 (532)
                       .++.+++  + +++++|++|+|++| +|+++.
T Consensus       184 -~l~~l~~--l-~~l~~L~~L~Ls~N-~lt~i~  211 (227)
T d1h6ua2         184 -KISDISP--L-ASLPNLIEVHLKNN-QISDVS  211 (227)
T ss_dssp             -CCCCCGG--G-GGCTTCCEEECTTS-CCCBCG
T ss_pred             -ccCCChh--h-cCCCCCCEEECcCC-cCCCCc
Confidence             5777733  3 67888888888887 466654

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.45  E-value=5.2e-13  Score=120.80  Aligned_cols=145  Identities=23%  Similarity=0.229  Sum_probs=92.6

Q ss_pred             ccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEE
Q 048213          363 KRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLS  438 (532)
Q Consensus       363 ~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~  438 (532)
                      -+.+++...+.+++.++.+..++ ++..+++|++|++++|++.+++.++++++|++|++++|+++.+    .+++|+.|+
T Consensus        40 ~~~~~L~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~L~~n~i~~l~~~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~  118 (210)
T d1h6ta2          40 VTQNELNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGNKLTDIKPLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLS  118 (210)
T ss_dssp             ECHHHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEE
T ss_pred             cCHHHhcCccEEECcCCCCCCch-hHhhCCCCCEEeCCCccccCccccccCccccccccccccccccccccccccccccc
Confidence            34455666667778888777765 3778888888888888888766778888888888888877766    567788888


Q ss_pred             eccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEe
Q 048213          439 VRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEI  518 (532)
Q Consensus       439 l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l  518 (532)
                      +++|..  . ....+.++++|+.+++++|.++.++. .     ..+++|++|++++| .+..+++  + +++++|++|++
T Consensus       119 l~~~~~--~-~~~~l~~l~~l~~l~~~~n~l~~~~~-~-----~~l~~L~~l~l~~n-~l~~i~~--l-~~l~~L~~L~L  185 (210)
T d1h6ta2         119 LEHNGI--S-DINGLVHLPQLESLYLGNNKITDITV-L-----SRLTKLDTLSLEDN-QISDIVP--L-AGLTKLQNLYL  185 (210)
T ss_dssp             CTTSCC--C-CCGGGGGCTTCCEEECCSSCCCCCGG-G-----GGCTTCSEEECCSS-CCCCCGG--G-TTCTTCCEEEC
T ss_pred             cccccc--c-cccccccccccccccccccccccccc-c-----cccccccccccccc-ccccccc--c-cCCCCCCEEEC
Confidence            877754  1 22345555666666666655554322 1     24455555555553 2444422  2 45555555555


Q ss_pred             ecC
Q 048213          519 CEC  521 (532)
Q Consensus       519 ~~c  521 (532)
                      ++|
T Consensus       186 s~N  188 (210)
T d1h6ta2         186 SKN  188 (210)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            555

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.42  E-value=2.5e-13  Score=122.94  Aligned_cols=143  Identities=25%  Similarity=0.275  Sum_probs=121.2

Q ss_pred             cHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEe
Q 048213          364 RMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSV  439 (532)
Q Consensus       364 ~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l  439 (532)
                      .++.+.+.+.+++.+|.++.+++ ++.+++|++|++++|++.+++.+..+++|+.|++++|.+..+    .++.|+.+++
T Consensus        63 ~l~~l~~L~~L~L~~n~i~~l~~-~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L~l~~~~~~~~~~l~~l~~l~~l~~  141 (210)
T d1h6ta2          63 GIQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYL  141 (210)
T ss_dssp             TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEECTTSCCCCCGGGGGCTTCCEEEC
T ss_pred             hHhhCCCCCEEeCCCccccCccc-cccCcccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            34455566789999999998875 789999999999999999988899999999999999987766    6789999999


Q ss_pred             ccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEee
Q 048213          440 RGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC  519 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~  519 (532)
                      ++|..  . .+..+..+++|+++++++|.++.+++ +     .++++|+.|+|++| .++.+ | .+ .+|++|++|+|+
T Consensus       142 ~~n~l--~-~~~~~~~l~~L~~l~l~~n~l~~i~~-l-----~~l~~L~~L~Ls~N-~i~~l-~-~l-~~l~~L~~L~Ls  208 (210)
T d1h6ta2         142 GNNKI--T-DITVLSRLTKLDTLSLEDNQISDIVP-L-----AGLTKLQNLYLSKN-HISDL-R-AL-AGLKNLDVLELF  208 (210)
T ss_dssp             CSSCC--C-CCGGGGGCTTCSEEECCSSCCCCCGG-G-----TTCTTCCEEECCSS-CCCBC-G-GG-TTCTTCSEEEEE
T ss_pred             ccccc--c-cccccccccccccccccccccccccc-c-----cCCCCCCEEECCCC-CCCCC-h-hh-cCCCCCCEEEcc
Confidence            99965  2 34567889999999999999988764 3     67899999999986 58888 4 34 789999999997


Q ss_pred             c
Q 048213          520 E  520 (532)
Q Consensus       520 ~  520 (532)
                      +
T Consensus       209 ~  209 (210)
T d1h6ta2         209 S  209 (210)
T ss_dssp             E
T ss_pred             C
Confidence            5

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=4.5e-13  Score=126.05  Aligned_cols=119  Identities=25%  Similarity=0.210  Sum_probs=84.4

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccC--cccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      +.+++++|.+...|..+..+++|++|++++|.+..  ...+..+.++++|++.+|.+..+      .+++|+.|++++|+
T Consensus        80 ~~L~Ls~N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N~  159 (266)
T d1p9ag_          80 GTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNN  159 (266)
T ss_dssp             CEEECCSSCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTSC
T ss_pred             cccccccccccccccccccccccccccccccccceeeccccccccccccccccccccceeccccccccccchhccccccc
Confidence            44555555555555555555555555555555444  23344555566666666655554      56789999999998


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      + ....+..+..+++|++|+|++|.|+.+|+++     +.+++|+.|+|++++
T Consensus       160 l-~~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~-----~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         160 L-TELPAGLLNGLENLDTLLLQENSLYTIPKGF-----FGSHLLPFAFLHGNP  206 (266)
T ss_dssp             C-SCCCTTTTTTCTTCCEEECCSSCCCCCCTTT-----TTTCCCSEEECCSCC
T ss_pred             c-cccCccccccccccceeecccCCCcccChhH-----CCCCCCCEEEecCCC
Confidence            7 4455567899999999999999999999988     788999999999854

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.38  E-value=6.5e-13  Score=127.54  Aligned_cols=149  Identities=21%  Similarity=0.246  Sum_probs=107.1

Q ss_pred             hHHhhhhcccccCCch-hhhccccccEEEeccccccC--cccccccccccEEeecccccccc------------------
Q 048213          371 RVVIDLTYMNLLSLPS-SLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVNELTRA------------------  429 (532)
Q Consensus       371 ~~~l~l~~~~l~~lp~-~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------------------  429 (532)
                      .+++++.+|.++.+|+ .|..+++|++|++++|.+..  +..+.++++|++|++++|+++.+                  
T Consensus        33 l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~n~l~~l~~~~~~~l~~L~~~~n~l  112 (305)
T d1xkua_          33 TALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEI  112 (305)
T ss_dssp             CCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCSBCCSSCCTTCCEEECCSSCC
T ss_pred             CCEEECcCCcCCCcChhHhhccccccccccccccccccchhhhhCCCccCEecccCCccCcCccchhhhhhhhhccccch
Confidence            4578888898888876 58889999999999988877  34688888999999888865543                  


Q ss_pred             -----------------------------------ccCCcceEEecccccc--------------------CCCCCcccc
Q 048213          430 -----------------------------------GSSQLKHLSVRGLRAS--------------------APNPTESEV  454 (532)
Q Consensus       430 -----------------------------------~l~~Lr~L~l~~~~~~--------------------~~~~~~~~~  454 (532)
                                                         .+++|+++.+++|...                    ....+..+.
T Consensus       113 ~~l~~~~~~~~~~~~~l~~~~n~~~~~~~~~~~~~~l~~L~~l~l~~n~l~~l~~~~~~~L~~L~l~~n~~~~~~~~~~~  192 (305)
T d1xkua_         113 TKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLK  192 (305)
T ss_dssp             CBBCHHHHTTCTTCCEEECCSSCCCGGGBCTTGGGGCTTCCEEECCSSCCCSCCSSCCTTCSEEECTTSCCCEECTGGGT
T ss_pred             hhhhhhhhhccccccccccccccccccCCCccccccccccCccccccCCccccCcccCCccCEEECCCCcCCCCChhHhh
Confidence                                               2334444544444320                    222334566


Q ss_pred             cCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCccccc
Q 048213          455 ALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEI  527 (532)
Q Consensus       455 ~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i  527 (532)
                      +++.+++|++++|.++.++...+    .++++|++|+|++| .++.+ |..+ ..+++|++|+|++| +|+.|
T Consensus       193 ~~~~l~~L~~s~n~l~~~~~~~~----~~l~~L~~L~L~~N-~L~~l-p~~l-~~l~~L~~L~Ls~N-~i~~i  257 (305)
T d1xkua_         193 GLNNLAKLGLSFNSISAVDNGSL----ANTPHLRELHLNNN-KLVKV-PGGL-ADHKYIQVVYLHNN-NISAI  257 (305)
T ss_dssp             TCTTCCEEECCSSCCCEECTTTG----GGSTTCCEEECCSS-CCSSC-CTTT-TTCSSCCEEECCSS-CCCCC
T ss_pred             ccccccccccccccccccccccc----cccccceeeecccc-ccccc-cccc-ccccCCCEEECCCC-ccCcc
Confidence            67777888888887777765542    46788999999886 58888 6676 68899999999886 47665

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=1.1e-12  Score=113.11  Aligned_cols=127  Identities=17%  Similarity=0.117  Sum_probs=98.7

Q ss_pred             hhccccccEEEeccccccCcc-cccccccccEEeecccccccc----ccCCcceEEeccccccCCCCC-cccccCCCCCE
Q 048213          388 LGLLTNLQTLCLYYCKLQDTS-VLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPT-ESEVALPKLET  461 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~~~-~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~-~~~~~l~~L~~  461 (532)
                      +.++.+++.|++++|+++.++ .+..+++|++|++++|.+..+    .+++|++|++++|.+  ...+ ..+..+++|++
T Consensus        14 ~~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i--~~l~~~~~~~l~~L~~   91 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRI--CRIGEGLDQALPDLTE   91 (162)
T ss_dssp             EECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCC--CEECSCHHHHCTTCCE
T ss_pred             ccCcCcCcEEECCCCCCCccCccccccccCCEEECCCCCCCccCCcccCcchhhhhcccccc--cCCCcccccccccccc
Confidence            567778999999999998854 457789999999999988877    678999999999987  3333 34578999999


Q ss_pred             EecCCcccccccccccccccccCCCccEEEeccCCCCCccch--hhhhhcCCCccEEEeec
Q 048213          462 VCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFT--SSIISSFVGLQCLEICE  520 (532)
Q Consensus       462 L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p--~~~~~~L~~L~~L~l~~  520 (532)
                      |++++|.|+.+++-.   ....+++|++|++++|+ +..++.  ...+..+|+|++|+-..
T Consensus        92 L~L~~N~i~~~~~l~---~l~~l~~L~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~LD~~~  148 (162)
T d1a9na_          92 LILTNNSLVELGDLD---PLASLKSLTYLCILRNP-VTNKKHYRLYVIYKVPQVRVLDFQK  148 (162)
T ss_dssp             EECCSCCCCCGGGGG---GGGGCTTCCEEECCSSG-GGGSTTHHHHHHHHCTTCSEETTEE
T ss_pred             ceecccccccccccc---ccccccccchhhcCCCc-cccccchHHHHHHHCCCcCeeCCCC
Confidence            999999998876521   11468999999999976 566621  12337899999998553

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.33  E-value=2.2e-12  Score=115.49  Aligned_cols=138  Identities=19%  Similarity=0.253  Sum_probs=116.5

Q ss_pred             HHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEec
Q 048213          365 MEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVR  440 (532)
Q Consensus       365 ~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~  440 (532)
                      ++.+.+.+++++++|.++.+++ ++.+++|++|++++|.+...+.+.++++|+.|+++++.....    .+++|+.|+++
T Consensus        58 l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~l~~L~~L~l~  136 (199)
T d2omxa2          58 VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELS  136 (199)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECC
T ss_pred             cccCCCcCcCccccccccCccc-ccCCcccccccccccccccccccccccccccccccccccccccccchhhhhHHhhhh
Confidence            3344556789999999998876 899999999999999998888899999999999999977765    68899999999


Q ss_pred             cccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEE
Q 048213          441 GLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCL  516 (532)
Q Consensus       441 ~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L  516 (532)
                      +|+.  .. ...+..+++|++|++++|.++.++. +     .++++|++|++++| .++.+ + .+ ++|++|+.|
T Consensus       137 ~n~l--~~-~~~l~~~~~L~~L~l~~n~l~~l~~-l-----~~l~~L~~L~ls~N-~i~~i-~-~l-~~L~~L~~L  199 (199)
T d2omxa2         137 SNTI--SD-ISALSGLTSLQQLNFSSNQVTDLKP-L-----ANLTTLERLDISSN-KVSDI-S-VL-AKLTNLESL  199 (199)
T ss_dssp             SSCC--CC-CGGGTTCTTCSEEECCSSCCCCCGG-G-----TTCTTCCEEECCSS-CCCCC-G-GG-GGCTTCSEE
T ss_pred             hhhh--cc-cccccccccccccccccccccCCcc-c-----cCCCCCCEEECCCC-CCCCC-c-cc-cCCCCCCcC
Confidence            9975  33 3468899999999999999988764 3     57899999999996 58888 4 24 689999876

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.32  E-value=2.5e-12  Score=123.90  Aligned_cols=148  Identities=22%  Similarity=0.156  Sum_probs=98.7

Q ss_pred             HHhhhhcccccC---CchhhhccccccEEEecc-ccccC--cccccccccccEEeecccccccc------ccCCcceEEe
Q 048213          372 VVIDLTYMNLLS---LPSSLGLLTNLQTLCLYY-CKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSV  439 (532)
Q Consensus       372 ~~l~l~~~~l~~---lp~~~~~l~~L~~L~l~~-~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l  439 (532)
                      ..+++.++.+..   +|..++++++|++|++++ |.+.+  |+.++++++|++|++++|++...      .+..|+++++
T Consensus        53 ~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l  132 (313)
T d1ogqa_          53 NNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDF  132 (313)
T ss_dssp             EEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEEC
T ss_pred             EEEECCCCCCCCCCCCChHHhcCccccccccccccccccccccccccccccchhhhccccccccccccccchhhhccccc
Confidence            346777777763   788888888999998876 56654  67788888899998888877665      4455666666


Q ss_pred             ccccccCCCCCcccccCCCCCEEecCCcccc-cccccc------------------------------------------
Q 048213          440 RGLRASAPNPTESEVALPKLETVCLSSINIE-RIWQNQ------------------------------------------  476 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~-~lp~~~------------------------------------------  476 (532)
                      ++|.. ....|..++++++|+++++++|.+. .+|..+                                          
T Consensus       133 ~~N~~-~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~  211 (313)
T d1ogqa_         133 SYNAL-SGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEG  211 (313)
T ss_dssp             CSSEE-ESCCCGGGGGCTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEE
T ss_pred             ccccc-cccCchhhccCcccceeecccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            66654 3444555555555555555555332 122110                                          


Q ss_pred             ------------------------cccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          477 ------------------------VAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       477 ------------------------~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                                              .+.....+++|+.|+|++|...+.+ |..+ ++|++|++|+|++|.
T Consensus       212 ~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~~~~~L~~L~Ls~N~l~g~i-P~~l-~~L~~L~~L~Ls~N~  279 (313)
T d1ogqa_         212 DASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTL-PQGL-TQLKFLHSLNVSFNN  279 (313)
T ss_dssp             CCGGGCCTTSCCSEEECCSSEECCBGGGCCCCTTCCEEECCSSCCEECC-CGGG-GGCTTCCEEECCSSE
T ss_pred             cccccccccccccccccccccccccccccccccccccccCccCeecccC-ChHH-hCCCCCCEEECcCCc
Confidence                                    0012234678889999886544477 7777 789999999999874

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.27  E-value=4.8e-12  Score=103.78  Aligned_cols=118  Identities=21%  Similarity=0.200  Sum_probs=66.5

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccC-cccccccccccEEeeccccccccccCCcceEEeccccccCCCCCc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRAGSSQLKHLSVRGLRASAPNPTE  451 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~~l~~Lr~L~l~~~~~~~~~~~~  451 (532)
                      +++++++.++.++. ++.+++|++|++++|.+.. ++.++.+++|++|++++|.++.+                     .
T Consensus         2 ~L~Ls~n~l~~l~~-l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l---------------------~   59 (124)
T d1dcea3           2 VLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV---------------------D   59 (124)
T ss_dssp             EEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCC---------------------G
T ss_pred             EEEcCCCCCCCCcc-cccCCCCCEEECCCCccCcchhhhhhhhccccccccccccccc---------------------C
Confidence            45666677666653 6667777777777776666 34566666666666666655433                     2


Q ss_pred             ccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccc--hhhhhhcCCCccEE
Q 048213          452 SEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLF--TSSIISSFVGLQCL  516 (532)
Q Consensus       452 ~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~--p~~~~~~L~~L~~L  516 (532)
                      .+..+++|++|++++|.|+.+|.-.   ....+++|++|++++++ +...+  +..+...+|+|+.|
T Consensus        60 ~~~~l~~L~~L~l~~N~i~~~~~~~---~l~~~~~L~~L~l~~N~-i~~~~~~~~~l~~~lp~L~~L  122 (124)
T d1dcea3          60 GVANLPRLQELLLCNNRLQQSAAIQ---PLVSCPRLVLLNLQGNS-LCQEEGIQERLAEMLPSVSSI  122 (124)
T ss_dssp             GGTTCSSCCEEECCSSCCCSSSTTG---GGGGCTTCCEEECTTSG-GGGSSSCTTHHHHHCTTCSEE
T ss_pred             ccccccccCeEECCCCccCCCCCch---hhcCCCCCCEEECCCCc-CCcCccHHHHHHHHCcCcceE
Confidence            3556666666666666666554310   01345666666666532 32221  23333455666554

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.26  E-value=1.8e-12  Score=111.72  Aligned_cols=122  Identities=11%  Similarity=0.111  Sum_probs=100.7

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc------ccCCcceEEecccccc
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRAS  445 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~  445 (532)
                      +.+++.+|.++.+|..+..+++|++|++++|.+..++.+..+++|++|++++|.+..+      .+++|++|++++|++.
T Consensus        21 r~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~~N~i~  100 (162)
T d1a9na_          21 RELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLV  100 (162)
T ss_dssp             EEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCCCC
T ss_pred             cEEECCCCCCCccCccccccccCCEEECCCCCCCccCCcccCcchhhhhcccccccCCCccccccccccccceecccccc
Confidence            5789999999999877788999999999999999887899999999999999999887      5789999999999762


Q ss_pred             CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEecc
Q 048213          446 APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFN  494 (532)
Q Consensus       446 ~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~  494 (532)
                      .......+..+++|++|++++|.++.+|..- +.....+++|++||-..
T Consensus       101 ~~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r-~~~i~~lp~L~~LD~~~  148 (162)
T d1a9na_         101 ELGDLDPLASLKSLTYLCILRNPVTNKKHYR-LYVIYKVPQVRVLDFQK  148 (162)
T ss_dssp             CGGGGGGGGGCTTCCEEECCSSGGGGSTTHH-HHHHHHCTTCSEETTEE
T ss_pred             ccccccccccccccchhhcCCCccccccchH-HHHHHHCCCcCeeCCCC
Confidence            1122346789999999999999998887521 00115689999998553

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.25  E-value=1.5e-11  Score=100.78  Aligned_cols=84  Identities=20%  Similarity=0.118  Sum_probs=64.2

Q ss_pred             ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhc
Q 048213          430 GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISS  509 (532)
Q Consensus       430 ~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~  509 (532)
                      .+++|++|++++|.+  ...|..++.+++|++|++++|.|+.+|. +     ..+++|++|++++ +.+..++....++.
T Consensus        18 ~l~~L~~L~ls~N~l--~~lp~~~~~l~~L~~L~l~~N~i~~l~~-~-----~~l~~L~~L~l~~-N~i~~~~~~~~l~~   88 (124)
T d1dcea3          18 QLLLVTHLDLSHNRL--RALPPALAALRCLEVLQASDNALENVDG-V-----ANLPRLQELLLCN-NRLQQSAAIQPLVS   88 (124)
T ss_dssp             GGTTCCEEECCSSCC--CCCCGGGGGCTTCCEEECCSSCCCCCGG-G-----TTCSSCCEEECCS-SCCCSSSTTGGGGG
T ss_pred             cCCCCCEEECCCCcc--CcchhhhhhhhcccccccccccccccCc-c-----ccccccCeEECCC-CccCCCCCchhhcC
Confidence            344555555555554  4556678999999999999999998864 4     6789999999998 55777743233378


Q ss_pred             CCCccEEEeecCC
Q 048213          510 FVGLQCLEICECP  522 (532)
Q Consensus       510 L~~L~~L~l~~c~  522 (532)
                      +++|++|++++++
T Consensus        89 ~~~L~~L~l~~N~  101 (124)
T d1dcea3          89 CPRLVLLNLQGNS  101 (124)
T ss_dssp             CTTCCEEECTTSG
T ss_pred             CCCCCEEECCCCc
Confidence            9999999999865

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.23  E-value=1.5e-11  Score=109.26  Aligned_cols=117  Identities=22%  Similarity=0.242  Sum_probs=88.1

Q ss_pred             HhhhhcccccCCchhhhccccccEEEeccccccC---cccccccccccEEeecccccccc------ccCCcceEEecccc
Q 048213          373 VIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQD---TSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLR  443 (532)
Q Consensus       373 ~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~---~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~  443 (532)
                      .++.++++++.+|..+.  +++++|++++|.+..   ...+..+++|+.|++++|++..+      .+++|++|+|++|+
T Consensus        12 ~v~Cs~~~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~   89 (192)
T d1w8aa_          12 TVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENK   89 (192)
T ss_dssp             EEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCC
T ss_pred             EEEEeCCCcCccCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeeccccccccccccccccccccceeeecccc
Confidence            35666778888887663  688899999998865   35678888899999988887766      56788888888887


Q ss_pred             ccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          444 ASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       444 ~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                      + ..-.+..|.++++|++|+|++|.|+.+|++.+    ..+++|++|+|++.+
T Consensus        90 l-~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f----~~l~~L~~l~L~~N~  137 (192)
T d1w8aa_          90 I-KEISNKMFLGLHQLKTLNLYDNQISCVMPGSF----EHLNSLTSLNLASNP  137 (192)
T ss_dssp             C-CEECSSSSTTCTTCCEEECCSSCCCEECTTSS----TTCTTCCEEECTTCC
T ss_pred             c-cccCHHHHhCCCcccccccCCccccccCHHHh----cCCcccccccccccc
Confidence            6 33345567888888888888888888877662    257788888888754

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.22  E-value=2.5e-11  Score=119.85  Aligned_cols=120  Identities=19%  Similarity=0.208  Sum_probs=66.4

Q ss_pred             hhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEeccccccCCCCCcccccCCCCCEEe
Q 048213          388 LGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVC  463 (532)
Q Consensus       388 ~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~  463 (532)
                      ++.+++|++|+++++.+...+.+..++.++.+.+..|.+..+    .++++++|++++|++  ... .++..+++|++|+
T Consensus       259 ~~~~~~L~~L~l~~~~l~~~~~~~~~~~l~~l~~~~n~l~~~~~~~~~~~l~~L~ls~n~l--~~l-~~l~~l~~L~~L~  335 (384)
T d2omza2         259 LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNI--SDI-SPVSSLTKLQRLF  335 (384)
T ss_dssp             GTTCTTCSEEECCSSCCCCCGGGTTCTTCSEEECCSSCCSCCGGGGGCTTCSEEECCSSCC--SCC-GGGGGCTTCCEEE
T ss_pred             ccccccCCEeeccCcccCCCCccccccccccccccccccccccccchhcccCeEECCCCCC--CCC-cccccCCCCCEEE
Confidence            333444444444444443333334444444444444443333    456677777776654  222 2366677777777


Q ss_pred             cCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeec
Q 048213          464 LSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICE  520 (532)
Q Consensus       464 L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~  520 (532)
                      +++|.|+.+| .+     .++++|++|++++| .++.++|  + ++|++|+.|+|++
T Consensus       336 L~~n~l~~l~-~l-----~~l~~L~~L~l~~N-~l~~l~~--l-~~l~~L~~L~L~~  382 (384)
T d2omza2         336 FANNKVSDVS-SL-----ANLTNINWLSAGHN-QISDLTP--L-ANLTRITQLGLND  382 (384)
T ss_dssp             CCSSCCCCCG-GG-----GGCTTCCEEECCSS-CCCBCGG--G-TTCTTCSEEECCC
T ss_pred             CCCCCCCCCh-hH-----cCCCCCCEEECCCC-cCCCChh--h-ccCCCCCEeeCCC
Confidence            7777776654 23     45677777777653 4666633  3 5677777777765

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.21  E-value=1.3e-11  Score=109.62  Aligned_cols=120  Identities=19%  Similarity=0.240  Sum_probs=96.8

Q ss_pred             cEEEeccccccC-cccccccccccEEeecccccccc-------ccCCcceEEeccccccCCCCCcccccCCCCCEEecCC
Q 048213          395 QTLCLYYCKLQD-TSVLGELKILEILRLRVNELTRA-------GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSS  466 (532)
Q Consensus       395 ~~L~l~~~~l~~-~~~i~~l~~L~~L~l~~~~l~~~-------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~  466 (532)
                      +.++.+++.+.. |..+.  +++++|+|++|.++..       .+++|++|+|++|.. ....+..+..+++|++|+|++
T Consensus        11 ~~v~Cs~~~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i-~~~~~~~~~~~~~L~~L~Ls~   87 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQL-TGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCC-CCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEEeCCCcCccCCCCC--CCCCEEEeCCCCCcccccccccCCCceEeeeecccccc-ccccccccccccccceeeecc
Confidence            466777777777 44443  6899999999998753       678999999999987 555677888899999999999


Q ss_pred             cccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCc
Q 048213          467 INIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPV  523 (532)
Q Consensus       467 ~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~  523 (532)
                      |.|+.+|+..+    .+|++|++|+|++ +.+..+++..| ..+++|++|+|++.+-
T Consensus        88 N~l~~l~~~~F----~~l~~L~~L~L~~-N~l~~i~~~~f-~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_          88 NKIKEISNKMF----LGLHQLKTLNLYD-NQISCVMPGSF-EHLNSLTSLNLASNPF  138 (192)
T ss_dssp             CCCCEECSSSS----TTCTTCCEEECCS-SCCCEECTTSS-TTCTTCCEEECTTCCB
T ss_pred             ccccccCHHHH----hCCCcccccccCC-ccccccCHHHh-cCCccccccccccccc
Confidence            99999988762    3689999999998 56899956555 7899999999998763

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.20  E-value=5.7e-11  Score=111.81  Aligned_cols=173  Identities=12%  Similarity=0.144  Sum_probs=104.7

Q ss_pred             ccccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---------------------
Q 048213          103 KDYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---------------------  161 (532)
Q Consensus       103 ~~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---------------------  161 (532)
                      .....|+||++++++|.+.    ..+++.|+|++|+|||+|++++.++....  +....                     
T Consensus         9 ~~~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~~~~--~~~i~~~~~~~~~~~~~~~~~~~~~~   82 (283)
T d2fnaa2           9 DNRKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINELNLP--YIYLDLRKFEERNYISYKDFLLELQK   82 (283)
T ss_dssp             CSGGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHHTCC--EEEEEGGGGTTCSCCCHHHHHHHHHH
T ss_pred             CChhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHCCCC--eEEEEeccccccccccHHHHHHHHHH
Confidence            3468999999999998773    34789999999999999999998765432  11111                     


Q ss_pred             ----------------------------Ee---ccCchhhHHHHHHHHh--ccCcEEEEEcCCCCcccc------ccccc
Q 048213          162 ----------------------------FV---EESESGRARSLCNRLK--KEKMILVILDNIWENLDF------HAVGI  202 (532)
Q Consensus       162 ----------------------------~~---~~~~~~~~~~l~~~l~--~~k~~LlVlDdv~~~~~~------~~l~~  202 (532)
                                                  ..   ..........+.+.+.  .++++++|+|++......      ..+..
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~~  162 (283)
T d2fnaa2          83 EINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAY  162 (283)
T ss_dssp             HHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHH
T ss_pred             HhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHHHHHHH
Confidence                                        00   0000011122222222  258899999998643221      11111


Q ss_pred             ccCCCCCCeEEEEeecChHHhhhcC-----------CCCceEEccCCCHHHHHHHHHHHhCC-CCCCcchHHHHHHHHHH
Q 048213          203 PHGDDHKGCKVLLTARSLDVLSRKM-----------DSQQDFWVGVLKEDEAWSLFKKMAGD-YIEGSEFKWVAKDVAKK  270 (532)
Q Consensus       203 ~~~~~~~gs~ilvTtr~~~v~~~~~-----------~~~~~~~l~~L~~~~~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~  270 (532)
                      .. ........+++.+.........           .....+.|.+++.+++.+++.+.... ....+.    .++|++.
T Consensus       163 ~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i~~~  237 (283)
T d2fnaa2         163 AY-DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEVVYEK  237 (283)
T ss_dssp             HH-HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHHHHH
T ss_pred             HH-HhhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHHH----HHHHHHH
Confidence            11 1223445556555543321111           11246889999999999999876531 111111    5689999


Q ss_pred             cCCchHHHHHHHHHHc
Q 048213          271 CAGLPVSIVTVARALR  286 (532)
Q Consensus       271 c~glPLai~~~~~~l~  286 (532)
                      ++|.|..+..++..+.
T Consensus       238 ~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         238 IGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             HCSCHHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHH
Confidence            9999999999987665

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=2.7e-11  Score=114.73  Aligned_cols=84  Identities=24%  Similarity=0.328  Sum_probs=44.6

Q ss_pred             cCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcC
Q 048213          431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSF  510 (532)
Q Consensus       431 l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L  510 (532)
                      +++|++|++++|++ ....+..|.++++|++|++++|.++.+++..    ...+++|++|++++ +.+..+++..+ +.+
T Consensus       152 ~~~L~~L~l~~N~l-~~l~~~~f~~l~~L~~l~l~~N~l~~i~~~~----f~~l~~L~~L~l~~-N~i~~~~~~~~-~~~  224 (284)
T d1ozna_         152 LGNLTHLFLHGNRI-SSVPERAFRGLHSLDRLLLHQNRVAHVHPHA----FRDLGRLMTLYLFA-NNLSALPTEAL-APL  224 (284)
T ss_dssp             CTTCCEEECCSSCC-CEECTTTTTTCTTCCEEECCSSCCCEECTTT----TTTCTTCCEEECCS-SCCSCCCHHHH-TTC
T ss_pred             ccchhhcccccCcc-cccchhhhccccccchhhhhhccccccChhH----hhhhhhcccccccc-ccccccccccc-ccc
Confidence            34455555555544 2223344455555555555555555443222    13556667777765 33555644444 666


Q ss_pred             CCccEEEeecC
Q 048213          511 VGLQCLEICEC  521 (532)
Q Consensus       511 ~~L~~L~l~~c  521 (532)
                      ++|++|+|+++
T Consensus       225 ~~L~~L~l~~N  235 (284)
T d1ozna_         225 RALQYLRLNDN  235 (284)
T ss_dssp             TTCCEEECCSS
T ss_pred             cccCEEEecCC
Confidence            77777777664

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.19  E-value=9.3e-11  Score=107.00  Aligned_cols=149  Identities=18%  Similarity=0.181  Sum_probs=112.9

Q ss_pred             hhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEEecccccc
Q 048213          370 ARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRAS  445 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~  445 (532)
                      +....++..+.+.++. .+..+.+|++|++.+|.+.+++.+..+++|++|++++|.+..+    .+++|++|++++|.. 
T Consensus        20 ~~~~~~l~~~~~~d~~-~~~~l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~~-   97 (227)
T d1h6ua2          20 NAIKIAAGKSNVTDTV-TQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPL-   97 (227)
T ss_dssp             HHHHHHTTCSSTTSEE-CHHHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCC-
T ss_pred             HHHHHHhCCCCcCCcC-CHHHcCCcCEEECCCCCCCcchhHhcCCCCcEeecCCceeeccccccccccccccccccccc-
Confidence            3344566666666643 4678899999999999999988899999999999999998877    788999999999865 


Q ss_pred             CCCCCcccccCCCCCEEecCCcccccccccc----------------cccccccCCCccEEEeccCCCCCccchhhhhhc
Q 048213          446 APNPTESEVALPKLETVCLSSINIERIWQNQ----------------VAAMSCGIQNLKRLILFNCWNLTCLFTSSIISS  509 (532)
Q Consensus       446 ~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~----------------~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~  509 (532)
                       . ....+.++++|++|+++++....++.-.                ......+.++|+.|++++|. +...++  + ++
T Consensus        98 -~-~i~~l~~l~~L~~l~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~n~-~~~~~~--l-~~  171 (227)
T d1h6ua2          98 -K-NVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQ-VSDLTP--L-AN  171 (227)
T ss_dssp             -S-CCGGGTTCTTCCEEECTTSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGGGCTTCCEEECCSSC-CCCCGG--G-TT
T ss_pred             -c-ccccccccccccccccccccccccchhccccchhhhhchhhhhchhhhhccccccccccccccc-cccchh--h-cc
Confidence             3 3446788999999999998655433210                00122456889999999765 555523  4 78


Q ss_pred             CCCccEEEeecCCccccc
Q 048213          510 FVGLQCLEICECPVLKEI  527 (532)
Q Consensus       510 L~~L~~L~l~~c~~L~~i  527 (532)
                      +++|++|++++| +++.+
T Consensus       172 l~~L~~L~Ls~n-~l~~l  188 (227)
T d1h6ua2         172 LSKLTTLKADDN-KISDI  188 (227)
T ss_dssp             CTTCCEEECCSS-CCCCC
T ss_pred             cccceecccCCC-ccCCC
Confidence            999999999998 56655

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.19  E-value=7.8e-13  Score=118.22  Aligned_cols=129  Identities=18%  Similarity=0.217  Sum_probs=104.1

Q ss_pred             cccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc-----ccCCcceEEeccccccCCCCCcccc
Q 048213          380 NLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-----GSSQLKHLSVRGLRASAPNPTESEV  454 (532)
Q Consensus       380 ~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-----~l~~Lr~L~l~~~~~~~~~~~~~~~  454 (532)
                      .+..+|.++..+++|++|++++|.+..++.+..+++|++|++++|.++.+     .+++|++|++++|+.  .. ...+.
T Consensus        36 ~i~~l~~sl~~L~~L~~L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i--~~-l~~~~  112 (198)
T d1m9la_          36 PIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQI--AS-LSGIE  112 (198)
T ss_dssp             TCCCCHHHHHHTTTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEEC--CC-HHHHH
T ss_pred             chhhhhhHHhcccccceeECcccCCCCcccccCCccccChhhcccccccccccccccccccccccccccc--cc-ccccc
Confidence            35667888999999999999999999988899999999999999998877     356899999999976  33 34688


Q ss_pred             cCCCCCEEecCCcccccccc--cccccccccCCCccEEEeccCCCCCccchhh---------hhhcCCCccEEE
Q 048213          455 ALPKLETVCLSSINIERIWQ--NQVAAMSCGIQNLKRLILFNCWNLTCLFTSS---------IISSFVGLQCLE  517 (532)
Q Consensus       455 ~l~~L~~L~L~~~~l~~lp~--~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~---------~~~~L~~L~~L~  517 (532)
                      ++++|++|+|++|.|+.+++  .+     ..+++|+.|+|++++ +...++..         ++..+|+|++|+
T Consensus       113 ~l~~L~~L~L~~N~i~~~~~~~~l-----~~l~~L~~L~L~~N~-l~~~~~~~~~~~~~r~~vi~~lp~L~~LD  180 (198)
T d1m9la_         113 KLVNLRVLYMSNNKITNWGEIDKL-----AALDKLEDLLLAGNP-LYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             HHHHSSEEEESEEECCCHHHHHHH-----TTTTTCSEEEECSSH-HHHHHCTTTTHHHHHHHHHHHCSSCCEES
T ss_pred             ccccccccccccchhccccccccc-----cCCCccceeecCCCc-cccCcccccchhhHHHHHHHHCCCcCEeC
Confidence            89999999999999988764  23     578999999999865 33321211         136789999886

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=5.2e-11  Score=112.73  Aligned_cols=146  Identities=18%  Similarity=0.198  Sum_probs=86.6

Q ss_pred             hhHHhhhhcccccCCchh-hhccccccEEEec-cccccC--cccccccccccEEeecccccccc------ccCCcceEEe
Q 048213          370 ARVVIDLTYMNLLSLPSS-LGLLTNLQTLCLY-YCKLQD--TSVLGELKILEILRLRVNELTRA------GSSQLKHLSV  439 (532)
Q Consensus       370 ~~~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~-~~~l~~--~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l  439 (532)
                      +.+++++.++.+..++.. +..+..+..+.+. .+.+..  +..+.++++|++|++++|.+..+      .+.+|+.+++
T Consensus        57 ~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l  136 (284)
T d1ozna_          57 NLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYL  136 (284)
T ss_dssp             TCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEEC
T ss_pred             cccccccccccccccccccccccccccccccccccccccccchhhcccccCCEEecCCcccccccccccchhcccchhhh
Confidence            345566666666554433 4555666665543 233433  34566667777777777665544      4456677777


Q ss_pred             ccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEee
Q 048213          440 RGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEIC  519 (532)
Q Consensus       440 ~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~  519 (532)
                      ++|.+ ....+..|..+++|++|++++|+++.+|+..+    .++++|+.|+++++. +..++|..| +.+++|++|+++
T Consensus       137 ~~N~l-~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~~f----~~l~~L~~l~l~~N~-l~~i~~~~f-~~l~~L~~L~l~  209 (284)
T d1ozna_         137 QDNAL-QALPDDTFRDLGNLTHLFLHGNRISSVPERAF----RGLHSLDRLLLHQNR-VAHVHPHAF-RDLGRLMTLYLF  209 (284)
T ss_dssp             CSSCC-CCCCTTTTTTCTTCCEEECCSSCCCEECTTTT----TTCTTCCEEECCSSC-CCEECTTTT-TTCTTCCEEECC
T ss_pred             ccccc-cccChhHhccccchhhcccccCcccccchhhh----ccccccchhhhhhcc-ccccChhHh-hhhhhccccccc
Confidence            77665 22234456666677777777777766665542    356677777777643 555545555 667777777776


Q ss_pred             cCC
Q 048213          520 ECP  522 (532)
Q Consensus       520 ~c~  522 (532)
                      ++.
T Consensus       210 ~N~  212 (284)
T d1ozna_         210 ANN  212 (284)
T ss_dssp             SSC
T ss_pred             ccc
Confidence            654

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.16  E-value=5.5e-12  Score=121.37  Aligned_cols=149  Identities=12%  Similarity=0.036  Sum_probs=104.0

Q ss_pred             HHhhHHhhhhc-cccc-CCchhhhccccccEEEeccccccC--------------------------cccccccccccEE
Q 048213          368 ARARVVIDLTY-MNLL-SLPSSLGLLTNLQTLCLYYCKLQD--------------------------TSVLGELKILEIL  419 (532)
Q Consensus       368 ~~~~~~l~l~~-~~l~-~lp~~~~~l~~L~~L~l~~~~l~~--------------------------~~~i~~l~~L~~L  419 (532)
                      +...+++++.+ +++. .+|..|+++++|++|++++|.+..                          |..+.+++.|+++
T Consensus        75 L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~L~~l  154 (313)
T d1ogqa_          75 LPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGI  154 (313)
T ss_dssp             CTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTTCCEE
T ss_pred             CccccccccccccccccccccccccccccchhhhccccccccccccccchhhhcccccccccccccCchhhccCccccee
Confidence            33445667765 4555 477777777777777777765433                          2345666667777


Q ss_pred             eecccccccc------------------------------------------------------ccCCcceEEecccccc
Q 048213          420 RLRVNELTRA------------------------------------------------------GSSQLKHLSVRGLRAS  445 (532)
Q Consensus       420 ~l~~~~l~~~------------------------------------------------------~l~~Lr~L~l~~~~~~  445 (532)
                      ++++|.+...                                                      .+++|+.|++.++.. 
T Consensus       155 ~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l~~~~l~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~l-  233 (313)
T d1ogqa_         155 TFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSL-  233 (313)
T ss_dssp             ECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGCCCSEEECCSSEEEECCGGGCCTTSCCSEEECCSSEE-
T ss_pred             ecccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-
Confidence            7666643311                                                      345666667766655 


Q ss_pred             CCCCCcccccCCCCCEEecCCcccc-cccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCcc
Q 048213          446 APNPTESEVALPKLETVCLSSINIE-RIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVL  524 (532)
Q Consensus       446 ~~~~~~~~~~l~~L~~L~L~~~~l~-~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L  524 (532)
                       ...+..++.+++|++|+|++|+++ .+|+++     ++|++|++|+|+++..-+.+ |. + ++|++|+.|++++++.|
T Consensus       234 -~~~~~~~~~~~~L~~L~Ls~N~l~g~iP~~l-----~~L~~L~~L~Ls~N~l~g~i-P~-~-~~L~~L~~l~l~~N~~l  304 (313)
T d1ogqa_         234 -AFDLGKVGLSKNLNGLDLRNNRIYGTLPQGL-----TQLKFLHSLNVSFNNLCGEI-PQ-G-GNLQRFDVSAYANNKCL  304 (313)
T ss_dssp             -CCBGGGCCCCTTCCEEECCSSCCEECCCGGG-----GGCTTCCEEECCSSEEEEEC-CC-S-TTGGGSCGGGTCSSSEE
T ss_pred             -cccccccccccccccccCccCeecccCChHH-----hCCCCCCEEECcCCcccccC-CC-c-ccCCCCCHHHhCCCccc
Confidence             333456778899999999999988 788887     88999999999986533377 54 3 68999999999999876


Q ss_pred             cc
Q 048213          525 KE  526 (532)
Q Consensus       525 ~~  526 (532)
                      ..
T Consensus       305 ~g  306 (313)
T d1ogqa_         305 CG  306 (313)
T ss_dssp             ES
T ss_pred             cC
Confidence            54

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.07  E-value=4.6e-10  Score=110.55  Aligned_cols=78  Identities=15%  Similarity=0.184  Sum_probs=46.7

Q ss_pred             ccHHHHHhhHHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc----ccCCcceEE
Q 048213          363 KRMEVARARVVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA----GSSQLKHLS  438 (532)
Q Consensus       363 ~~~~~~~~~~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~  438 (532)
                      -+.+++...+.+++.++.+.++ ++++.+++|++|++++|.+.+++.++++++|++|++++|.+..+    .+++|+.|+
T Consensus        38 ~~~~~l~~l~~L~l~~~~I~~l-~gl~~L~nL~~L~Ls~N~l~~l~~l~~L~~L~~L~L~~n~i~~i~~l~~l~~L~~L~  116 (384)
T d2omza2          38 VSQTDLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITPLANLTNLTGLT  116 (384)
T ss_dssp             ECHHHHTTCCEEECCSSCCCCC-TTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGGGTTCTTCCEEE
T ss_pred             cCHHHhCCCCEEECCCCCCCCc-cccccCCCCCEEeCcCCcCCCCccccCCccccccccccccccccccccccccccccc
Confidence            3445555566666666666655 34666666666666666666655566666666666666655544    344455544


Q ss_pred             ecc
Q 048213          439 VRG  441 (532)
Q Consensus       439 l~~  441 (532)
                      +++
T Consensus       117 ~~~  119 (384)
T d2omza2         117 LFN  119 (384)
T ss_dssp             CCS
T ss_pred             ccc
Confidence            443

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.04  E-value=3.4e-11  Score=113.99  Aligned_cols=62  Identities=18%  Similarity=0.252  Sum_probs=35.9

Q ss_pred             ccCCCCCEEecCCc-cccc-ccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          454 VALPKLETVCLSSI-NIER-IWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       454 ~~l~~L~~L~L~~~-~l~~-lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      .++++|++|+|++| .++. .+..+     .++++|++|+|++|+.+..-....+ +++++|++|++++|
T Consensus       172 ~~~~~L~~L~L~~~~~itd~~~~~l-----~~~~~L~~L~L~~C~~i~~~~l~~L-~~~~~L~~L~l~~~  235 (284)
T d2astb2         172 RRCPNLVHLDLSDSVMLKNDCFQEF-----FQLNYLQHLSLSRCYDIIPETLLEL-GEIPTLKTLQVFGI  235 (284)
T ss_dssp             HHCTTCSEEECTTCTTCCGGGGGGG-----GGCTTCCEEECTTCTTCCGGGGGGG-GGCTTCCEEECTTS
T ss_pred             cccccccccccccccCCCchhhhhh-----cccCcCCEEECCCCCCCChHHHHHH-hcCCCCCEEeeeCC
Confidence            34566777777665 3432 11222     3556777777777766654433344 56677777777766

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.97  E-value=1.1e-09  Score=104.37  Aligned_cols=130  Identities=14%  Similarity=0.164  Sum_probs=97.7

Q ss_pred             chhhhccccccEEEeccccccCcccccccccccEEeecccccccc------ccCCcceEEeccccccCCCCCcccccCCC
Q 048213          385 PSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA------GSSQLKHLSVRGLRASAPNPTESEVALPK  458 (532)
Q Consensus       385 p~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~------~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~  458 (532)
                      +..+..+++|+++.+.+|.+...+. ..+++|++|++.+|.....      +++.+++|++++|.. ....+..+.++++
T Consensus       143 ~~~~~~l~~L~~l~l~~n~l~~l~~-~~~~~L~~L~l~~n~~~~~~~~~~~~~~~l~~L~~s~n~l-~~~~~~~~~~l~~  220 (305)
T d1xkua_         143 NGAFQGMKKLSYIRIADTNITTIPQ-GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSI-SAVDNGSLANTPH  220 (305)
T ss_dssp             TTGGGGCTTCCEEECCSSCCCSCCS-SCCTTCSEEECTTSCCCEECTGGGTTCTTCCEEECCSSCC-CEECTTTGGGSTT
T ss_pred             ccccccccccCccccccCCccccCc-ccCCccCEEECCCCcCCCCChhHhhccccccccccccccc-ccccccccccccc
Confidence            4457778888889888888766321 2357888888888876655      567888899988876 4444667788889


Q ss_pred             CCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhh-----hhcCCCccEEEeecCC
Q 048213          459 LETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSI-----ISSFVGLQCLEICECP  522 (532)
Q Consensus       459 L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~-----~~~L~~L~~L~l~~c~  522 (532)
                      |++|+|++|.|+.+|+++     ..+++|++|+|+++ +++.++...|     ...+.+|+.|+|+++|
T Consensus       221 L~~L~L~~N~L~~lp~~l-----~~l~~L~~L~Ls~N-~i~~i~~~~f~~~~~~~~~~~L~~L~L~~N~  283 (305)
T d1xkua_         221 LRELHLNNNKLVKVPGGL-----ADHKYIQVVYLHNN-NISAIGSNDFCPPGYNTKKASYSGVSLFSNP  283 (305)
T ss_dssp             CCEEECCSSCCSSCCTTT-----TTCSSCCEEECCSS-CCCCCCTTSSSCSSCCTTSCCCSEEECCSSS
T ss_pred             ceeeeccccccccccccc-----ccccCCCEEECCCC-ccCccChhhccCcchhcccCCCCEEECCCCc
Confidence            999999999888888776     67889999999884 5777733222     2456788999998887

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=1.7e-09  Score=99.38  Aligned_cols=149  Identities=17%  Similarity=0.168  Sum_probs=89.7

Q ss_pred             HHhhhhcccccCCchh-hhccccccEEEeccccccC---cccccccccccEEeecc-cccccc------ccCCcceEEec
Q 048213          372 VVIDLTYMNLLSLPSS-LGLLTNLQTLCLYYCKLQD---TSVLGELKILEILRLRV-NELTRA------GSSQLKHLSVR  440 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~-~~~l~~L~~L~l~~~~l~~---~~~i~~l~~L~~L~l~~-~~l~~~------~l~~Lr~L~l~  440 (532)
                      +.+++.++.+..+|.. |..+++|++|++++|.+..   +..+..++++++|.+.. +++...      .+++|++|.++
T Consensus        32 ~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~  111 (242)
T d1xwdc1          32 IELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLIS  111 (242)
T ss_dssp             SEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEE
T ss_pred             CEEECcCCcCCccChhHhhccchhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccccccc
Confidence            4678888888887764 7888888888888887654   23466677777776653 344333      56677777777


Q ss_pred             cccccCCCCC------------------------cccccC-CCCCEEecCCcccccccccccccccccCCCccEEEeccC
Q 048213          441 GLRASAPNPT------------------------ESEVAL-PKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNC  495 (532)
Q Consensus       441 ~~~~~~~~~~------------------------~~~~~l-~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c  495 (532)
                      ++.+......                        ..+..+ ..++.|++++|.++.++...     +...+++.+....+
T Consensus       112 ~~~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l~~i~~~~-----~~~~~l~~~~~l~~  186 (242)
T d1xwdc1         112 NTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCA-----FNGTQLDELNLSDN  186 (242)
T ss_dssp             SCCCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCSSCCCEECTTT-----TTTCCEEEEECTTC
T ss_pred             hhhhcccccccccccccccccccccccccccccccccccccccceeeeccccccccccccc-----ccchhhhccccccc
Confidence            7644111000                        111222 24556666666666665554     45555555555555


Q ss_pred             CCCCccchhhhhhcCCCccEEEeecCCccccc
Q 048213          496 WNLTCLFTSSIISSFVGLQCLEICECPVLKEI  527 (532)
Q Consensus       496 ~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i  527 (532)
                      +.++.+++..+ .++++|++|+|+++. |+.+
T Consensus       187 n~l~~l~~~~f-~~l~~L~~L~Ls~N~-l~~l  216 (242)
T d1xwdc1         187 NNLEELPNDVF-HGASGPVILDISRTR-IHSL  216 (242)
T ss_dssp             TTCCCCCTTTT-TTSCCCSEEECTTSC-CCCC
T ss_pred             cccccccHHHh-cCCCCCCEEECCCCc-CCcc
Confidence            66777733334 567777777776654 4444

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=4.8e-10  Score=105.85  Aligned_cols=149  Identities=19%  Similarity=0.149  Sum_probs=83.0

Q ss_pred             HHhhhhcccccC--CchhhhccccccEEEeccccccC--cccccccccccEEeeccc-ccccc-------ccCCcceEEe
Q 048213          372 VVIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQD--TSVLGELKILEILRLRVN-ELTRA-------GSSQLKHLSV  439 (532)
Q Consensus       372 ~~l~l~~~~l~~--lp~~~~~l~~L~~L~l~~~~l~~--~~~i~~l~~L~~L~l~~~-~l~~~-------~l~~Lr~L~l  439 (532)
                      +.++++++.+..  ++.-+..+++|++|++.+|.+.+  +..+.++++|++|++++| .++..       .+++|++|++
T Consensus        49 ~~LdLs~~~i~~~~l~~l~~~c~~L~~L~L~~~~l~~~~~~~l~~~~~L~~L~Ls~c~~itd~~l~~l~~~~~~L~~L~l  128 (284)
T d2astb2          49 QHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNL  128 (284)
T ss_dssp             CEEECTTCEECHHHHHHHHTTBCCCSEEECTTCBCCHHHHHHHTTCTTCSEEECTTCBSCCHHHHHHHHHHCTTCCEEEC
T ss_pred             CEEECCCCccCHHHHHHHHHhCCCcccccccccCCCcHHHHHHhcCCCCcCccccccccccccccchhhHHHHhcccccc
Confidence            345666555532  33445666777777777776655  455666777777777764 34322       5667777777


Q ss_pred             ccccccCCC--CCccccc-CCCCCEEecCCc--ccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCcc
Q 048213          440 RGLRASAPN--PTESEVA-LPKLETVCLSSI--NIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQ  514 (532)
Q Consensus       440 ~~~~~~~~~--~~~~~~~-l~~L~~L~L~~~--~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~  514 (532)
                      ++|.. ..+  ....+.. .++|+.|+++++  +++.   ..+.....++++|++|++++|+.++.-....+ +++++|+
T Consensus       129 s~c~~-~~~~~~~~~~~~~~~~L~~L~l~~~~~~i~~---~~l~~l~~~~~~L~~L~L~~~~~itd~~~~~l-~~~~~L~  203 (284)
T d2astb2         129 SWCFD-FTEKHVQVAVAHVSETITQLNLSGYRKNLQK---SDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEF-FQLNYLQ  203 (284)
T ss_dssp             CCCTT-CCHHHHHHHHHHSCTTCCEEECCSCGGGSCH---HHHHHHHHHCTTCSEEECTTCTTCCGGGGGGG-GGCTTCC
T ss_pred             ccccc-cccccchhhhcccccccchhhhccccccccc---ccccccccccccccccccccccCCCchhhhhh-cccCcCC
Confidence            76633 111  1111222 356777777765  2221   10110112456777777777766654423444 5677777


Q ss_pred             EEEeecCCccc
Q 048213          515 CLEICECPVLK  525 (532)
Q Consensus       515 ~L~l~~c~~L~  525 (532)
                      +|+|++|+.++
T Consensus       204 ~L~L~~C~~i~  214 (284)
T d2astb2         204 HLSLSRCYDII  214 (284)
T ss_dssp             EEECTTCTTCC
T ss_pred             EEECCCCCCCC
Confidence            77777776654

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.91  E-value=7.4e-11  Score=105.09  Aligned_cols=106  Identities=21%  Similarity=0.204  Sum_probs=87.5

Q ss_pred             ccccccccccEEeecccccccc----ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCccccccccccccccccc
Q 048213          408 SVLGELKILEILRLRVNELTRA----GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCG  483 (532)
Q Consensus       408 ~~i~~l~~L~~L~l~~~~l~~~----~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~  483 (532)
                      ..+..+++|++|++++|+++.+    .+++|++|+|++|.+  ...+..+..+++|++|++++|.++.++. +     ..
T Consensus        42 ~sl~~L~~L~~L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i--~~i~~~~~~~~~L~~L~l~~N~i~~l~~-~-----~~  113 (198)
T d1m9la_          42 ATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLI--KKIENLDAVADTLEELWISYNQIASLSG-I-----EK  113 (198)
T ss_dssp             HHHHHTTTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEE--CSCSSHHHHHHHCCEEECSEEECCCHHH-H-----HH
T ss_pred             hHHhcccccceeECcccCCCCcccccCCccccChhhccccc--cccccccccccccccccccccccccccc-c-----cc
Confidence            5788999999999999998887    688999999999976  5556555667789999999999998753 3     56


Q ss_pred             CCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCC
Q 048213          484 IQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       484 L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      +++|++|+|++| .++.++....++.|++|++|+|++++
T Consensus       114 l~~L~~L~L~~N-~i~~~~~~~~l~~l~~L~~L~L~~N~  151 (198)
T d1m9la_         114 LVNLRVLYMSNN-KITNWGEIDKLAALDKLEDLLLAGNP  151 (198)
T ss_dssp             HHHSSEEEESEE-ECCCHHHHHHHTTTTTCSEEEECSSH
T ss_pred             cccccccccccc-hhccccccccccCCCccceeecCCCc
Confidence            799999999985 57777332333899999999999875

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.80  E-value=7e-09  Score=100.35  Aligned_cols=58  Identities=24%  Similarity=0.215  Sum_probs=43.8

Q ss_pred             CCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecCCcccccc
Q 048213          456 LPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEII  528 (532)
Q Consensus       456 l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i~  528 (532)
                      +++|++|+|++|.|+.+|..+        ++|+.|+|++| .++.+ |.    .+++|++|+|++|+ |++++
T Consensus       283 ~~~L~~L~Ls~N~l~~lp~~~--------~~L~~L~L~~N-~L~~l-~~----~~~~L~~L~L~~N~-L~~lp  340 (353)
T d1jl5a_         283 PPSLEELNVSNNKLIELPALP--------PRLERLIASFN-HLAEV-PE----LPQNLKQLHVEYNP-LREFP  340 (353)
T ss_dssp             CTTCCEEECCSSCCSCCCCCC--------TTCCEEECCSS-CCSCC-CC----CCTTCCEEECCSSC-CSSCC
T ss_pred             CCCCCEEECCCCccCcccccc--------CCCCEEECCCC-cCCcc-cc----ccCCCCEEECcCCc-CCCCC
Confidence            367888888888888877543        67888888864 57888 53    24689999999887 77765

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.77  E-value=1.8e-08  Score=91.30  Aligned_cols=170  Identities=12%  Similarity=0.031  Sum_probs=106.2

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-EeccC---chhhHHHHHHHHh-
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-FVEES---ESGRARSLCNRLK-  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-~~~~~---~~~~~~~l~~~l~-  179 (532)
                      -..++|.++.++.+.+|+..+..+.+.++|++|+||||+|+.+++............ ....+   ............. 
T Consensus        13 ~~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~   92 (227)
T d1sxjc2          13 LDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFAST   92 (227)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHB
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeecchhhcccc
Confidence            467999999999999999888777788999999999999999998754322111111 11111   1111111111111 


Q ss_pred             ----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          180 ----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       180 ----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                          .+++-.+|+|++....  .-..+...+......+.++++|....-. .........+.+.+++.++-...+.+.+.
T Consensus        93 ~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~~~l~~I~~  172 (227)
T d1sxjc2          93 RQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLV  172 (227)
T ss_dssp             CCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhccccccccccccccccccc
Confidence                1345689999998652  2223333333344577788777764322 22233446789999999999998888764


Q ss_pred             CCCCCcchHHHHHHHHHHcCCch
Q 048213          253 DYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       253 ~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      .... .-..+....|++.++|-.
T Consensus       173 ~e~i-~i~~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         173 HEKL-KLSPNAEKALIELSNGDM  194 (227)
T ss_dssp             TTTC-CBCHHHHHHHHHHHTTCH
T ss_pred             cccc-cCCHHHHHHHHHHcCCcH
Confidence            2211 122456788899888853

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.75  E-value=5.9e-08  Score=89.00  Aligned_cols=145  Identities=14%  Similarity=0.147  Sum_probs=96.1

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC----CCCEEEEe------------ccCchh
Q 048213          106 EAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK----LFDRVIFV------------EESESG  169 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~~~------------~~~~~~  169 (532)
                      ..++||++++++++..|....-.-+.++|++|+|||+++..++......+    ..+..++.            ......
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~   97 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEK   97 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHH
T ss_pred             CcccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhHHH
Confidence            35789999999999999866667788999999999999999887633211    11122211            122334


Q ss_pred             hHHHHHHHHhccCcEEEEEcCCCCcc----------cccccccccCCCCCCeEEEEeecChHHhhhc------CCCCceE
Q 048213          170 RARSLCNRLKKEKMILVILDNIWENL----------DFHAVGIPHGDDHKGCKVLLTARSLDVLSRK------MDSQQDF  233 (532)
Q Consensus       170 ~~~~l~~~l~~~k~~LlVlDdv~~~~----------~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~~------~~~~~~~  233 (532)
                      ....+.+.+...++.++++|++...-          +...+..|... ...-++|.||..+......      ......+
T Consensus        98 r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~~~~e~d~al~rrF~~I  176 (268)
T d1r6bx2          98 RFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSNIFEKDRALARRFQKI  176 (268)
T ss_dssp             HHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHCCCCCTTSSGGGEEEE
T ss_pred             HHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHHHHHHhhcHHHHhhhccc
Confidence            45556666665678999999987541          12223233222 2346788888877764211      1122578


Q ss_pred             EccCCCHHHHHHHHHHHh
Q 048213          234 WVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       234 ~l~~L~~~~~~~Lf~~~~  251 (532)
                      .+++++.+++..++...+
T Consensus       177 ~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         177 DITEPSIEETVQIINGLK  194 (268)
T ss_dssp             ECCCCCHHHHHHHHHHHH
T ss_pred             ccCCCCHHHHHHHHHHhh
Confidence            999999999999987654

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.74  E-value=2e-08  Score=90.94  Aligned_cols=171  Identities=11%  Similarity=0.001  Sum_probs=108.1

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC-CCCEEEEeccC---chhhHHHHHHHHh-
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK-LFDRVIFVEES---ESGRARSLCNRLK-  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~-~F~~~~~~~~~---~~~~~~~l~~~l~-  179 (532)
                      -..++|.++.++.+.+|+.++..+-+.++|++|+||||+|+.+++....+. .++.......+   .......+..... 
T Consensus        14 ~~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~~   93 (224)
T d1sxjb2          14 LSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQK   93 (224)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHB
T ss_pred             HHHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhhHHHHHHHh
Confidence            567899999999999999988887788999999999999999987654321 11222111111   1112222222222 


Q ss_pred             -----ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHh
Q 048213          180 -----KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       180 -----~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                           ..+.-++|+|+++...  ....+...+......++++++|.... +..........+.+.+++.++-...+.+.+
T Consensus        94 ~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~~~~i~~~l~~i~  173 (224)
T d1sxjb2          94 KLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQII  173 (224)
T ss_dssp             CCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             hccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcccchhhhHHHHHHHH
Confidence                 1355689999998652  23333333333345666766666543 222223344689999999999999988766


Q ss_pred             CCCCCCcchHHHHHHHHHHcCCchH
Q 048213          252 GDYIEGSEFKWVAKDVAKKCAGLPV  276 (532)
Q Consensus       252 ~~~~~~~~~~~~~~~i~~~c~glPL  276 (532)
                      ..... .-..+....|++.|+|-+-
T Consensus       174 ~~e~~-~i~~~~l~~I~~~s~Gd~R  197 (224)
T d1sxjb2         174 KLEDV-KYTNDGLEAIIFTAEGDMR  197 (224)
T ss_dssp             HHHTC-CBCHHHHHHHHHHHTTCHH
T ss_pred             Hhccc-CCCHHHHHHHHHHcCCcHH
Confidence            41111 1124567899999999764

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.71  E-value=1.7e-08  Score=85.61  Aligned_cols=58  Identities=17%  Similarity=0.140  Sum_probs=30.8

Q ss_pred             cCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEecc
Q 048213          431 SSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFN  494 (532)
Q Consensus       431 l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~  494 (532)
                      +++|+.|++++|++ ..-.+..|..+++|++|+|++|.|+.+|.++     +...+|+.|+|++
T Consensus        55 l~~L~~L~Ls~N~l-~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~-----~~~~~l~~L~L~~  112 (156)
T d2ifga3          55 LGELRNLTIVKSGL-RFVAPDAFHFTPRLSRLNLSFNALESLSWKT-----VQGLSLQELVLSG  112 (156)
T ss_dssp             CCCCSEEECCSSCC-CEECTTGGGSCSCCCEEECCSSCCSCCCSTT-----TCSCCCCEEECCS
T ss_pred             ccccCcceeecccc-CCcccccccccccccceeccCCCCcccChhh-----hccccccccccCC
Confidence            34444444444443 2223444556666666666666666666555     4334566666665

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.66  E-value=4e-08  Score=90.49  Aligned_cols=172  Identities=13%  Similarity=0.091  Sum_probs=97.8

Q ss_pred             ccccccchHHHHHHHHHhcCC-CceEEEEEccCCCchHHHHHHHHHHhhccCC----CCEEE------------------
Q 048213          105 YEAFESRMSTFNDILNALKSP-DVNMLGIYGMGGIRKTTPAKEVAIKAENEKL----FDRVI------------------  161 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~-~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~----F~~~~------------------  161 (532)
                      ...++|+++..+.|.+++... ...-+.|+|++|+||||+|+++++.......    ++...                  
T Consensus        10 ~~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (252)
T d1sxje2          10 LNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPY   89 (252)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSS
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccCCc
Confidence            557999999888888877643 4556789999999999999999987422110    11100                  


Q ss_pred             ---Eecc----CchhhHHHHHHHHh--------------ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeec
Q 048213          162 ---FVEE----SESGRARSLCNRLK--------------KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTAR  218 (532)
Q Consensus       162 ---~~~~----~~~~~~~~l~~~l~--------------~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr  218 (532)
                         ....    ..............              ..+.-++|+|+++..  ..+..+...+......+++|+||.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn  169 (252)
T d1sxje2          90 HLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCD  169 (252)
T ss_dssp             EEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEES
T ss_pred             cceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccccccceeeec
Confidence               0000    00001111111110              124458899999865  233333333323345677777776


Q ss_pred             ChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH
Q 048213          219 SLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV  276 (532)
Q Consensus       219 ~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL  276 (532)
                      +.. +..........+.+.+++.++..+.+...+.........++..+.|++.+.|-+-
T Consensus       170 ~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~i~~~s~Gd~R  228 (252)
T d1sxje2         170 SMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLR  228 (252)
T ss_dssp             CSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHH
T ss_pred             cccchhhhhhcchheeeecccchhhHHHHHHHHHHHcCCCCCcHHHHHHHHHHcCCcHH
Confidence            543 2111111225788999999999998876553111111123566788999988764

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.66  E-value=1.1e-08  Score=93.76  Aligned_cols=150  Identities=13%  Similarity=0.117  Sum_probs=87.3

Q ss_pred             HhhHHhhhhcccccC-Cc-hhhhccccccEEEeccc-cccC--cccccccccccEEeecccccccc--------------
Q 048213          369 RARVVIDLTYMNLLS-LP-SSLGLLTNLQTLCLYYC-KLQD--TSVLGELKILEILRLRVNELTRA--------------  429 (532)
Q Consensus       369 ~~~~~l~l~~~~l~~-lp-~~~~~l~~L~~L~l~~~-~l~~--~~~i~~l~~L~~L~l~~~~l~~~--------------  429 (532)
                      .+.+.+++.++.+.. +| ..|..+++++++.+..+ .+..  +..+.++++|++|++.+|.+...              
T Consensus        53 ~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~~~~~l~~l~~  132 (242)
T d1xwdc1          53 GDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLL  132 (242)
T ss_dssp             TTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEEEESCCCCSCCCCTTTCBSSCEEE
T ss_pred             chhhhhhhccccccceeeccccccccccccccccccccccccccccccccccccccccchhhhccccccccccccccccc
Confidence            344556666665543 22 23455555555555432 2322  33455556666666655544332              


Q ss_pred             -----------------cc-CCcceEEeccccccCCCCCcccccCCCCCEE-ecCCcccccccccccccccccCCCccEE
Q 048213          430 -----------------GS-SQLKHLSVRGLRASAPNPTESEVALPKLETV-CLSSINIERIWQNQVAAMSCGIQNLKRL  490 (532)
Q Consensus       430 -----------------~l-~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L-~L~~~~l~~lp~~~~~~~~~~L~~L~~L  490 (532)
                                       .+ ..+..|++++|+.  ...+......+++..+ .+.+|.++.+|...+    .++++|++|
T Consensus       133 ~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~n~l--~~i~~~~~~~~~l~~~~~l~~n~l~~l~~~~f----~~l~~L~~L  206 (242)
T d1xwdc1         133 DIQDNINIHTIERNSFVGLSFESVILWLNKNGI--QEIHNCAFNGTQLDELNLSDNNNLEELPNDVF----HGASGPVIL  206 (242)
T ss_dssp             EEESCTTCCEECTTSSTTSBSSCEEEECCSSCC--CEECTTTTTTCCEEEEECTTCTTCCCCCTTTT----TTSCCCSEE
T ss_pred             ccccccccccccccccccccccceeeecccccc--cccccccccchhhhccccccccccccccHHHh----cCCCCCCEE
Confidence                             22 3567777777755  3333333445565555 567779999988762    368999999


Q ss_pred             EeccCCCCCccchhhhhhcCCCccEEEeecCCccccccc
Q 048213          491 ILFNCWNLTCLFTSSIISSFVGLQCLEICECPVLKEIIV  529 (532)
Q Consensus       491 ~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c~~L~~i~~  529 (532)
                      +|+++ +++.+|+..+ .++++|++|++.+   |++++.
T Consensus       207 ~Ls~N-~l~~l~~~~~-~~l~~L~~l~~~~---l~~lp~  240 (242)
T d1xwdc1         207 DISRT-RIHSLPSYGL-ENLKKLRARSTYN---LKKLPT  240 (242)
T ss_dssp             ECTTS-CCCCCCSSSC-TTCCEEESSSEES---SSCSCC
T ss_pred             ECCCC-cCCccCHHHH-cCCcccccCcCCC---CCcCCC
Confidence            99984 5899955444 5666666666655   445543

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.65  E-value=3.8e-08  Score=83.45  Aligned_cols=86  Identities=17%  Similarity=0.138  Sum_probs=63.2

Q ss_pred             ccCCcceEEeccccccCCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhc
Q 048213          430 GSSQLKHLSVRGLRASAPNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISS  509 (532)
Q Consensus       430 ~l~~Lr~L~l~~~~~~~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~  509 (532)
                      ++++|+.|++.+++....-.+..|.++++|+.|+|++|.|+.+++..+    ..+++|++|+|++ +.++.+ |...+. 
T Consensus        29 ~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f----~~l~~L~~L~Ls~-N~l~~l-~~~~~~-  101 (156)
T d2ifga3          29 GAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAF----HFTPRLSRLNLSF-NALESL-SWKTVQ-  101 (156)
T ss_dssp             SCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGG----GSCSCCCEEECCS-SCCSCC-CSTTTC-
T ss_pred             CccccCeeecCCCccccccCchhhccccccCcceeeccccCCcccccc----cccccccceeccC-CCCccc-Chhhhc-
Confidence            344556666655432022234568899999999999999999977652    4689999999997 669999 444434 


Q ss_pred             CCCccEEEeecCC
Q 048213          510 FVGLQCLEICECP  522 (532)
Q Consensus       510 L~~L~~L~l~~c~  522 (532)
                      ..+|++|+|+++|
T Consensus       102 ~~~l~~L~L~~Np  114 (156)
T d2ifga3         102 GLSLQELVLSGNP  114 (156)
T ss_dssp             SCCCCEEECCSSC
T ss_pred             cccccccccCCCc
Confidence            4579999999876

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.63  E-value=4.5e-07  Score=82.54  Aligned_cols=175  Identities=13%  Similarity=0.152  Sum_probs=110.6

Q ss_pred             ccccccchHHHHHHHHHhcCCCc-eEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEe
Q 048213          105 YEAFESRMSTFNDILNALKSPDV-NMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFV  163 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~-~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~  163 (532)
                      -..++|.++.++.+.+++..++. ..+.|+|+.|+||||+|+.+++.....                    .+++....+
T Consensus        11 ~~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   90 (239)
T d1njfa_          11 FADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEID   90 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEEEEE
T ss_pred             HHHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCCCeEEEec
Confidence            46789999999999999986654 568899999999999999988754322                    112222122


Q ss_pred             ccCchhhHHHHHHHHh-------ccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChHHh-hhcCCCCceE
Q 048213          164 EESESGRARSLCNRLK-------KEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLDVL-SRKMDSQQDF  233 (532)
Q Consensus       164 ~~~~~~~~~~l~~~l~-------~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~v~-~~~~~~~~~~  233 (532)
                      .. .....+.+++.+.       .+++.++|+|+++...  ..+.+...+.....++++|.+|.+..-. .........+
T Consensus        91 ~~-~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i  169 (239)
T d1njfa_          91 AA-SRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQF  169 (239)
T ss_dssp             TT-CSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             ch-hcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHhhhhccc
Confidence            11 1122334444343       2456789999998752  2233433333334567777777665432 2222334688


Q ss_pred             EccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchH-HHHHH
Q 048213          234 WVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPV-SIVTV  281 (532)
Q Consensus       234 ~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~  281 (532)
                      .+.+++.++-.+.+...+..... .-.++....|++.++|.+- |+..+
T Consensus       170 ~~~~~~~~~i~~~l~~i~~~e~~-~~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         170 HLKALDVEQIRHQLEHILNEEHI-AHEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             ECCCCCHHHHHHHHHHHHHHHTC-CBCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             ccccCcHHHhhhHHHHHHhhhcc-CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            99999999998888776641111 1225667889999999874 44433

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.62  E-value=5.8e-08  Score=88.18  Aligned_cols=170  Identities=12%  Similarity=0.027  Sum_probs=105.6

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhcc-CCCCEEEEeccCchh---hHHHHHHHH--
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENE-KLFDRVIFVEESESG---RARSLCNRL--  178 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-~~F~~~~~~~~~~~~---~~~~l~~~l--  178 (532)
                      -..++|.++.++++..|+..+..+-+.++|++|+||||+|+.+++..... ..++..-+...+...   ......+..  
T Consensus        23 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~~~  102 (231)
T d1iqpa2          23 LDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFART  102 (231)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHHHHS
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchhHHHHHHHHHHhh
Confidence            46789999999999999998888889999999999999999998864321 012222222222111   111222221  


Q ss_pred             ---hccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          179 ---KKEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       179 ---~~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                         ...+..++++|++...  ..+..+...+........+|.||.... +..........+.+.+.+.++....+.+.+.
T Consensus       103 ~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~~~~  182 (231)
T d1iqpa2         103 KPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAE  182 (231)
T ss_dssp             CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             hhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccccchhhHHHHHHHHHH
Confidence               1246788999998754  333334333322333455666665443 2221222335789999999999998888775


Q ss_pred             CCCCCcchHHHHHHHHHHcCCch
Q 048213          253 DYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       253 ~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      ... ..-..+..+.|++.|+|-.
T Consensus       183 ~e~-i~i~~~~l~~I~~~~~gdi  204 (231)
T d1iqpa2         183 NEG-LELTEEGLQAILYIAEGDM  204 (231)
T ss_dssp             TTT-CEECHHHHHHHHHHHTTCH
T ss_pred             HhC-CCCCHHHHHHHHHHcCCCH
Confidence            222 1223566788999998854

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=98.57  E-value=2.5e-07  Score=89.04  Aligned_cols=130  Identities=15%  Similarity=0.091  Sum_probs=94.0

Q ss_pred             HHhhhhcccccCCchhhhccccccEEEeccccccCcccccccccccEEeecccccccc-cc-CCcceEEeccccccCCCC
Q 048213          372 VVIDLTYMNLLSLPSSLGLLTNLQTLCLYYCKLQDTSVLGELKILEILRLRVNELTRA-GS-SQLKHLSVRGLRASAPNP  449 (532)
Q Consensus       372 ~~l~l~~~~l~~lp~~~~~l~~L~~L~l~~~~l~~~~~i~~l~~L~~L~l~~~~l~~~-~l-~~Lr~L~l~~~~~~~~~~  449 (532)
                      +.++++++.++++|+.   +++|++|++++|.++.++..  +.+|+.|++.+|+++.+ .+ +.|++|++++|.+  ...
T Consensus        41 ~~LdLs~~~L~~lp~~---~~~L~~L~Ls~N~l~~lp~~--~~~L~~L~l~~n~l~~l~~lp~~L~~L~L~~n~l--~~l  113 (353)
T d1jl5a_          41 HELELNNLGLSSLPEL---PPHLESLVASCNSLTELPEL--PQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQL--EKL  113 (353)
T ss_dssp             SEEECTTSCCSCCCSC---CTTCSEEECCSSCCSSCCCC--CTTCCEEECCSSCCSCCCSCCTTCCEEECCSSCC--SSC
T ss_pred             CEEEeCCCCCCCCCCC---CCCCCEEECCCCCCcccccc--hhhhhhhhhhhcccchhhhhcccccccccccccc--ccc
Confidence            5789999999999964   57899999999999885432  46899999999988877 33 4699999999976  444


Q ss_pred             CcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchhhhhhcCCCccEEEeecC
Q 048213          450 TESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       450 ~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~~~~~~L~~L~~L~l~~c  521 (532)
                      | .++.+++|++|+++++.+...|...        ..+..|.+.++....   +..+ +.++.++.|.++++
T Consensus       114 p-~~~~l~~L~~L~l~~~~~~~~~~~~--------~~l~~l~~~~~~~~~---~~~l-~~l~~l~~L~l~~n  172 (353)
T d1jl5a_         114 P-ELQNSSFLKIIDVDNNSLKKLPDLP--------PSLEFIAAGNNQLEE---LPEL-QNLPFLTAIYADNN  172 (353)
T ss_dssp             C-CCTTCTTCCEEECCSSCCSCCCCCC--------TTCCEEECCSSCCSS---CCCC-TTCTTCCEEECCSS
T ss_pred             c-chhhhccceeecccccccccccccc--------ccccchhhccccccc---cccc-cccccceecccccc
Confidence            4 4678999999999999887766543        445556655433222   1222 45666666666554

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.55  E-value=2.2e-08  Score=91.37  Aligned_cols=170  Identities=12%  Similarity=0.034  Sum_probs=102.3

Q ss_pred             ccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC--CCCEEEEecc---CchhhHHHHHHH--
Q 048213          105 YEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK--LFDRVIFVEE---SESGRARSLCNR--  177 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~--~F~~~~~~~~---~~~~~~~~l~~~--  177 (532)
                      -..++|.++.++.+..++.....+.+.++|++|+||||+|+.+++......  .+........   ........+.+.  
T Consensus        11 ~~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (237)
T d1sxjd2          11 LDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFAR   90 (237)
T ss_dssp             TTTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHH
T ss_pred             HHHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhh
Confidence            456889999999999999888777789999999999999999988642110  1121111111   000111111111  


Q ss_pred             -------------HhccCcEEEEEcCCCCcc--cccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCCCHH
Q 048213          178 -------------LKKEKMILVILDNIWENL--DFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVLKED  241 (532)
Q Consensus       178 -------------l~~~k~~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L~~~  241 (532)
                                   ....+.-++|+|++....  .+..+...+......+++++|+.... +..........+.+.+++.+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f~~~~~~  170 (237)
T d1sxjd2          91 LTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDAS  170 (237)
T ss_dssp             SCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHH
T ss_pred             hhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhhcccccccc
Confidence                         111234479999997652  23333222222345566776665533 22111222357899999999


Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          242 EAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       242 ~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      +..+.+.+.+..... .-..+..+.|++.++|-+
T Consensus       171 ~~~~~L~~i~~~e~i-~i~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         171 NAIDRLRFISEQENV-KCDDGVLERILDISAGDL  203 (237)
T ss_dssp             HHHHHHHHHHHTTTC-CCCHHHHHHHHHHTSSCH
T ss_pred             ccchhhhhhhhhhcC-cCCHHHHHHHHHHcCCCH
Confidence            999999887652211 223567889999997754

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.51  E-value=1.2e-06  Score=81.00  Aligned_cols=147  Identities=12%  Similarity=0.130  Sum_probs=87.4

Q ss_pred             ccccccchHHHHHHHHHhc------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec--------------
Q 048213          105 YEAFESRMSTFNDILNALK------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE--------------  164 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~--------------  164 (532)
                      +..++||+.++++|.++|.      ....+.+.|+|++|+|||++|+.+++.......+.......              
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIA   94 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhH
Confidence            4568999999999999885      23457899999999999999999999876543343332110              


Q ss_pred             -----------cCchhhHHHHHHHHh-ccCcEEEEEcCCCCccc-----ccccccccCC-CCCCeEEEEeecChHHhhhc
Q 048213          165 -----------ESESGRARSLCNRLK-KEKMILVILDNIWENLD-----FHAVGIPHGD-DHKGCKVLLTARSLDVLSRK  226 (532)
Q Consensus       165 -----------~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~~-----~~~l~~~~~~-~~~gs~ilvTtr~~~v~~~~  226 (532)
                                 .........+.+.+. ......+++|++++...     ...+...... ......+|.++.........
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  174 (276)
T d1fnna2          95 RSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNL  174 (276)
T ss_dssp             HHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTS
T ss_pred             HhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhhhc
Confidence                       011122233333333 23567788888776421     1111111111 12234455555553332110


Q ss_pred             ------CCCCceEEccCCCHHHHHHHHHHHh
Q 048213          227 ------MDSQQDFWVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       227 ------~~~~~~~~l~~L~~~~~~~Lf~~~~  251 (532)
                            ......+.+.+.+.++.++.+.+.+
T Consensus       175 ~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         175 DPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             CHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             chhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence                  0112457899999999999988765

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.48  E-value=1.4e-07  Score=81.71  Aligned_cols=140  Identities=15%  Similarity=0.145  Sum_probs=85.9

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccC----CCCEEEEec--------c----Cchh
Q 048213          106 EAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEK----LFDRVIFVE--------E----SESG  169 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~----~F~~~~~~~--------~----~~~~  169 (532)
                      ...+||++++++++..|....-.-+.++|.+|+|||+++..++.+....+    .-+..++..        .    ...+
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~E~  101 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEE  101 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHHHH
Confidence            35789999999999999966667788999999999999998887643221    122222111        1    1122


Q ss_pred             hHHHHHHHH-hccCcEEEEEcCCCCcc---------cccccccccCCCCCCeEEEEeecChHHhhh------cCCCCceE
Q 048213          170 RARSLCNRL-KKEKMILVILDNIWENL---------DFHAVGIPHGDDHKGCKVLLTARSLDVLSR------KMDSQQDF  233 (532)
Q Consensus       170 ~~~~l~~~l-~~~k~~LlVlDdv~~~~---------~~~~l~~~~~~~~~gs~ilvTtr~~~v~~~------~~~~~~~~  233 (532)
                      ....+.+.+ ....+.+|++|++...-         +...+..|... ...-++|.||..+.....      .......+
T Consensus       102 rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~-rg~l~~IgatT~eey~~~~e~d~aL~rrF~~I  180 (195)
T d1jbka_         102 RLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-RGELHCVGATTLDEYRQYIEKDAALERRFQKV  180 (195)
T ss_dssp             HHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-TTSCCEEEEECHHHHHHHTTTCHHHHTTEEEE
T ss_pred             HHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh-CCCceEEecCCHHHHHHHHHcCHHHHhcCCEe
Confidence            233344444 23457999999997541         11122222211 223567877776654321      12233578


Q ss_pred             EccCCCHHHHHHH
Q 048213          234 WVGVLKEDEAWSL  246 (532)
Q Consensus       234 ~l~~L~~~~~~~L  246 (532)
                      .++..+.+++..+
T Consensus       181 ~V~Ep~~e~t~~I  193 (195)
T d1jbka_         181 FVAEPSVEDTIAI  193 (195)
T ss_dssp             ECCCCCHHHHHTT
T ss_pred             ecCCCCHHHHHHH
Confidence            8988888887654

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.46  E-value=7.9e-06  Score=73.88  Aligned_cols=169  Identities=15%  Similarity=0.092  Sum_probs=100.7

Q ss_pred             ccccccchHHHHHHHHHhc-----CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHh
Q 048213          105 YEAFESRMSTFNDILNALK-----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLK  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~-----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~  179 (532)
                      -..++|-++.+++|..|+.     ....+-+.++|++|+||||+|+.+++....    +.......... ....+...+.
T Consensus         8 ~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~----~~~~~~~~~~~-~~~~~~~~~~   82 (238)
T d1in4a2           8 LDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT----NIHVTSGPVLV-KQGDMAAILT   82 (238)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTC----CEEEEETTTCC-SHHHHHHHHH
T ss_pred             HHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCC----CcccccCcccc-cHHHHHHHHH
Confidence            4678999999999988875     334566889999999999999999987653    33332222111 1122222222


Q ss_pred             -ccCcEEEEEcCCCCccc---------ccc--cccc---------cCCCCCCeEEEEeecChHHh-h-hcCCCCceEEcc
Q 048213          180 -KEKMILVILDNIWENLD---------FHA--VGIP---------HGDDHKGCKVLLTARSLDVL-S-RKMDSQQDFWVG  236 (532)
Q Consensus       180 -~~k~~LlVlDdv~~~~~---------~~~--l~~~---------~~~~~~gs~ilvTtr~~~v~-~-~~~~~~~~~~l~  236 (532)
                       .+++..+++|.+.....         .+.  +...         .....+...+|.+|...... . ........+.++
T Consensus        83 ~~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~~~~~~~  162 (238)
T d1in4a2          83 SLERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELD  162 (238)
T ss_dssp             HCCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECC
T ss_pred             hhccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCccccccceeeeeEEEEec
Confidence             24667888998875421         000  0000         00011234555555554322 1 122334567899


Q ss_pred             CCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHH
Q 048213          237 VLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIV  279 (532)
Q Consensus       237 ~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  279 (532)
                      ..+.++...++...+.... ....++....|++.+.|-+-.+.
T Consensus       163 ~~~~~~~~~~l~~~~~~~~-~~~~~~~l~~i~~~s~gd~R~ai  204 (238)
T d1in4a2         163 FYTVKELKEIIKRAASLMD-VEIEDAAAEMIAKRSRGTPRIAI  204 (238)
T ss_dssp             CCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHTSTTCHHHHH
T ss_pred             CCCHHHHHHHHHHhhhhcc-chhhHHHHHHHHHhCCCCHHHHH
Confidence            9999999999988775221 12335668899999999765553

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.43  E-value=1.1e-06  Score=79.88  Aligned_cols=166  Identities=14%  Similarity=0.129  Sum_probs=96.1

Q ss_pred             cccccccchHHHHHHHHHh---c---------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc------
Q 048213          104 DYEAFESRMSTFNDILNAL---K---------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE------  165 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l---~---------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~------  165 (532)
                      .-..++|-++.+++|.+.+   .         ....+-|.++|++|+|||++|+.+++.....    .......      
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~----~~~i~~~~l~~~~   82 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP----FITASGSDFVEMF   82 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC----EEEEEHHHHHHSC
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCC----EEEEEhHHhhhcc
Confidence            3456888888776655433   2         1234678999999999999999999876432    2211111      


Q ss_pred             --CchhhHHHHHHHHhccCcEEEEEcCCCCcc----------------cccccccccC--CCCCCeEEEEeecChHHhhh
Q 048213          166 --SESGRARSLCNRLKKEKMILVILDNIWENL----------------DFHAVGIPHG--DDHKGCKVLLTARSLDVLSR  225 (532)
Q Consensus       166 --~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~l~~~~~--~~~~gs~ilvTtr~~~v~~~  225 (532)
                        .....+..+.+......+++|++||++...                .+..+...+.  ....+.-||.||........
T Consensus        83 ~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~  162 (247)
T d1ixza_          83 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDP  162 (247)
T ss_dssp             TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCG
T ss_pred             ccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCH
Confidence              111233445555544578999999986320                0111211111  12233334457766443311


Q ss_pred             -cC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          226 -KM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       226 -~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                       ..   .-...+.+.+.+.++-.++|..+........+.  ....+++.|.|+.
T Consensus       163 al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~--~~~~la~~t~g~s  214 (247)
T d1ixza_         163 ALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV--DLALLAKRTPGFV  214 (247)
T ss_dssp             GGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTC--CHHHHHHTCTTCC
T ss_pred             hHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCcccc--CHHHHHHHCCCCC
Confidence             11   233588999999999999999888632222211  1456777787753

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.37  E-value=3.2e-06  Score=74.75  Aligned_cols=161  Identities=11%  Similarity=0.047  Sum_probs=102.4

Q ss_pred             hHHHHHHHHHhcCCC-ceEEEEEccCCCchHHHHHHHHHHhhcc--------------------CCCCEEEEeccC----
Q 048213          112 MSTFNDILNALKSPD-VNMLGIYGMGGIRKTTPAKEVAIKAENE--------------------KLFDRVIFVEES----  166 (532)
Q Consensus       112 ~~~~~~i~~~l~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------~~F~~~~~~~~~----  166 (532)
                      +...+++.+.+..+. ...+.++|+.|+||||+|+.+++..--.                    .+.+........    
T Consensus         8 ~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~   87 (207)
T d1a5ta2           8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNT   87 (207)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSS
T ss_pred             HHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccc
Confidence            455777888777666 4568999999999999999988754211                    112222221111    


Q ss_pred             -chhhHHHHHHHHh----ccCcEEEEEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccCC
Q 048213          167 -ESGRARSLCNRLK----KEKMILVILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGVL  238 (532)
Q Consensus       167 -~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~L  238 (532)
                       ..+.+..+.+.+.    .+++-++|+||++..  +....+...+-.-..++.+|.||++.. +..........+.+.++
T Consensus        88 i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~  167 (207)
T d1a5ta2          88 LGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPP  167 (207)
T ss_dssp             BCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             cccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEecCCC
Confidence             1122334444443    256779999999865  334555444444456788888777754 33322233468899999


Q ss_pred             CHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHH
Q 048213          239 KEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSI  278 (532)
Q Consensus       239 ~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai  278 (532)
                      +.++....+.+...      -.++....|++.++|.|-.+
T Consensus       168 ~~~~~~~~L~~~~~------~~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         168 PEQYAVTWLSREVT------MSQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             CHHHHHHHHHHHCC------CCHHHHHHHHHHTTTCHHHH
T ss_pred             CHHHHHHHHHHcCC------CCHHHHHHHHHHcCCCHHHH
Confidence            99999998876532      12466888899999987543

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.32  E-value=1.7e-06  Score=83.69  Aligned_cols=144  Identities=12%  Similarity=0.132  Sum_probs=86.6

Q ss_pred             cccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhcc----CCCCEEEEe------------ccCchh
Q 048213          106 EAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENE----KLFDRVIFV------------EESESG  169 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~~~~------------~~~~~~  169 (532)
                      ..++||+++++++++.|....-.-+.++|.+|+|||+++..++.+....    ...+..++.            ......
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~e~  101 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEE  101 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CHHH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhHHH
Confidence            4578999999999999985555566788999999999887776643221    122333311            112233


Q ss_pred             hHHHHHHHHhc-cCcEEEEEcCCCCcc---------cc-cccccccCCCCCCeEEEEeecChHHhhh-----cCCCCceE
Q 048213          170 RARSLCNRLKK-EKMILVILDNIWENL---------DF-HAVGIPHGDDHKGCKVLLTARSLDVLSR-----KMDSQQDF  233 (532)
Q Consensus       170 ~~~~l~~~l~~-~k~~LlVlDdv~~~~---------~~-~~l~~~~~~~~~gs~ilvTtr~~~v~~~-----~~~~~~~~  233 (532)
                      ....+...+.. ..+++|++|++...-         +. +-++.++.  ...-++|.+|........     .......+
T Consensus       102 r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~--rg~~~~I~~tT~~ey~~~e~d~al~rrF~~v  179 (387)
T d1qvra2         102 RLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGATTLDEYREIEKDPALERRFQPV  179 (387)
T ss_dssp             HHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEECHHHHHHHTTCTTTCSCCCCE
T ss_pred             HHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh--CCCcceeeecCHHHHHHhcccHHHHHhcccc
Confidence            44445555543 347999999997651         11 22233331  123467766665554311     12234689


Q ss_pred             EccCCCHHHHHHHHHHHh
Q 048213          234 WVGVLKEDEAWSLFKKMA  251 (532)
Q Consensus       234 ~l~~L~~~~~~~Lf~~~~  251 (532)
                      .+++.+.+++..++....
T Consensus       180 ~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         180 YVDEPTVEETISILRGLK  197 (387)
T ss_dssp             EECCCCHHHHHHHHHHHH
T ss_pred             cCCCCcHHHHHHHHHHHH
Confidence            999999999999988655

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.31  E-value=2.5e-06  Score=77.87  Aligned_cols=165  Identities=15%  Similarity=0.149  Sum_probs=99.3

Q ss_pred             ccccccchHHHHHHHHHh---c---------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEec--------
Q 048213          105 YEAFESRMSTFNDILNAL---K---------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVE--------  164 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l---~---------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~--------  164 (532)
                      -..++|.++.+++|.+.+   .         ....+.+.++|++|+|||++|+.+++.....    ......        
T Consensus        11 ~~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~----~~~i~~~~l~~~~~   86 (256)
T d1lv7a_          11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP----FFTISGSDFVEMFV   86 (256)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC----EEEECSCSSTTSCC
T ss_pred             HHHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC----EEEEEhHHhhhcch
Confidence            457888888887775543   2         1235678999999999999999999876532    221111        


Q ss_pred             cCchhhHHHHHHHHhccCcEEEEEcCCCCcc------------c----ccccccccC--CCCCCeEEEEeecChHHh-hh
Q 048213          165 ESESGRARSLCNRLKKEKMILVILDNIWENL------------D----FHAVGIPHG--DDHKGCKVLLTARSLDVL-SR  225 (532)
Q Consensus       165 ~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~l~~~~~--~~~~gs~ilvTtr~~~v~-~~  225 (532)
                      .........+.+...+..+++|++||++...            .    +..+...+.  ....+.-||.||...... ..
T Consensus        87 g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~a  166 (256)
T d1lv7a_          87 GVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPA  166 (256)
T ss_dssp             CCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGG
T ss_pred             hHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHh
Confidence            1122345555555555678999999996320            0    111211111  123345566678765443 11


Q ss_pred             cC---CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          226 KM---DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       226 ~~---~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      ..   .-...+.+...+.++-.++|..+........+  .....+++.+.|+.
T Consensus       167 l~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~--~~~~~la~~t~G~s  217 (256)
T d1lv7a_         167 LLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD--IDAAIIARGTPGFS  217 (256)
T ss_dssp             GGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHTCTTCC
T ss_pred             HcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcc--cCHHHHHHhCCCCC
Confidence            22   23468899999999999999887753322221  12456777888764

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.28  E-value=5.2e-06  Score=76.10  Aligned_cols=166  Identities=11%  Similarity=0.079  Sum_probs=99.1

Q ss_pred             cccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---EeccC---
Q 048213          106 EAFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEES---  166 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~~---  166 (532)
                      ..+.|-+..+++|.+.+.             -...+-+.++|++|+|||++|+++++.....  |-..-   +...-   
T Consensus         4 ~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~--~~~i~~~~l~~~~~g~   81 (258)
T d1e32a2           4 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF--FFLINGPEIMSKLAGE   81 (258)
T ss_dssp             GGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE--EEEECHHHHTTSCTTH
T ss_pred             hhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe--EEEEEchhhccccccc
Confidence            357788888888777642             1235679999999999999999999875533  21111   00001   


Q ss_pred             chhhHHHHHHHHhccCcEEEEEcCCCCcc---------cc----ccccccc--CCCCCCeEEEEeecChHHhh-hcC---
Q 048213          167 ESGRARSLCNRLKKEKMILVILDNIWENL---------DF----HAVGIPH--GDDHKGCKVLLTARSLDVLS-RKM---  227 (532)
Q Consensus       167 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---------~~----~~l~~~~--~~~~~gs~ilvTtr~~~v~~-~~~---  227 (532)
                      .......+.+.-...++++|++||++...         ..    ..+...+  .....+.-||.||....... ...   
T Consensus        82 ~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~g  161 (258)
T d1e32a2          82 SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFG  161 (258)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTT
T ss_pred             HHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcc
Confidence            12233344444434578999999997541         11    1111111  12234455667887765432 122   


Q ss_pred             CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          228 DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       228 ~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                      .-...+.++..+.++-.++|..+........+.  ....|++.+.|+-
T Consensus       162 Rfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~--~~~~la~~t~G~s  207 (258)
T d1e32a2         162 RFDREVDIGIPDATGRLEILQIHTKNMKLADDV--DLEQVANETHGHV  207 (258)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTC--CHHHHHHHCTTCC
T ss_pred             cccceeECCCCCHHHHHHHhhhhccCccccccc--chhhhhhcccCCC
Confidence            234688999999999999998876532222221  1467888888863

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.26  E-value=1.8e-05  Score=71.47  Aligned_cols=169  Identities=11%  Similarity=0.015  Sum_probs=97.2

Q ss_pred             ccccccchHHHHHHHHHhc-----CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHh
Q 048213          105 YEAFESRMSTFNDILNALK-----SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLK  179 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~-----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~  179 (532)
                      -..++|-++.++++..++.     ...++-+.++|++|+||||+|+.+++.....  |  ........ .........+.
T Consensus         8 ~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~--~--~~~~~~~~-~~~~~~~~~~~   82 (239)
T d1ixsb2           8 LDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN--L--RVTSGPAI-EKPGDLAAILA   82 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC--E--EEEETTTC-CSHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCC--e--EeccCCcc-ccchhhHHHHH
Confidence            4568899988888877765     2346778899999999999999999876533  2  22221111 11112222222


Q ss_pred             c--cCcEEEEEcCCCCccc---------cc----cccccc-------CCCCCCeEEEEeecCh-HHh-hhcCCCCceEEc
Q 048213          180 K--EKMILVILDNIWENLD---------FH----AVGIPH-------GDDHKGCKVLLTARSL-DVL-SRKMDSQQDFWV  235 (532)
Q Consensus       180 ~--~k~~LlVlDdv~~~~~---------~~----~l~~~~-------~~~~~gs~ilvTtr~~-~v~-~~~~~~~~~~~l  235 (532)
                      .  +.+.++++|+++....         .+    ......       ....+...++.+|.+. ... .........+.+
T Consensus        83 ~~~~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~  162 (239)
T d1ixsb2          83 NSLEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHL  162 (239)
T ss_dssp             TTCCTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCSCGGGGGCSEEEEC
T ss_pred             hhccCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCcccccchhhcccceeeEe
Confidence            1  2345677898875411         00    000000       0012233455444432 211 112233457888


Q ss_pred             cCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCchHHHH
Q 048213          236 GVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLPVSIV  279 (532)
Q Consensus       236 ~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glPLai~  279 (532)
                      ...+.++...++.+.+.... .....+....|++.+.|-+-.+.
T Consensus       163 ~~~~~~~~~~i~~~~~~~~~-i~~~~~~l~~ia~~s~gd~R~a~  205 (239)
T d1ixsb2         163 EYYTPEELAQGVMRDARLLG-VRITEEAALEIGRRSRGTMRVAK  205 (239)
T ss_dssp             CCCCHHHHHHHHHHHHGGGC-CCBCHHHHHHHHHHTTSSHHHHH
T ss_pred             eccChhhhhHHHHHHHHHhC-CccchHHHHHHHHHcCCCHHHHH
Confidence            99999999888887665222 22336678999999999765443

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.24  E-value=1.1e-05  Score=73.68  Aligned_cols=167  Identities=14%  Similarity=0.024  Sum_probs=95.5

Q ss_pred             ccccccchHHHHHHHHHhcC-----------------CCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCc
Q 048213          105 YEAFESRMSTFNDILNALKS-----------------PDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESE  167 (532)
Q Consensus       105 ~~~~~gR~~~~~~i~~~l~~-----------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~  167 (532)
                      ...++|.+..+++|.+++..                 ...+.+.++|++|+||||+|+.+++.....    .........
T Consensus        13 ~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~----~~~~~~~~~   88 (253)
T d1sxja2          13 LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD----ILEQNASDV   88 (253)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE----EEEECTTSC
T ss_pred             HHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhh----hhccccccc
Confidence            46788999999999998742                 234689999999999999999999875422    111111100


Q ss_pred             --hhhH-HHHH-----------------HHHhccCcEEEEEcCCCCccc-----ccccccccCCCCCCeEEEEeecC--h
Q 048213          168 --SGRA-RSLC-----------------NRLKKEKMILVILDNIWENLD-----FHAVGIPHGDDHKGCKVLLTARS--L  220 (532)
Q Consensus       168 --~~~~-~~l~-----------------~~l~~~k~~LlVlDdv~~~~~-----~~~l~~~~~~~~~gs~ilvTtr~--~  220 (532)
                        .... ..+.                 .....++..++++|++.....     +..+.....  .....+++|+..  .
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~ii~i~~~~~~  166 (253)
T d1sxja2          89 RSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPLILICNERNL  166 (253)
T ss_dssp             CCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCEEEEESCTTS
T ss_pred             hhhHHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhc--ccccccccccccccc
Confidence              0000 0000                 000124677899999875422     112211100  112234444432  2


Q ss_pred             HHhhhcCCCCceEEccCCCHHHHHHHHHHHhCC-CCCCcchHHHHHHHHHHcCCch-HHHH
Q 048213          221 DVLSRKMDSQQDFWVGVLKEDEAWSLFKKMAGD-YIEGSEFKWVAKDVAKKCAGLP-VSIV  279 (532)
Q Consensus       221 ~v~~~~~~~~~~~~l~~L~~~~~~~Lf~~~~~~-~~~~~~~~~~~~~i~~~c~glP-Lai~  279 (532)
                      ............+.+.+++.++-...+...+.. ....+  ++....|++.++|-. -||.
T Consensus       167 ~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~--~~~l~~i~~~s~GDiR~ai~  225 (253)
T d1sxja2         167 PKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD--PNVIDRLIQTTRGDIRQVIN  225 (253)
T ss_dssp             STTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC--TTHHHHHHHHTTTCHHHHHH
T ss_pred             cccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCC--HHHHHHHHHhCCCcHHHHHH
Confidence            222223344568999999999988888876531 11111  234678999999965 4443

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.16  E-value=2.7e-05  Score=71.94  Aligned_cols=48  Identities=25%  Similarity=0.153  Sum_probs=37.5

Q ss_pred             cccccccchHHHHHHHHHhc----CC----C-ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          104 DYEAFESRMSTFNDILNALK----SP----D-VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~----~~----~-~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+..+.||+.++++|.+.+.    .+    + ..++.++|++|+|||++++.+++..
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l   70 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV   70 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHH
Confidence            35678999999999988763    11    1 2245678999999999999999874

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=98.14  E-value=3e-06  Score=76.99  Aligned_cols=86  Identities=15%  Similarity=0.136  Sum_probs=54.0

Q ss_pred             cccccchHHHHHHHHHhc----------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEE----eccCc---h
Q 048213          106 EAFESRMSTFNDILNALK----------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF----VEESE---S  168 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~----------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~----~~~~~---~  168 (532)
                      .+++|..+.++.+++...          ..+.+-|.++|++|+|||++|+++++.....  |-....    .....   .
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~~--~~~i~~~~~~~g~~~~~~~   86 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFP--FIKICSPDKMIGFSETAKC   86 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCS--EEEEECGGGCTTCCHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhccccc--ccccccccccccccccchh
Confidence            357777777766665543          2345678999999999999999999876532  221110    01111   1


Q ss_pred             hhHHHHHHHHhccCcEEEEEcCCCC
Q 048213          169 GRARSLCNRLKKEKMILVILDNIWE  193 (532)
Q Consensus       169 ~~~~~l~~~l~~~k~~LlVlDdv~~  193 (532)
                      ..+..+.+......+++|++|+++.
T Consensus        87 ~~i~~if~~A~~~~p~il~iDEid~  111 (246)
T d1d2na_          87 QAMKKIFDDAYKSQLSCVVVDDIER  111 (246)
T ss_dssp             HHHHHHHHHHHTSSEEEEEECCHHH
T ss_pred             hhhhhhhhhhhhcccceeehhhhhh
Confidence            2233444444445679999999864

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.06  E-value=4.5e-06  Score=76.80  Aligned_cols=165  Identities=12%  Similarity=0.155  Sum_probs=91.4

Q ss_pred             ccccchHHHHHHHHHhc-------------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eecc---Cc
Q 048213          107 AFESRMSTFNDILNALK-------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEE---SE  167 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~---~~  167 (532)
                      .+.|-++.+++|.+.+.             -...+.|.++|++|.|||+||+++++.....  |-..-   +...   ..
T Consensus         8 di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~--~~~~~~~~l~~~~~~~~   85 (265)
T d1r7ra3           8 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN--FISIKGPELLTMWFGES   85 (265)
T ss_dssp             SCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCE--EEEECHHHHHTSCTTTH
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCc--EEEEEHHHhhhccccch
Confidence            45565555555554432             1235678899999999999999999976543  21110   0011   11


Q ss_pred             hhhHHHHHHHHhccCcEEEEEcCCCCcc--------c--------ccccccccCC--CCCCeEEEEeecChHHhh-hcC-
Q 048213          168 SGRARSLCNRLKKEKMILVILDNIWENL--------D--------FHAVGIPHGD--DHKGCKVLLTARSLDVLS-RKM-  227 (532)
Q Consensus       168 ~~~~~~l~~~l~~~k~~LlVlDdv~~~~--------~--------~~~l~~~~~~--~~~gs~ilvTtr~~~v~~-~~~-  227 (532)
                      ......+........+++|++||++...        .        ...+...+..  ..++--||.||....... ... 
T Consensus        86 ~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r  165 (265)
T d1r7ra3          86 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILR  165 (265)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGS
T ss_pred             HHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhC
Confidence            2233344443344578999999997431        1        1112111211  223445677877655331 111 


Q ss_pred             --CCCceEEccCCCHHHHHHHHHHHhCCCCCCcchHHHHHHHHHHcCCch
Q 048213          228 --DSQQDFWVGVLKEDEAWSLFKKMAGDYIEGSEFKWVAKDVAKKCAGLP  275 (532)
Q Consensus       228 --~~~~~~~l~~L~~~~~~~Lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  275 (532)
                        .-...+.++..+.++-.++|..+........+.  ...++++++.|+.
T Consensus       166 ~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~--~l~~la~~t~g~s  213 (265)
T d1r7ra3         166 PGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV--DLEFLAKMTNGFS  213 (265)
T ss_dssp             STTSEEEEECCCCCCHHHHHHHHHHTTCC----CC--CCHHHHHHHCSSC
T ss_pred             CCCccEEEEecchHHHHHHHHHHHHhccCCchhhh--hHHHHHhcCCCCC
Confidence              234578999999999999998776532221111  1356777777764

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.95  E-value=2e-06  Score=82.62  Aligned_cols=149  Identities=19%  Similarity=0.137  Sum_probs=93.8

Q ss_pred             HHhhhhcccccC-----CchhhhccccccEEEeccccccC--cc-------------cccccccccEEeecccccccc--
Q 048213          372 VVIDLTYMNLLS-----LPSSLGLLTNLQTLCLYYCKLQD--TS-------------VLGELKILEILRLRVNELTRA--  429 (532)
Q Consensus       372 ~~l~l~~~~l~~-----lp~~~~~l~~L~~L~l~~~~l~~--~~-------------~i~~l~~L~~L~l~~~~l~~~--  429 (532)
                      +.+++.+|.+..     +...+...++|+.|++++|.+..  ..             .....+.|+.|.+++|.+...  
T Consensus        96 ~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~i~~~~~  175 (344)
T d2ca6a1          96 HTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSM  175 (344)
T ss_dssp             CEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSCCTGGGH
T ss_pred             ccccccccccccccccchhhhhcccccchheecccccccccccccccccccccccccccccCcccceeeccccccccccc
Confidence            456777776644     34445667888888888886543  11             113456788888888876543  


Q ss_pred             --------ccCCcceEEeccccccCCC-----CCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          430 --------GSSQLKHLSVRGLRASAPN-----PTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       430 --------~l~~Lr~L~l~~~~~~~~~-----~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                              ..+.|+.|++++|.+ ...     ....+...++|+.|+|++|.++......+.......++|++|+|++|.
T Consensus       176 ~~l~~~l~~~~~L~~L~L~~n~i-~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~  254 (344)
T d2ca6a1         176 KEWAKTFQSHRLLHTVKMVQNGI-RPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCL  254 (344)
T ss_dssp             HHHHHHHHHCTTCCEEECCSSCC-CHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCC
T ss_pred             ccccchhhhhhhhcccccccccc-cccccccchhhhhcchhhhcccccccccccccccccccccccccccchhhhhhcCc
Confidence                    467899999998865 111     223466788999999999876432111111111456889999999876


Q ss_pred             CCCccchhhhh---h--cCCCccEEEeecCC
Q 048213          497 NLTCLFTSSII---S--SFVGLQCLEICECP  522 (532)
Q Consensus       497 ~l~~l~p~~~~---~--~L~~L~~L~l~~c~  522 (532)
                       ++.-....++   .  ..++|++|+|++|.
T Consensus       255 -i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~  284 (344)
T d2ca6a1         255 -LSARGAAAVVDAFSKLENIGLQTLRLQYNE  284 (344)
T ss_dssp             -CCHHHHHHHHHHHHTCSSCCCCEEECCSSC
T ss_pred             -cCchhhHHHHHHhhhccCCCCCEEECCCCc
Confidence             5432122221   1  23579999999875

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.92  E-value=1.7e-06  Score=83.17  Aligned_cols=131  Identities=14%  Similarity=0.068  Sum_probs=91.3

Q ss_pred             ccccccEEEeccccccC------cccccccccccEEeecccccccc-----------ccCCcceEEeccccccCC----C
Q 048213          390 LLTNLQTLCLYYCKLQD------TSVLGELKILEILRLRVNELTRA-----------GSSQLKHLSVRGLRASAP----N  448 (532)
Q Consensus       390 ~l~~L~~L~l~~~~l~~------~~~i~~l~~L~~L~l~~~~l~~~-----------~l~~Lr~L~l~~~~~~~~----~  448 (532)
                      ..+.|+.+.+++|.+.+      ...+..++.|+.|++++|++...           .+++|++|+|++|.+ ..    .
T Consensus       156 ~~~~L~~l~l~~n~i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i-~~~g~~~  234 (344)
T d2ca6a1         156 NAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTF-THLGSSA  234 (344)
T ss_dssp             TCCCCCEEECCSSCCTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCC-HHHHHHH
T ss_pred             cCcccceeecccccccccccccccchhhhhhhhcccccccccccccccccchhhhhcchhhhcccccccccc-ccccccc
Confidence            45688999999988765      23467788999999999987642           568899999999965 11    1


Q ss_pred             CCcccccCCCCCEEecCCccccccccccccccc--ccCCCccEEEeccCCCCCccc----hhhhhhcCCCccEEEeecCC
Q 048213          449 PTESEVALPKLETVCLSSINIERIWQNQVAAMS--CGIQNLKRLILFNCWNLTCLF----TSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       449 ~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~--~~L~~L~~L~L~~c~~l~~l~----p~~~~~~L~~L~~L~l~~c~  522 (532)
                      ....+...++|++|+|++|.|..-.-..+....  ...+.|++|+|++|. ++.-.    ...+..++++|++|+|+++.
T Consensus       235 L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~-i~~~~~~~l~~~l~~~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         235 LAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNE-IELDAVRTLKTVIDEKMPDLLFLELNGNR  313 (344)
T ss_dssp             HHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSC-CBHHHHHHHHHHHHHHCTTCCEEECTTSB
T ss_pred             ccccccccccchhhhhhcCccCchhhHHHHHHhhhccCCCCCEEECCCCc-CChHHHHHHHHHHHccCCCCCEEECCCCc
Confidence            234567889999999999987642211111000  123679999999854 65421    23332368899999999865

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.92  E-value=3e-07  Score=78.24  Aligned_cols=83  Identities=17%  Similarity=0.088  Sum_probs=53.2

Q ss_pred             ccCCcceEEecccccc-CCCCCcccccCCCCCEEecCCcccccccccccccccccCCCccEEEeccCCCCCccchh----
Q 048213          430 GSSQLKHLSVRGLRAS-APNPTESEVALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCWNLTCLFTS----  504 (532)
Q Consensus       430 ~l~~Lr~L~l~~~~~~-~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~~l~~l~p~----  504 (532)
                      .+++|++|+|++|+.. +...+..+..+++|++|+|++|.|+.+++-..    .+..+|+.|++++++-.... ..    
T Consensus        63 ~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~----l~~~~L~~L~L~~Npl~~~~-~~~~~y  137 (162)
T d1koha1          63 NIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDK----IKGLKLEELWLDGNSLSDTF-RDQSTY  137 (162)
T ss_dssp             HCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHH----HTTCCCSSCCCTTSTTSSSS-SSHHHH
T ss_pred             hCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCccccchhhhh----hhccccceeecCCCCcCcCc-ccchhH
Confidence            4667777777777651 11123446678899999999998888766321    23457888999886533222 21    


Q ss_pred             --hhhhcCCCccEEE
Q 048213          505 --SIISSFVGLQCLE  517 (532)
Q Consensus       505 --~~~~~L~~L~~L~  517 (532)
                        .++..+|+|++|+
T Consensus       138 ~~~i~~~~P~L~~LD  152 (162)
T d1koha1         138 ISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHHHTTSTTCCEET
T ss_pred             HHHHHHHCCCCCEEC
Confidence              2235688888876

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.70  E-value=5.5e-05  Score=66.75  Aligned_cols=121  Identities=14%  Similarity=0.104  Sum_probs=70.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCch---------hhHHHHHHHHhccCcEEEEEcCCCCc---c
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESES---------GRARSLCNRLKKEKMILVILDNIWEN---L  195 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~---------~~~~~l~~~l~~~k~~LlVlDdv~~~---~  195 (532)
                      ..+.|+|+.|+|||.|++++++....+. ............         .....+.+.+.  .--+|++||+...   .
T Consensus        37 n~l~l~G~~G~GKTHLl~A~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~dll~iDDi~~i~~~~  113 (213)
T d1l8qa2          37 NPIFIYGSVGTGKTHLLQAAGNEAKKRG-YRVIYSSADDFAQAMVEHLKKGTINEFRNMYK--SVDLLLLDDVQFLSGKE  113 (213)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHHHHHTT-CCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHH--TCSEEEEECGGGGTTCH
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHhccCc-cceEEechHHHHHHHHHHHHccchhhHHHHHh--hccchhhhhhhhhcCch
Confidence            4588999999999999999999876543 222221111110         11223334444  3468999999754   3


Q ss_pred             cccccc-cccCC-CCCCeEEEEeecChHHhh--------hcCCCCceEEccCCCHHHHHHHHHHHhC
Q 048213          196 DFHAVG-IPHGD-DHKGCKVLLTARSLDVLS--------RKMDSQQDFWVGVLKEDEAWSLFKKMAG  252 (532)
Q Consensus       196 ~~~~l~-~~~~~-~~~gs~ilvTtr~~~v~~--------~~~~~~~~~~l~~L~~~~~~~Lf~~~~~  252 (532)
                      .|+... ..+.. ...|.+||+||+.....-        .......++.++ ++.++-.+++.+.+-
T Consensus       114 ~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~  179 (213)
T d1l8qa2         114 RTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLK  179 (213)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHHH
Confidence            444321 11111 235778999999654321        012334567775 477777777777764

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.64  E-value=5.5e-06  Score=82.20  Aligned_cols=99  Identities=26%  Similarity=0.292  Sum_probs=69.1

Q ss_pred             HhhhhcccccC--CchhhhccccccEEEeccccccC------cccccccccccEEeecccccccc-----------ccCC
Q 048213          373 VIDLTYMNLLS--LPSSLGLLTNLQTLCLYYCKLQD------TSVLGELKILEILRLRVNELTRA-----------GSSQ  433 (532)
Q Consensus       373 ~l~l~~~~l~~--lp~~~~~l~~L~~L~l~~~~l~~------~~~i~~l~~L~~L~l~~~~l~~~-----------~l~~  433 (532)
                      .+++++++++.  +..-+..+++++.|++.+|.+.+      ...+..+++|++|+|++|.++..           ...+
T Consensus         6 ~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~   85 (460)
T d1z7xw1           6 SLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCK   85 (460)
T ss_dssp             EEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCC
T ss_pred             EEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcCChHHHHHHHHHHhcCCCC
Confidence            45677777754  23345677888899999998765      23457788899999998877532           2347


Q ss_pred             cceEEeccccccCCC----CCcccccCCCCCEEecCCcccccc
Q 048213          434 LKHLSVRGLRASAPN----PTESEVALPKLETVCLSSINIERI  472 (532)
Q Consensus       434 Lr~L~l~~~~~~~~~----~~~~~~~l~~L~~L~L~~~~l~~l  472 (532)
                      |++|+|++|.. ...    .+..+..+++|++|+|++|.+...
T Consensus        86 L~~L~L~~n~i-t~~~~~~l~~~l~~~~~L~~L~L~~N~i~~~  127 (460)
T d1z7xw1          86 IQKLSLQNCCL-TGAGCGVLSSTLRTLPTLQELHLSDNLLGDA  127 (460)
T ss_dssp             CCEEECTTSCC-BGGGHHHHHHHTTSCTTCCEEECCSSBCHHH
T ss_pred             CCEEECCCCCc-cccccccccchhhccccccccccccccchhh
Confidence            89999988865 222    233456778899999998877643

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.50  E-value=1.4e-05  Score=79.10  Aligned_cols=104  Identities=18%  Similarity=0.168  Sum_probs=61.3

Q ss_pred             ccccEEEeccccccC---cccccccccccEEeecccccccc----------ccCCcceEEeccccccCCC----CCcccc
Q 048213          392 TNLQTLCLYYCKLQD---TSVLGELKILEILRLRVNELTRA----------GSSQLKHLSVRGLRASAPN----PTESEV  454 (532)
Q Consensus       392 ~~L~~L~l~~~~l~~---~~~i~~l~~L~~L~l~~~~l~~~----------~l~~Lr~L~l~~~~~~~~~----~~~~~~  454 (532)
                      .+|+.|+++++++.+   ...+..++++++|+|++|+++..          .+++|++|+|++|.+ ...    ....+.
T Consensus         2 ~~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i-~~~~~~~l~~~l~   80 (460)
T d1z7xw1           2 LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNEL-GDVGVHCVLQGLQ   80 (460)
T ss_dssp             EEEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCC-HHHHHHHHHHTTC
T ss_pred             CCCCEEEeeCCcCChHHHHHHHHhCCCCCEEEeCCCCCCHHHHHHHHHHHhcCCCCCEEECcCCcC-ChHHHHHHHHHHh
Confidence            367888888888777   34466778888888888877643          456777777777654 111    111111


Q ss_pred             -cCCCCCEEecCCcccccccccccccccccCCCccEEEeccCC
Q 048213          455 -ALPKLETVCLSSINIERIWQNQVAAMSCGIQNLKRLILFNCW  496 (532)
Q Consensus       455 -~l~~L~~L~L~~~~l~~lp~~~~~~~~~~L~~L~~L~L~~c~  496 (532)
                       ...+|++|+|++|.++...-..++.....+++|++|+|++|.
T Consensus        81 ~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          81 TPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             cCCCCCCEEECCCCCccccccccccchhhcccccccccccccc
Confidence             223577777777766543222211111345677777777643

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.41  E-value=1.1e-05  Score=68.11  Aligned_cols=79  Identities=25%  Similarity=0.301  Sum_probs=40.1

Q ss_pred             cccccccEEeecccccccc--------ccCCcceEEeccccccCCCCCc-ccccCCCCCEEecCCcccccccccc---cc
Q 048213          411 GELKILEILRLRVNELTRA--------GSSQLKHLSVRGLRASAPNPTE-SEVALPKLETVCLSSINIERIWQNQ---VA  478 (532)
Q Consensus       411 ~~l~~L~~L~l~~~~l~~~--------~l~~Lr~L~l~~~~~~~~~~~~-~~~~l~~L~~L~L~~~~l~~lp~~~---~~  478 (532)
                      .++++|++|++++|+++.+        .+++|+.|++++|.+  ...+. .+....+|+.|++++|.+...+...   ..
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i--~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~  139 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNEL--KSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYIS  139 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCC--CCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHH
T ss_pred             HhCCCCCEeeCCCccccCCchhHHHHhhCCcccccccccCcc--ccchhhhhhhccccceeecCCCCcCcCcccchhHHH
Confidence            3455566666666655543        345666666666654  22211 2223345777777777665433210   00


Q ss_pred             cccccCCCccEEE
Q 048213          479 AMSCGIQNLKRLI  491 (532)
Q Consensus       479 ~~~~~L~~L~~L~  491 (532)
                      .....+++|++||
T Consensus       140 ~i~~~~P~L~~LD  152 (162)
T d1koha1         140 AIRERFPKLLRLD  152 (162)
T ss_dssp             HHHTTSTTCCEET
T ss_pred             HHHHHCCCCCEEC
Confidence            0113457777765

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.30  E-value=0.00045  Score=59.85  Aligned_cols=122  Identities=15%  Similarity=0.041  Sum_probs=72.7

Q ss_pred             HHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhc--cCCCCEEEEeccCc---hhhHHHHHHHHh----ccCcEEE
Q 048213          116 NDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAEN--EKLFDRVIFVEESE---SGRARSLCNRLK----KEKMILV  186 (532)
Q Consensus       116 ~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--~~~F~~~~~~~~~~---~~~~~~l~~~l~----~~k~~Ll  186 (532)
                      +-+-+++..+....+.++|++|+|||++|..+.+....  ..|-|.........   -+.+..+.+.+.    .+++-++
T Consensus         4 ~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~~~~~Kvi   83 (198)
T d2gnoa2           4 ETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYV   83 (198)
T ss_dssp             HHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEE
T ss_pred             HHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcccCCCEEE
Confidence            33444445677899999999999999999999875432  23445554333322   233444555553    2455689


Q ss_pred             EEcCCCCc--ccccccccccCCCCCCeEEEEeecChH-HhhhcCCCCceEEccC
Q 048213          187 ILDNIWEN--LDFHAVGIPHGDDHKGCKVLLTARSLD-VLSRKMDSQQDFWVGV  237 (532)
Q Consensus       187 VlDdv~~~--~~~~~l~~~~~~~~~gs~ilvTtr~~~-v~~~~~~~~~~~~l~~  237 (532)
                      |+|+++..  +.++++...+-.-..++.+|++|.+.. +..........+.+.+
T Consensus        84 IId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~  137 (198)
T d2gnoa2          84 IVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNV  137 (198)
T ss_dssp             EETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCC
T ss_pred             EEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCC
Confidence            99999865  455666554433345677776666644 3322222233555543

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.04  E-value=0.00031  Score=58.97  Aligned_cols=28  Identities=21%  Similarity=0.195  Sum_probs=24.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      .+|++|+|..|+|||||+.++.+....+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            4799999999999999999999876544

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=96.85  E-value=0.00027  Score=60.34  Aligned_cols=25  Identities=16%  Similarity=0.141  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++.|+|.|+.|+||||||+.+++..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999998864

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.82  E-value=0.00026  Score=58.96  Aligned_cols=25  Identities=20%  Similarity=0.214  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.|.+.|++|+||||+|+.++....
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            5688899999999999999998754

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.77  E-value=0.00037  Score=57.37  Aligned_cols=23  Identities=30%  Similarity=0.304  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ++|.|.|++|+||||+|+++...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999998654

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.75  E-value=0.00066  Score=57.34  Aligned_cols=65  Identities=23%  Similarity=0.181  Sum_probs=39.6

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEecc-CchhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEE-SESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~-~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      ..+..+|.++|++|+||||+|+.++....    +...-.+.. +.......+...|..+  ..+|+|+....
T Consensus        11 ~~~p~liil~G~pGsGKST~a~~l~~~~~----~~~i~~D~~~~~~~~~~~~~~~l~~g--~~vIiD~t~~~   76 (172)
T d1yj5a2          11 SPNPEVVVAVGFPGAGKSTFIQEHLVSAG----YVHVNRDTLGSWQRCVSSCQAALRQG--KRVVIDNTNPD   76 (172)
T ss_dssp             CSSCCEEEEECCTTSSHHHHHHHHTGGGT----CEEEEHHHHCSHHHHHHHHHHHHHTT--CCEEEESCCCS
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHhcC----CEEEchHHHHHHHHHHHHHHHHHHCC--CCceeeCcCCC
Confidence            35568999999999999999998865432    221111111 1223345556666643  45778876533

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.72  E-value=0.00084  Score=61.51  Aligned_cols=38  Identities=21%  Similarity=0.480  Sum_probs=31.3

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          115 FNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       115 ~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +..+.+.+..+..++|.+.|-||+||||+|..++....
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~lA   45 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLA   45 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            55666777788889999999999999999988876544

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.69  E-value=0.00093  Score=57.41  Aligned_cols=31  Identities=26%  Similarity=0.324  Sum_probs=26.0

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ..+.-+|+|.|.+|+||||||+.+.......
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~   49 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQTLREQ   49 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhccc
Confidence            4566789999999999999999998765543

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.69  E-value=0.00089  Score=62.40  Aligned_cols=46  Identities=20%  Similarity=0.174  Sum_probs=34.6

Q ss_pred             ccccchHHHHHHHHHhc--------------CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          107 AFESRMSTFNDILNALK--------------SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~--------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++|-++.++.+...+.              ....+.+.++||+|+|||.||+++++...
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccc
Confidence            45787777777765441              12457788999999999999999998754

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.69  E-value=0.00045  Score=58.05  Aligned_cols=24  Identities=29%  Similarity=0.414  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++|.|.|++|+||||+|+.+....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            578999999999999999998754

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.64  E-value=0.00059  Score=57.71  Aligned_cols=29  Identities=10%  Similarity=0.072  Sum_probs=24.5

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ...+|.|+|++|+||||+|+.++.....+
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~   33 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQ   33 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhc
Confidence            34788999999999999999999876543

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.63  E-value=0.00062  Score=58.69  Aligned_cols=29  Identities=17%  Similarity=0.154  Sum_probs=25.1

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+.+|.|+|++|+||||+|+.+++...
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHC
Confidence            35678999999999999999999988653

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=96.62  E-value=0.00047  Score=57.94  Aligned_cols=25  Identities=36%  Similarity=0.380  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.|.|.|++|+||||+|+.++....
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHC
Confidence            4578999999999999999987653

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.58  E-value=0.0005  Score=58.42  Aligned_cols=27  Identities=19%  Similarity=0.157  Sum_probs=23.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      +.|.|+|++|+|||||+++++......
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            578999999999999999999876543

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.57  E-value=0.0022  Score=59.62  Aligned_cols=88  Identities=16%  Similarity=0.264  Sum_probs=52.4

Q ss_pred             ccccchHHHHHHHHHhc-------C--CCceEEEEEccCCCchHHHHHHHHHHhhc-cCCCCEEE---Eecc-Cc-----
Q 048213          107 AFESRMSTFNDILNALK-------S--PDVNMLGIYGMGGIRKTTPAKEVAIKAEN-EKLFDRVI---FVEE-SE-----  167 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~-------~--~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~~~F~~~~---~~~~-~~-----  167 (532)
                      .++|-++.++.|...+.       +  ....++.++|+.|+|||.+|+.+++.... ...|-..-   +... ..     
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~~L~g  103 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIG  103 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC--
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhhhhhcC
Confidence            56688777777766553       1  12347889999999999999999886421 10111000   0000 00     


Q ss_pred             -------hhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          168 -------SGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       168 -------~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                             ......+.+.+.+..+.++++|++...
T Consensus       104 ~~~gyvG~~~~~~l~~~~~~~p~~Vvl~DEieK~  137 (315)
T d1qvra3         104 APPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKA  137 (315)
T ss_dssp             ------------CHHHHHHHCSSEEEEESSGGGS
T ss_pred             CCCCCcCcccCChHHHHHHhCCCcEEEEehHhhc
Confidence                   011234666666556799999999854

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.56  E-value=0.00093  Score=60.87  Aligned_cols=27  Identities=30%  Similarity=0.513  Sum_probs=23.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      +.|+|+|-||+||||+|..++.....+
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~   28 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAM   28 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhC
Confidence            789999999999999999988766543

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=96.55  E-value=0.001  Score=55.79  Aligned_cols=39  Identities=15%  Similarity=0.130  Sum_probs=22.3

Q ss_pred             ccccccEEEecccc-ccC------cccccccccccEEeeccccccc
Q 048213          390 LLTNLQTLCLYYCK-LQD------TSVLGELKILEILRLRVNELTR  428 (532)
Q Consensus       390 ~l~~L~~L~l~~~~-l~~------~~~i~~l~~L~~L~l~~~~l~~  428 (532)
                      +.++|+.|+++++. +..      ...+...+.|++|++++|.+..
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~   58 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISD   58 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccch
Confidence            34667777777643 433      1234555666677776665543

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=96.51  E-value=0.00048  Score=57.93  Aligned_cols=108  Identities=14%  Similarity=0.047  Sum_probs=62.2

Q ss_pred             ccccccEEeeccc-ccccc----------ccCCcceEEecccccc---CCCCCcccccCCCCCEEecCCccccccccccc
Q 048213          412 ELKILEILRLRVN-ELTRA----------GSSQLKHLSVRGLRAS---APNPTESEVALPKLETVCLSSINIERIWQNQV  477 (532)
Q Consensus       412 ~l~~L~~L~l~~~-~l~~~----------~l~~Lr~L~l~~~~~~---~~~~~~~~~~l~~L~~L~L~~~~l~~lp~~~~  477 (532)
                      +.+.|+.|+|+++ .+..-          ..+.|++|+|++|.+.   .......+...+.|++|+|++|.|..-.-..+
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCCcEEEeCCCCCCCHHHHHHHHHHHhhCCccceeeccccccchhHHHHHhhhhhhcccccceeeehhhcchHHHHHH
Confidence            4577888888764 34432          4567888888888651   11122244556788888888887663211111


Q ss_pred             ccccccCCCccEEEeccCCCCCccc-------hhhhhhcCCCccEEEeecC
Q 048213          478 AAMSCGIQNLKRLILFNCWNLTCLF-------TSSIISSFVGLQCLEICEC  521 (532)
Q Consensus       478 ~~~~~~L~~L~~L~L~~c~~l~~l~-------p~~~~~~L~~L~~L~l~~c  521 (532)
                      -.....-+.|+.|+|+++. ...+.       ...+ ..-++|+.|+++.+
T Consensus        93 ~~aL~~n~sL~~L~l~~n~-~~~~g~~~~~~l~~~L-~~n~sL~~l~l~~~  141 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQR-QSVLGNQVEMDMMMAI-EENESLLRVGISFA  141 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCS-SCCCCHHHHHHHHHHH-HHCSSCCEEECCCC
T ss_pred             HHHHHhCCcCCEEECCCCc-CCCccHHHHHHHHHHH-HhCCCccEeeCcCC
Confidence            1111334678888887642 22221       2222 45678888888765

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.50  E-value=0.0014  Score=57.02  Aligned_cols=27  Identities=15%  Similarity=0.107  Sum_probs=23.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +.+|.++|.+|+||||+|+++++....
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~   28 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNF   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            357899999999999999999976553

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.49  E-value=0.00088  Score=56.15  Aligned_cols=28  Identities=29%  Similarity=0.369  Sum_probs=24.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+++.|.|++|+||||+|+.+.....
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l~   31 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQLH   31 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4568999999999999999999988753

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.48  E-value=0.00083  Score=56.22  Aligned_cols=27  Identities=26%  Similarity=0.188  Sum_probs=24.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ++++|+|..|+|||||+.++....+.+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhC
Confidence            689999999999999999999876654

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.37  E-value=0.0023  Score=59.16  Aligned_cols=65  Identities=12%  Similarity=0.163  Sum_probs=41.6

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEe------ccCchhhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFV------EESESGRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~------~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                      .++.++|++|+|||.||+.++.....+..|-..-..      ..........+.+...  +.++|++|.++..
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~--~~~ilf~DEid~~  194 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAML--QHRVIVIDSLKNV  194 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHH--HCSEEEEECCTTT
T ss_pred             ceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHh--hccEEEeehhhhh
Confidence            345668999999999999999986543334322210      1122334555656555  3579999999753

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.37  E-value=0.00079  Score=56.36  Aligned_cols=25  Identities=20%  Similarity=0.185  Sum_probs=20.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhcc
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      |.++||+|+||||+|+.++......
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~   28 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVG   28 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4566999999999999999876543

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.37  E-value=0.00099  Score=57.46  Aligned_cols=27  Identities=19%  Similarity=0.230  Sum_probs=24.4

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +..++|.|.|++|+||||+|+.++...
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999999999998865

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.36  E-value=0.001  Score=56.49  Aligned_cols=26  Identities=15%  Similarity=0.247  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|.|+.|+||||+++.+......
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            68999999999999999999887543

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.32  E-value=0.001  Score=55.97  Aligned_cols=26  Identities=12%  Similarity=0.049  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .++|.|.|++|+||||+|+.+++...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            37899999999999999999988643

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.30  E-value=0.0018  Score=58.82  Aligned_cols=28  Identities=14%  Similarity=0.100  Sum_probs=24.2

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.++.|.++|++|+||||||+.+++...
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3457789999999999999999998764

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.30  E-value=0.00096  Score=55.61  Aligned_cols=24  Identities=25%  Similarity=0.271  Sum_probs=21.2

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhc
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      |.|+||+|+||||+|+.++.....
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            778899999999999999988643

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.30  E-value=0.0018  Score=59.63  Aligned_cols=31  Identities=26%  Similarity=0.223  Sum_probs=25.3

Q ss_pred             cCCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          123 KSPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       123 ~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .++..+++.+.|-||+||||+|..++.....
T Consensus         4 ~~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~   34 (296)
T d1ihua1           4 LQNIPPYLFFTGKGGVGKTSISCATAIRLAE   34 (296)
T ss_dssp             GSSCCSEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCcChHHHHHHHHHHHHHH
Confidence            3456789999999999999999988765543

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.27  E-value=0.0049  Score=57.26  Aligned_cols=87  Identities=17%  Similarity=0.176  Sum_probs=54.0

Q ss_pred             cccccchHHHHHHHHHhc---------CCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE---Eecc--------
Q 048213          106 EAFESRMSTFNDILNALK---------SPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI---FVEE--------  165 (532)
Q Consensus       106 ~~~~gR~~~~~~i~~~l~---------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~---~~~~--------  165 (532)
                      ..++|-++.++.+...+.         +....++.++|+.|+|||.||+.++.-....  |-..-   +...        
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~--~i~~d~s~~~~~~~~~~l~g   99 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIE--LLRFDMSEYMERHTVSRLIG   99 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCE--EEEEEGGGCSSSSCCSSSCC
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhccCC--eeEeccccccchhhhhhhcc
Confidence            356788888888776663         2234578899999999999999999864321  11000   1000        


Q ss_pred             ---Cch--hhHHHHHHHHhccCcEEEEEcCCCCc
Q 048213          166 ---SES--GRARSLCNRLKKEKMILVILDNIWEN  194 (532)
Q Consensus       166 ---~~~--~~~~~l~~~l~~~k~~LlVlDdv~~~  194 (532)
                         ...  .....+.+.+......++++|++...
T Consensus       100 ~~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa  133 (315)
T d1r6bx3         100 APPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  133 (315)
T ss_dssp             CCSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             cCCCccccccCChhhHHHHhCccchhhhcccccc
Confidence               000  11123445555567789999999854

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=96.25  E-value=0.0017  Score=59.77  Aligned_cols=26  Identities=31%  Similarity=0.551  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+.|+|.|-||+||||+|..++....
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA   27 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALA   27 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHH
Confidence            46788999999999999998876544

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=96.21  E-value=0.0015  Score=54.84  Aligned_cols=26  Identities=27%  Similarity=0.171  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ....|.|.|++|+||||+|+.+++..
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            34568999999999999999998864

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.19  E-value=0.0012  Score=55.60  Aligned_cols=26  Identities=23%  Similarity=0.175  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +.|.++|++|+||||+|+.+++....
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~   28 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGY   28 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCC
Confidence            35678899999999999999987653

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.18  E-value=0.00082  Score=57.70  Aligned_cols=27  Identities=19%  Similarity=0.074  Sum_probs=23.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..+|.++|++|+||||+|+.++.....
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~   45 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVC   45 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            468889999999999999999886543

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=96.18  E-value=0.0014  Score=54.85  Aligned_cols=40  Identities=8%  Similarity=0.013  Sum_probs=22.8

Q ss_pred             hccccccEEEeccc-cccC------cccccccccccEEeeccccccc
Q 048213          389 GLLTNLQTLCLYYC-KLQD------TSVLGELKILEILRLRVNELTR  428 (532)
Q Consensus       389 ~~l~~L~~L~l~~~-~l~~------~~~i~~l~~L~~L~l~~~~l~~  428 (532)
                      .+.+.|++|+++++ .+..      ...+...++|++|++++|.+..
T Consensus        14 ~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~   60 (166)
T d1io0a_          14 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSND   60 (166)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCH
T ss_pred             hcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcccH
Confidence            34567777777663 3433      1234456666677776665544

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.14  E-value=0.0013  Score=55.37  Aligned_cols=25  Identities=32%  Similarity=0.252  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++|.|.|++|+||||+|+.+.+..
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999997653

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.11  E-value=0.0015  Score=57.32  Aligned_cols=26  Identities=27%  Similarity=0.264  Sum_probs=23.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+||+|.||+|+||||+|+.++++..
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46999999999999999999999875

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.00  E-value=0.0019  Score=55.36  Aligned_cols=25  Identities=20%  Similarity=0.125  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +.+|.|.|++|+||||+|+.+++..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999865

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.99  E-value=0.0019  Score=54.38  Aligned_cols=23  Identities=30%  Similarity=0.345  Sum_probs=20.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      |+|+|+.|+|||||++.+.....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCC
Confidence            78999999999999999998654

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.87  E-value=0.0028  Score=53.66  Aligned_cols=24  Identities=17%  Similarity=0.274  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +.|.|+|++|+|||||++.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            578999999999999999998754

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=95.83  E-value=0.0029  Score=53.78  Aligned_cols=27  Identities=22%  Similarity=0.273  Sum_probs=23.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      ++|.|.|+.|+||||+|+.+......+
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            688999999999999999998876543

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.77  E-value=0.0028  Score=55.28  Aligned_cols=26  Identities=12%  Similarity=0.144  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +-+|+|.|..|+||||+|+.+.....
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            46899999999999999999987643

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=95.77  E-value=0.0026  Score=54.32  Aligned_cols=26  Identities=19%  Similarity=0.057  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +..|.|.|++|+||||+|+.+++...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHC
Confidence            45678999999999999999988764

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.57  E-value=0.015  Score=52.25  Aligned_cols=31  Identities=26%  Similarity=0.207  Sum_probs=25.7

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccCCC
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEKLF  157 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F  157 (532)
                      -+++-|+|..|+||||+|..++......+.+
T Consensus        60 g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~   90 (269)
T d1mo6a1          60 GRVIEIYGPESSGKTTVALHAVANAQAAGGV   90 (269)
T ss_dssp             SSEEEEECSSSSSHHHHHHHHHHHHHHTTCE
T ss_pred             ceeEEEecCCCcHHHHHHHHHHHHHhcCCCE
Confidence            4789999999999999998888776655444

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=95.56  E-value=0.0017  Score=54.30  Aligned_cols=109  Identities=15%  Similarity=0.010  Sum_probs=67.4

Q ss_pred             cccccccEEeeccc-ccccc----------ccCCcceEEeccccccCCC----CCcccccCCCCCEEecCCccccccccc
Q 048213          411 GELKILEILRLRVN-ELTRA----------GSSQLKHLSVRGLRASAPN----PTESEVALPKLETVCLSSINIERIWQN  475 (532)
Q Consensus       411 ~~l~~L~~L~l~~~-~l~~~----------~l~~Lr~L~l~~~~~~~~~----~~~~~~~l~~L~~L~L~~~~l~~lp~~  475 (532)
                      .+.++|++|+++++ .++.-          ..++|++|++++|.. ...    ....+...++|+.|++++|.+..-.-.
T Consensus        14 ~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l-~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~   92 (166)
T d1io0a_          14 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRS-NDPVAFALAEMLKVNNTLKSLNVESNFISGSGIL   92 (166)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCC-CHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHH
T ss_pred             hcCCCCcEEEcCCCCCCCHHHHHHHHHHHhcCCccCeeeccCCcc-cHHHHHHHHHHHhhcccchhhhhccccccchhHH
Confidence            45688999999873 45433          567899999998865 111    122445678899999998866422111


Q ss_pred             ccccccccCCCccEEEeccCC-CCCc-----cchhhhhhcCCCccEEEeecCC
Q 048213          476 QVAAMSCGIQNLKRLILFNCW-NLTC-----LFTSSIISSFVGLQCLEICECP  522 (532)
Q Consensus       476 ~~~~~~~~L~~L~~L~L~~c~-~l~~-----l~p~~~~~~L~~L~~L~l~~c~  522 (532)
                      .+.......++|+.++|..|. .++.     + ...+ ...++|++|+++.+.
T Consensus        93 ~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~L-a~~L-~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          93 ALVEALQSNTSLIELRIDNQSQPLGNNVEMEI-ANML-EKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHHHGGGGCSSCCEEECCCCSSCCCHHHHHHH-HHHH-HHCSSCCEEECCCSS
T ss_pred             HHHHHHHhCccccEEeeccCCCcCcHHHHHHH-HHHH-HhCCCcCEEeCcCCC
Confidence            111111455788887776543 3433     2 2223 577889999887654

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=95.55  E-value=0.0038  Score=53.54  Aligned_cols=27  Identities=19%  Similarity=0.206  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.++|.|.|++|+||||+|+.+++...
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~g   33 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKYG   33 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHTC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            347999999999999999999988643

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=95.51  E-value=0.0072  Score=52.09  Aligned_cols=28  Identities=21%  Similarity=0.347  Sum_probs=22.8

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++.+++.++|+.|+||||.+..++....
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~   31 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ   31 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4568999999999999988777776554

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=95.51  E-value=0.0037  Score=54.81  Aligned_cols=25  Identities=28%  Similarity=0.163  Sum_probs=22.3

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -+|+|-|++|+||||+|+.++....
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3688999999999999999998765

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=95.50  E-value=0.0078  Score=51.94  Aligned_cols=29  Identities=24%  Similarity=0.295  Sum_probs=23.2

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...+.||.++|+.|+||||.+..++....
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~   34 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFE   34 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34568999999999999987777776554

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.49  E-value=0.004  Score=53.12  Aligned_cols=26  Identities=27%  Similarity=0.259  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ++++| |+|++|+||||+|+.++....
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHHT
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHhC
Confidence            34555 789999999999999988653

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.49  E-value=0.0036  Score=52.86  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=21.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|.|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            377999999999999999988753

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=95.46  E-value=0.0045  Score=52.85  Aligned_cols=26  Identities=23%  Similarity=0.210  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ...|.|.|++|+||||+|+.++....
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~g   31 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHFE   31 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHBC
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHHC
Confidence            44567889999999999999998643

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=95.44  E-value=0.0073  Score=52.09  Aligned_cols=28  Identities=32%  Similarity=0.395  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +.+|+.++|+.|+||||.+..++.....
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~   36 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKG   36 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4578999999999999877777665543

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.43  E-value=0.0078  Score=52.14  Aligned_cols=31  Identities=19%  Similarity=0.159  Sum_probs=26.0

Q ss_pred             hcCCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          122 LKSPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       122 l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +......+|-+.|++|+||||+|+++.....
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l~   49 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQLV   49 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3456678999999999999999999987643

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.36  E-value=0.0038  Score=53.35  Aligned_cols=24  Identities=21%  Similarity=0.178  Sum_probs=21.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|+|+|++|+|||||++.+.....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            477999999999999999988654

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=95.35  E-value=0.036  Score=49.90  Aligned_cols=37  Identities=14%  Similarity=-0.070  Sum_probs=29.6

Q ss_pred             HHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          117 DILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       117 ~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++++.+. -..-..++|+|..|+|||+|+..+.+....
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~   69 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAY   69 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhh
Confidence            5677776 344478999999999999999999886543

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=95.34  E-value=0.0043  Score=52.49  Aligned_cols=24  Identities=25%  Similarity=0.292  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|.|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            477999999999999999998763

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.32  E-value=0.0044  Score=52.37  Aligned_cols=24  Identities=29%  Similarity=0.209  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|.|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
Confidence            478899999999999999998763

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.27  E-value=0.013  Score=51.69  Aligned_cols=28  Identities=18%  Similarity=0.081  Sum_probs=24.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .-.++.|+|.+|+|||++|.+++.+...
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~~~   52 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENACA   52 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            3479999999999999999999887543

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.26  E-value=0.0051  Score=52.08  Aligned_cols=24  Identities=13%  Similarity=0.198  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++|.|+|++|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            688999999999999999998764

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.24  E-value=0.0045  Score=52.71  Aligned_cols=25  Identities=24%  Similarity=0.194  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +.|.|+|++|+|||||++.+.+...
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCC
Confidence            4578999999999999999988754

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.22  E-value=0.013  Score=47.66  Aligned_cols=63  Identities=8%  Similarity=0.047  Sum_probs=36.5

Q ss_pred             EEEEccCCCchHHHHHHHHHHhhccC--------------CCCEEEEeccCchhhHHHHHHHHhccCcEEEEEcCCC
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAENEK--------------LFDRVIFVEESESGRARSLCNRLKKEKMILVILDNIW  192 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~~~~--------------~F~~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~  192 (532)
                      |.|+|.+|+|||||...+..+.....              .+....++...................-+++++|...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~   79 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND   79 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTC
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCCccccceeeEEEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecC
Confidence            67999999999999999876542111              0111114444444444455555554344566665543

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=95.21  E-value=0.01  Score=51.34  Aligned_cols=28  Identities=21%  Similarity=0.194  Sum_probs=22.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+.||.++|+.|+||||.+..++....
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~   36 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFV   36 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4567999999999999987767666554

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=95.20  E-value=0.018  Score=51.57  Aligned_cols=30  Identities=30%  Similarity=0.286  Sum_probs=25.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccCC
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEKL  156 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~  156 (532)
                      -+++-|+|++|+||||+|.+++......+.
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q~~g~   83 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQREGK   83 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTTC
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCC
Confidence            369999999999999999999887665443

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.14  E-value=0.009  Score=52.46  Aligned_cols=27  Identities=26%  Similarity=0.417  Sum_probs=22.2

Q ss_pred             ceEEEEE-ccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIY-GMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~-G~gGiGKTtLA~~v~~~~~~  153 (532)
                      .++|+|. |-||+||||+|..++.....
T Consensus         1 ~kvIav~s~KGGvGKTtia~nlA~~la~   28 (232)
T d1hyqa_           1 VRTITVASGKGGTGKTTITANLGVALAQ   28 (232)
T ss_dssp             CEEEEEEESSSCSCHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCChHHHHHHHHHHHHHh
Confidence            3788888 89999999999998876543

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=95.10  E-value=0.013  Score=54.31  Aligned_cols=38  Identities=21%  Similarity=0.353  Sum_probs=29.9

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          115 FNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       115 ~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..++++.+.  .++..+|+|.|++|+|||||..++.....
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~   76 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLT   76 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHh
Confidence            445555553  56789999999999999999999887543

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=95.06  E-value=0.0058  Score=52.09  Aligned_cols=23  Identities=30%  Similarity=0.281  Sum_probs=20.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVA  148 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~  148 (532)
                      ++-+|||.|+.|+||||+|..+-
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            35789999999999999998773

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=94.98  E-value=0.014  Score=54.05  Aligned_cols=39  Identities=23%  Similarity=0.306  Sum_probs=30.2

Q ss_pred             HHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          116 NDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       116 ~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      .++++.+.  .++..+|+|.|++|+|||||...+......+
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~   81 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIRE   81 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            44555444  5678999999999999999999988765543

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.97  E-value=0.0064  Score=51.18  Aligned_cols=24  Identities=21%  Similarity=0.043  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .|.|.|++|+||||+|+.++....
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            367899999999999999988754

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.96  E-value=0.0077  Score=50.77  Aligned_cols=23  Identities=22%  Similarity=0.231  Sum_probs=19.8

Q ss_pred             EEEEccCCCchHHHHHHHHHHhh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      |.|.|++|+||||+|+.++....
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g   27 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFH   27 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            55779999999999999988653

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.95  E-value=0.009  Score=49.56  Aligned_cols=22  Identities=14%  Similarity=0.194  Sum_probs=19.4

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |+|+|.+|+|||||...+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999988754

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.94  E-value=0.023  Score=50.87  Aligned_cols=35  Identities=20%  Similarity=0.364  Sum_probs=26.7

Q ss_pred             HHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          117 DILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       117 ~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +.++.+. -..-..++|+|..|+|||+|+..+.++.
T Consensus        57 raID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~   92 (276)
T d2jdid3          57 KVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNV   92 (276)
T ss_dssp             HHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eeeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHH
Confidence            4555555 2333569999999999999999998764

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=94.93  E-value=0.0072  Score=56.59  Aligned_cols=46  Identities=17%  Similarity=0.262  Sum_probs=34.2

Q ss_pred             cccccccchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHH
Q 048213          104 DYEAFESRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       104 ~~~~~~gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      +-..++|.+..+..+.-.....+..-|.+.|.+|+||||||+.+..
T Consensus         5 ~f~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            3457899988777655444333334688999999999999999875

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.91  E-value=0.011  Score=48.67  Aligned_cols=21  Identities=19%  Similarity=0.186  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+|+|.+|+|||+|+..+.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998764

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.84  E-value=0.013  Score=48.69  Aligned_cols=21  Identities=19%  Similarity=0.493  Sum_probs=18.6

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+++|.+|+|||||...+..+
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578999999999999988764

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=94.83  E-value=0.012  Score=50.86  Aligned_cols=29  Identities=21%  Similarity=0.184  Sum_probs=19.0

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      +....||.++|+.|+||||.+..++....
T Consensus         9 ~k~p~vi~lvGptGvGKTTTiAKLA~~~~   37 (211)
T d1j8yf2           9 DKIPYVIMLVGVQGTGKATTAGKLAYFYK   37 (211)
T ss_dssp             SSSSEEEEEECSCCC----HHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34578999999999999987766665554

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=94.82  E-value=0.033  Score=46.21  Aligned_cols=64  Identities=13%  Similarity=0.172  Sum_probs=36.6

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhcc----CCCCEE----------EEeccCchhhHHHHHHHHhccCcEEEEEcCC
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENE----KLFDRV----------IFVEESESGRARSLCNRLKKEKMILVILDNI  191 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~----~~F~~~----------~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv  191 (532)
                      --|.++|.+|+|||||...+.......    ..|+..          +++...................-+++|+|-.
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~i~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~   94 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSA   94 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCSCCEEEEEETTEEEEEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCcceeeeeeeEEEeccCCeeEeEeeccccccchhHHHHHhhccceeEEeeccc
Confidence            357899999999999999885532110    001111          1333334444455555666445567777644

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.80  E-value=0.015  Score=48.08  Aligned_cols=22  Identities=18%  Similarity=0.347  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.++|.+|+|||+|...+.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999998875

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.71  E-value=0.0076  Score=49.87  Aligned_cols=21  Identities=14%  Similarity=0.259  Sum_probs=18.8

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.64  E-value=0.013  Score=48.57  Aligned_cols=21  Identities=24%  Similarity=0.102  Sum_probs=19.0

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||...+.++
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988764

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.64  E-value=0.013  Score=48.67  Aligned_cols=22  Identities=23%  Similarity=0.306  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.|+|.+|+|||+|...+..+
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3779999999999999988764

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.57  E-value=0.02  Score=47.25  Aligned_cols=22  Identities=23%  Similarity=0.160  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|.+|+|||+|+..+.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999998764

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.56  E-value=0.016  Score=47.99  Aligned_cols=22  Identities=23%  Similarity=0.370  Sum_probs=19.3

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.++|.+|+|||+|...+....
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6799999999999999987653

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=94.52  E-value=0.018  Score=48.00  Aligned_cols=26  Identities=15%  Similarity=0.266  Sum_probs=20.5

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ..+++ |.++|.+|+|||||...+.+.
T Consensus        10 ~k~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          10 NKEMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             TCCEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             CCeEE-EEEECCCCCCHHHHHHHHhcC
Confidence            33445 669999999999999988653

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.52  E-value=0.016  Score=50.89  Aligned_cols=26  Identities=27%  Similarity=0.501  Sum_probs=21.7

Q ss_pred             eEEEEE-ccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIY-GMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~-G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ++|+|+ +-||+||||+|..++.....
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~   29 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGD   29 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHh
Confidence            688898 78999999999998776543

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.48  E-value=0.0073  Score=51.64  Aligned_cols=27  Identities=22%  Similarity=-0.016  Sum_probs=22.6

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ....+|+|-|..|+||||+|+.+.+..
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            345689999999999999999987643

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=94.47  E-value=0.038  Score=49.49  Aligned_cols=29  Identities=28%  Similarity=0.248  Sum_probs=24.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhccC
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENEK  155 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~~  155 (532)
                      -+++-|+|.+|+|||++|..++......+
T Consensus        57 g~itei~G~~~sGKT~l~l~~~~~aqk~g   85 (268)
T d1xp8a1          57 GRITEIYGPESGGKTTLALAIVAQAQKAG   85 (268)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTT
T ss_pred             ceEEEEecCCccchHHHHHHHHHHHHhCC
Confidence            47999999999999999999887765443

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=94.46  E-value=0.019  Score=50.24  Aligned_cols=24  Identities=17%  Similarity=0.041  Sum_probs=20.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.++.|.|.+|+|||++|.+++..
T Consensus        26 G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1          26 GRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            478999999999999999876543

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.43  E-value=0.018  Score=47.99  Aligned_cols=21  Identities=19%  Similarity=0.203  Sum_probs=18.8

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||+..+..+
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988754

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.42  E-value=0.017  Score=47.80  Aligned_cols=21  Identities=19%  Similarity=0.208  Sum_probs=18.4

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||+|+..+.+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCcCHHHHHHHHhCC
Confidence            678999999999999987653

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.42  E-value=0.014  Score=48.61  Aligned_cols=22  Identities=18%  Similarity=0.268  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.|+|.+|+|||||...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999998864

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=94.41  E-value=0.023  Score=47.10  Aligned_cols=23  Identities=17%  Similarity=0.294  Sum_probs=19.7

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|.++|.+|+|||||...+.++.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999987643

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.33  E-value=0.026  Score=47.54  Aligned_cols=21  Identities=29%  Similarity=0.153  Sum_probs=18.6

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.|+|.+|+|||||+..+.+.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            679999999999999988754

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.33  E-value=0.017  Score=47.89  Aligned_cols=21  Identities=14%  Similarity=0.167  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||+..+.+.
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998765

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.28  E-value=0.038  Score=45.47  Aligned_cols=21  Identities=24%  Similarity=0.430  Sum_probs=19.1

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||...+.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999998875

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.14  E-value=0.015  Score=50.11  Aligned_cols=24  Identities=8%  Similarity=0.090  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .++.|+|++|+|||||.+.+....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            678999999999999999998764

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.14  E-value=0.022  Score=50.62  Aligned_cols=45  Identities=20%  Similarity=0.211  Sum_probs=34.6

Q ss_pred             ccccchHHHHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          107 AFESRMSTFNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       107 ~~~gR~~~~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .|||....++++.+.+.  ...-.-|.|.|..|+|||++|+.+....
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            47888888888887776  2222346899999999999999997653

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.08  E-value=0.017  Score=47.99  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.1

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.++|..|+|||+|...+.++.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5688999999999999988753

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.08  E-value=0.014  Score=48.67  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.|+|.+|+|||+|...+.+.
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999988764

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.07  E-value=0.014  Score=48.51  Aligned_cols=21  Identities=19%  Similarity=0.128  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+|+|.+|+|||+|+..+.+.
T Consensus         9 i~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.06  E-value=0.0091  Score=54.02  Aligned_cols=26  Identities=12%  Similarity=0.141  Sum_probs=19.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +.++|+|.|.+|+||||+|+.+.+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            45799999999999999999876644

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=94.06  E-value=0.013  Score=51.54  Aligned_cols=25  Identities=24%  Similarity=0.217  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            3689999999999999999997643

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=94.05  E-value=0.016  Score=53.06  Aligned_cols=28  Identities=18%  Similarity=0.149  Sum_probs=23.9

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ..+-+|||.|..|+||||+|+.+.....
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~  105 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHh
Confidence            3467999999999999999999987653

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=94.02  E-value=0.026  Score=46.43  Aligned_cols=22  Identities=27%  Similarity=0.157  Sum_probs=18.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+++|.+|+|||||...+...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3678999999999999988664

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=93.99  E-value=0.017  Score=50.86  Aligned_cols=24  Identities=29%  Similarity=0.261  Sum_probs=21.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      ||+|.|+.|+|||||..++.+...
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh
Confidence            789999999999999999876543

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.99  E-value=0.0095  Score=49.43  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=18.8

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.|+|.+|+|||+|+..+..+
T Consensus         6 ivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.94  E-value=0.022  Score=46.92  Aligned_cols=21  Identities=14%  Similarity=0.124  Sum_probs=19.2

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||+..+.++
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999998875

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.91  E-value=0.013  Score=48.98  Aligned_cols=21  Identities=24%  Similarity=0.167  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||+..+.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998765

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.88  E-value=0.045  Score=47.08  Aligned_cols=33  Identities=9%  Similarity=0.130  Sum_probs=26.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      ..|+|-|+.|+||||+|+.+.+....++ ++...
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L~~~g-~~v~~   36 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEALCAAG-HRAEL   36 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTT-CCEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCC-CcEEE
Confidence            5789999999999999999988765542 44443

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.88  E-value=0.015  Score=50.87  Aligned_cols=25  Identities=20%  Similarity=0.135  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||.+.++.-.
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCC
Confidence            3689999999999999999987643

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.87  E-value=0.018  Score=50.85  Aligned_cols=26  Identities=23%  Similarity=0.095  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +++.|+|-|+-|+||||+++.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46889999999999999999998764

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.86  E-value=0.011  Score=50.71  Aligned_cols=25  Identities=32%  Similarity=0.340  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||.+.++.-.
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            3689999999999999999997644

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.86  E-value=0.02  Score=48.32  Aligned_cols=22  Identities=32%  Similarity=0.353  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.++|.+|+|||+|...+..+.
T Consensus         5 ivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            6799999999999999876554

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=93.82  E-value=0.013  Score=51.23  Aligned_cols=24  Identities=21%  Similarity=0.220  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.+++|+|+.|+|||||.+.++.-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCcchhhHhccCC
Confidence            368999999999999999988653

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=93.76  E-value=0.013  Score=51.48  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||++.++.-.
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCc
Confidence            3689999999999999999987643

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.74  E-value=0.014  Score=48.22  Aligned_cols=22  Identities=14%  Similarity=0.141  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.++|.+|+|||||...+...
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3779999999999999988764

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.72  E-value=0.014  Score=48.95  Aligned_cols=23  Identities=26%  Similarity=0.083  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|.|+|.+|+|||+|...+.++.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999887653

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.65  E-value=0.017  Score=50.67  Aligned_cols=25  Identities=28%  Similarity=0.248  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||.+.+..-.
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCC
Confidence            3689999999999999999987643

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=93.64  E-value=0.03  Score=48.31  Aligned_cols=27  Identities=15%  Similarity=0.106  Sum_probs=22.6

Q ss_pred             eEEEEEccC-CCchHHHHHHHHHHhhcc
Q 048213          128 NMLGIYGMG-GIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       128 ~vv~I~G~g-GiGKTtLA~~v~~~~~~~  154 (532)
                      +.+.|.|-| |+||||++..++.-...+
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~   29 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHC
Confidence            567899998 999999999988766554

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.63  E-value=0.07  Score=45.71  Aligned_cols=51  Identities=25%  Similarity=0.251  Sum_probs=32.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEE-eccCchhhHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIF-VEESESGRARSLCNRLK  179 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~-~~~~~~~~~~~l~~~l~  179 (532)
                      +.|+|-|+.|+||||++..+.+.....+ +....+ .........+.+++.+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~g-~~~~~~~~ep~~~~~g~~i~~~~~   54 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQLG-IRDMVFTREPGGTQLAEKLRSLLL   54 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTT-CCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhCC-CCeEEEecCCCCccchhhhHHHHh
Confidence            5789999999999999999988765432 332222 12222334455555554

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.60  E-value=0.015  Score=51.98  Aligned_cols=24  Identities=21%  Similarity=0.279  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.+++|+|+.|+|||||++.++.-
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcC
Confidence            369999999999999999999753

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=93.58  E-value=0.017  Score=51.00  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ..++|+|..|+|||||++.+..-.
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            689999999999999999987643

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.55  E-value=0.03  Score=46.34  Aligned_cols=21  Identities=14%  Similarity=0.199  Sum_probs=18.7

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+++|..|+|||+|...+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988765

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.51  E-value=0.017  Score=51.37  Aligned_cols=25  Identities=20%  Similarity=0.137  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||++.+..-.
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            3689999999999999999987543

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=93.47  E-value=0.019  Score=50.30  Aligned_cols=24  Identities=17%  Similarity=0.072  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+++|+|+.|+|||||.+.++.-.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            478899999999999999998744

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=93.47  E-value=0.028  Score=48.95  Aligned_cols=26  Identities=19%  Similarity=0.190  Sum_probs=22.6

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ++++|..|.|.-|+|||||.+++.+.
T Consensus         1 ~~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           1 NPIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CCEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            35789999999999999999988764

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.46  E-value=0.024  Score=47.29  Aligned_cols=21  Identities=19%  Similarity=0.221  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||...+.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988764

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.34  E-value=0.04  Score=45.47  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=19.3

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.++|.+|+|||+|...+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5789999999999999988753

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.31  E-value=0.02  Score=50.93  Aligned_cols=26  Identities=19%  Similarity=0.091  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-..++|+|+.|+|||||++.+..-.
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhccc
Confidence            34789999999999999999987643

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=93.30  E-value=0.017  Score=50.38  Aligned_cols=25  Identities=24%  Similarity=0.038  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||.+.+..-.
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCc
Confidence            3689999999999999999998643

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=93.25  E-value=0.024  Score=48.13  Aligned_cols=27  Identities=7%  Similarity=0.160  Sum_probs=23.1

Q ss_pred             CCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          124 SPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       124 ~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .++.+.|+|+|.+|+|||||...+.+.
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHhcCC
Confidence            345678999999999999999999853

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.24  E-value=0.021  Score=51.64  Aligned_cols=26  Identities=27%  Similarity=0.179  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .-.+++|+|+.|+|||||++.++.-.
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCC
Confidence            34789999999999999999998643

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=93.24  E-value=0.022  Score=50.36  Aligned_cols=25  Identities=16%  Similarity=0.056  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-..++|+|+.|+|||||++.+..-
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3478999999999999999998753

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.22  E-value=0.018  Score=48.01  Aligned_cols=22  Identities=23%  Similarity=0.221  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+++|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4789999999999999998764

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=93.18  E-value=0.042  Score=51.57  Aligned_cols=29  Identities=21%  Similarity=0.015  Sum_probs=25.2

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ...+.+.++|++|+|||++|..+++....
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~~  180 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCGG  180 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            44578999999999999999999997654

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.18  E-value=0.028  Score=48.21  Aligned_cols=26  Identities=19%  Similarity=0.284  Sum_probs=22.2

Q ss_pred             EEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      .|+|-|+-|+||||+++.+.+....+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            58999999999999999998765443

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.17  E-value=0.036  Score=48.64  Aligned_cols=25  Identities=12%  Similarity=0.189  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -+++.|.|.+|+||||+|.+++...
T Consensus        34 G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          34 GSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            4799999999999999999887654

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.07  E-value=0.02  Score=48.62  Aligned_cols=22  Identities=18%  Similarity=0.140  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |+++|.+|+|||+|...+....
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999998887653

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.03  E-value=0.014  Score=51.37  Aligned_cols=25  Identities=16%  Similarity=0.070  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+.|+|-|+.|+||||+|+.+.+..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999887654

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.02  E-value=0.031  Score=50.47  Aligned_cols=26  Identities=12%  Similarity=-0.022  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+-+|||.|..|+||||||..+....
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L   51 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHL   51 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999886654

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.97  E-value=0.021  Score=47.90  Aligned_cols=22  Identities=18%  Similarity=0.083  Sum_probs=19.2

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.++|..|+|||+|+..+.+..
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999887753

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=92.93  E-value=0.095  Score=46.97  Aligned_cols=34  Identities=12%  Similarity=0.066  Sum_probs=26.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI  161 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~  161 (532)
                      .++.|.|.+|+|||++|..++.+......+...+
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~   69 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGL   69 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEE
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeE
Confidence            6888999999999999999887654444455544

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=92.87  E-value=0.025  Score=46.34  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=20.0

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|+|+|.+|+|||||...+.++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37799999999999999987753

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=92.82  E-value=0.026  Score=48.64  Aligned_cols=19  Identities=26%  Similarity=0.296  Sum_probs=17.7

Q ss_pred             EEEEEccCCCchHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEV  147 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v  147 (532)
                      +|||+|+.|+||||+|+.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999865

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=92.77  E-value=0.041  Score=45.79  Aligned_cols=31  Identities=23%  Similarity=0.142  Sum_probs=22.6

Q ss_pred             HHHhc-CCCceEEEEEccCCCchHHHHHHHHH
Q 048213          119 LNALK-SPDVNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       119 ~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      ++.+. ..+..-|+++|.+|+|||||...+..
T Consensus         4 ~~~~~~~~k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_           4 LQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             HHHHTCTTCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             HHhccccCCCCEEEEECCCCCCHHHHHHHHhC
Confidence            34444 33345577999999999999988754

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.75  E-value=0.032  Score=47.99  Aligned_cols=27  Identities=15%  Similarity=0.164  Sum_probs=23.1

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      -.++.|.|++|+|||++|.+++.+...
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~~~   49 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTCQL   49 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTS
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            379999999999999999998876543

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=92.70  E-value=0.048  Score=45.15  Aligned_cols=34  Identities=18%  Similarity=0.209  Sum_probs=25.4

Q ss_pred             HHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          116 NDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       116 ~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .++..++...+. -|.|+|.+|+|||||..++...
T Consensus         5 ~~~~~~~~~k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           5 TRIWRLFNHQEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHTTSCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHhCCCeE-EEEEECCCCCCHHHHHHHHhcC
Confidence            455655554454 5679999999999999988664

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=92.54  E-value=0.02  Score=50.35  Aligned_cols=24  Identities=33%  Similarity=0.286  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -.+++|+|+.|+|||||.+.+..-
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcC
Confidence            369999999999999999999864

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=92.51  E-value=0.027  Score=49.65  Aligned_cols=25  Identities=24%  Similarity=0.268  Sum_probs=22.0

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -.+++|+|+.|+|||||.+.++.-.
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3689999999999999999997644

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.49  E-value=0.043  Score=47.39  Aligned_cols=28  Identities=21%  Similarity=0.163  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      ..+.|+|-|+-|+||||+++.+.+....
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~   29 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQP   29 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHh
Confidence            3478999999999999999999887543

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.49  E-value=0.016  Score=49.02  Aligned_cols=22  Identities=27%  Similarity=0.182  Sum_probs=19.4

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |.|+|.+|+|||+|...+.++.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            7899999999999999987653

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=92.34  E-value=0.029  Score=49.33  Aligned_cols=26  Identities=23%  Similarity=0.395  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +-.+++|+|+.|+|||||.+.+..-.
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34799999999999999999987654

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=92.33  E-value=0.033  Score=47.80  Aligned_cols=20  Identities=35%  Similarity=0.317  Sum_probs=18.2

Q ss_pred             eEEEEEccCCCchHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEV  147 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v  147 (532)
                      -+|||.|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999876

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=92.31  E-value=0.029  Score=49.91  Aligned_cols=26  Identities=19%  Similarity=0.071  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -.+++|+|+.|+|||||++.++.-..
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            36899999999999999999976543

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=92.27  E-value=0.12  Score=41.90  Aligned_cols=30  Identities=20%  Similarity=0.134  Sum_probs=25.5

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      .+.-+|.+.|.=|+||||+++.+++...++
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            445689999999999999999999876554

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.26  E-value=0.048  Score=45.22  Aligned_cols=21  Identities=19%  Similarity=0.360  Sum_probs=18.7

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||...+.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999887764

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=92.13  E-value=0.042  Score=48.49  Aligned_cols=26  Identities=23%  Similarity=0.309  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      -+++.|.|++|+||||+|.+++....
T Consensus        36 G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          36 QAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            37999999999999999999887643

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=91.98  E-value=0.071  Score=50.05  Aligned_cols=26  Identities=23%  Similarity=0.158  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHh
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ....+..+|+.|+|||-||+.++...
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            45668899999999999999998754

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.92  E-value=0.11  Score=46.74  Aligned_cols=34  Identities=21%  Similarity=0.069  Sum_probs=25.2

Q ss_pred             HHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          117 DILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       117 ~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      +.++.+. =..-..++|+|.+|+|||+|+..+...
T Consensus        57 raID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          57 KAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             HHHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEecccCccCCCEEEeecCCCCChHHHHHHHHHh
Confidence            4455555 233467899999999999999877654

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=91.87  E-value=0.044  Score=45.28  Aligned_cols=21  Identities=19%  Similarity=0.159  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      .|+|+|.+|+|||||..++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            689999999999999999875

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.85  E-value=0.046  Score=46.70  Aligned_cols=23  Identities=17%  Similarity=0.030  Sum_probs=20.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      +.|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999764

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=91.82  E-value=0.069  Score=47.80  Aligned_cols=24  Identities=21%  Similarity=0.062  Sum_probs=19.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -..++|+|..|+|||+|+......
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~~   90 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTILN   90 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHT
T ss_pred             CceEeeccCCCCChHHHHHHHHhh
Confidence            356889999999999999876554

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=91.75  E-value=0.051  Score=47.74  Aligned_cols=23  Identities=17%  Similarity=0.170  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .+|+|.|..|+||||+|..+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            68999999999999999998764

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=91.71  E-value=0.041  Score=45.10  Aligned_cols=22  Identities=27%  Similarity=0.211  Sum_probs=18.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.|+|.+|+|||||...+.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3679999999999999987653

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=91.66  E-value=0.1  Score=47.99  Aligned_cols=86  Identities=20%  Similarity=0.133  Sum_probs=50.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-----------------EeccCchhhHHHHHHHHhccCcEEEEEcC
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-----------------FVEESESGRARSLCNRLKKEKMILVILDN  190 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-----------------~~~~~~~~~~~~l~~~l~~~k~~LlVlDd  190 (532)
                      +.|.|.|..|+||||+..++.......  -..+.                 ..........+.++..|.. ..=-||+..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~--~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR~-~pd~iivgE  243 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKE--ERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRM-RPDRIILGE  243 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTT--CCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTS-CCSEEEESC
T ss_pred             CCEEEEeeccccchHHHHHHhhhcccc--cceeeccchhhhhcccccccceeccccchhHHHHHHHHhcc-CCCcccCCc
Confidence            347899999999999999988643221  11111                 1111222344556666664 445588899


Q ss_pred             CCCcccccccccccCCCCCCeEEEEeecC
Q 048213          191 IWENLDFHAVGIPHGDDHKGCKVLLTARS  219 (532)
Q Consensus       191 v~~~~~~~~l~~~~~~~~~gs~ilvTtr~  219 (532)
                      +.+.+.|+.+. ....++.|  ++.|...
T Consensus       244 iR~~ea~~~l~-a~~tGh~g--~~tT~Ha  269 (323)
T d1g6oa_         244 LRSSEAYDFYN-VLCSGHKG--TLTTLHA  269 (323)
T ss_dssp             CCSTHHHHHHH-HHHTTCSC--EEEEECC
T ss_pred             cCchhHHHHHH-HHHhcCCc--EEEEECC
Confidence            98888776553 33333444  3444443

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=91.65  E-value=0.034  Score=48.70  Aligned_cols=23  Identities=26%  Similarity=0.248  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      -.+++|+|+.|+|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            36899999999999999998876

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=91.61  E-value=0.081  Score=47.37  Aligned_cols=27  Identities=19%  Similarity=0.167  Sum_probs=22.9

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      .+.|-|+|+|.+|.|||||+-++....
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            356889999999999999999886543

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=91.24  E-value=0.03  Score=49.75  Aligned_cols=24  Identities=21%  Similarity=0.160  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -..++|+|..|+|||||++.+..-
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhc
Confidence            368999999999999999987653

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.16  E-value=0.06  Score=46.01  Aligned_cols=23  Identities=13%  Similarity=-0.012  Sum_probs=20.4

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      +.|+|+|.+|+|||||..++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999998764

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.02  E-value=0.06  Score=43.56  Aligned_cols=22  Identities=23%  Similarity=0.149  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998764

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.93  E-value=0.056  Score=44.37  Aligned_cols=23  Identities=13%  Similarity=0.213  Sum_probs=19.8

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-|+|+|..|+|||||...+.++
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45788999999999999988764

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=90.84  E-value=0.062  Score=44.55  Aligned_cols=24  Identities=17%  Similarity=0.242  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      +..|+|+|.+|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            457899999999999999999864

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.83  E-value=0.058  Score=44.74  Aligned_cols=22  Identities=14%  Similarity=0.202  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999988764

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=90.79  E-value=0.064  Score=44.57  Aligned_cols=24  Identities=17%  Similarity=0.170  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ...|+|+|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            357999999999999999999864

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.66  E-value=0.06  Score=45.56  Aligned_cols=21  Identities=19%  Similarity=0.194  Sum_probs=19.0

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+|+|.+|+|||||...+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            779999999999999998864

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=90.56  E-value=0.047  Score=45.54  Aligned_cols=20  Identities=15%  Similarity=0.262  Sum_probs=18.4

Q ss_pred             EEEEccCCCchHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~  149 (532)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999864

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.40  E-value=0.079  Score=46.59  Aligned_cols=25  Identities=16%  Similarity=0.211  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -+++.|.|.+|+|||++|.+++...
T Consensus        37 G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          37 MAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             SEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4799999999999999999998754

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=90.31  E-value=0.082  Score=46.24  Aligned_cols=27  Identities=19%  Similarity=0.211  Sum_probs=23.3

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      -.++.|.|.+|+|||++|..++.+...
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~~~   60 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNLQN   60 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTC
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            379999999999999999999876543

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=90.25  E-value=0.087  Score=43.58  Aligned_cols=23  Identities=26%  Similarity=0.248  Sum_probs=19.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      +-|.|.|.+|+||||+|..+..+
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            56889999999999999987653

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=90.24  E-value=0.063  Score=44.70  Aligned_cols=22  Identities=18%  Similarity=0.120  Sum_probs=19.8

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .|+|+|.+|+|||||..++.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999764

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.22  E-value=0.07  Score=44.56  Aligned_cols=22  Identities=18%  Similarity=0.125  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|.|+|.+|+|||+|...+..+
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999988764

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=90.08  E-value=0.24  Score=43.95  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=20.4

Q ss_pred             ceEEEEEccCCCchHHHHHHHHH
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      .|.|+|+|..|.|||||+.++..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHHH
Confidence            47899999999999999998854

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=90.01  E-value=0.056  Score=45.20  Aligned_cols=21  Identities=24%  Similarity=0.332  Sum_probs=18.8

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      -|+|+|.+|+|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998754

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.97  E-value=0.082  Score=44.14  Aligned_cols=21  Identities=29%  Similarity=0.320  Sum_probs=18.9

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |+++|.+|+|||||+..+.+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999988764

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.89  E-value=0.08  Score=43.70  Aligned_cols=21  Identities=29%  Similarity=0.234  Sum_probs=18.3

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      -|.++|.+|+|||+|+..+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367999999999999998764

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.70  E-value=0.078  Score=44.76  Aligned_cols=19  Identities=26%  Similarity=0.307  Sum_probs=17.1

Q ss_pred             EEEEEccCCCchHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEV  147 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v  147 (532)
                      -|.++|.+|+|||||...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3679999999999999987

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=89.55  E-value=0.082  Score=43.76  Aligned_cols=22  Identities=23%  Similarity=0.157  Sum_probs=19.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      .-|.|.|.+|+||||+|..+..
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            5688999999999999998765

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=89.40  E-value=0.098  Score=42.98  Aligned_cols=23  Identities=30%  Similarity=0.257  Sum_probs=19.9

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-|.|.|.+|+||||+|..+..+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            56889999999999999887654

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.36  E-value=0.1  Score=43.92  Aligned_cols=21  Identities=33%  Similarity=0.347  Sum_probs=18.5

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||+|...+...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            679999999999999988655

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.28  E-value=0.16  Score=43.75  Aligned_cols=34  Identities=15%  Similarity=0.295  Sum_probs=25.9

Q ss_pred             HHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          115 FNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       115 ~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++.+.++|. +  ++.+++|.+|+|||||..++..+.
T Consensus        86 ~~~L~~~l~-~--kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLK-G--KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHS-S--SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhc-C--CeEEEECCCCCCHHHHHHhhcchh
Confidence            455666553 3  577899999999999999986543

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=89.20  E-value=0.098  Score=42.38  Aligned_cols=22  Identities=18%  Similarity=0.104  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+++|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999998753

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.05  E-value=0.053  Score=44.77  Aligned_cols=21  Identities=38%  Similarity=0.332  Sum_probs=17.1

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||+|...+.++
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999887654

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=88.99  E-value=0.13  Score=45.76  Aligned_cols=25  Identities=20%  Similarity=0.231  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE  152 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~  152 (532)
                      .+..|+|.+|+||||+|..++-...
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia   54 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIA   54 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            5788999999999999988876543

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.93  E-value=0.1  Score=43.31  Aligned_cols=23  Identities=17%  Similarity=0.215  Sum_probs=19.9

Q ss_pred             EEEEEccCCCchHHHHHHHHHHh
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      -|+++|.+|+|||||...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887653

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=88.92  E-value=0.11  Score=50.16  Aligned_cols=26  Identities=27%  Similarity=0.285  Sum_probs=22.7

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      +-|.++||.|+|||-||+.++.-..+
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~l~V   75 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKLANA   75 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             ccEEEECCCCCCHHHHHHHHHHHhCC
Confidence            56889999999999999999986543

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=88.92  E-value=0.074  Score=44.20  Aligned_cols=25  Identities=8%  Similarity=0.027  Sum_probs=21.2

Q ss_pred             CCceEEEEEccCCCchHHHHHHHHH
Q 048213          125 PDVNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       125 ~~~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      ++...|+|+|.+++|||||..++..
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhC
Confidence            4457799999999999999988754

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=88.91  E-value=0.098  Score=43.60  Aligned_cols=22  Identities=23%  Similarity=0.234  Sum_probs=19.6

Q ss_pred             EEEEEccCCCchHHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      -|+|+|..|+|||||..++.+.
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            4789999999999999998764

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=88.56  E-value=0.24  Score=42.69  Aligned_cols=95  Identities=19%  Similarity=0.170  Sum_probs=55.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhh-------------ccCCCCEEEEec---cCc-------hhhHHHHHHHHh-ccCc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAE-------------NEKLFDRVIFVE---ESE-------SGRARSLCNRLK-KEKM  183 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~-------------~~~~F~~~~~~~---~~~-------~~~~~~l~~~l~-~~k~  183 (532)
                      +++.|.|+...||||+.+.+.--.-             .-..|+......   .+.       ......+.+.+. .+++
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~~~~~~  115 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKEATEN  115 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHHHHCCTT
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHhccCCCC
Confidence            4789999999999999998764321             012355443111   111       112344445443 2588


Q ss_pred             EEEEEcCCCCccc-------ccccccccCCCCCCeEEEEeecChHHhh
Q 048213          184 ILVILDNIWENLD-------FHAVGIPHGDDHKGCKVLLTARSLDVLS  224 (532)
Q Consensus       184 ~LlVlDdv~~~~~-------~~~l~~~~~~~~~gs~ilvTtr~~~v~~  224 (532)
                      .|+++|.+.....       ...+...+  ...++.+++||....+..
T Consensus       116 sLvliDE~~~gT~~~eg~ala~aile~L--~~~~~~~i~tTH~~eL~~  161 (224)
T d1ewqa2         116 SLVLLDEVGRGTSSLDGVAIATAVAEAL--HERRAYTLFATHYFELTA  161 (224)
T ss_dssp             EEEEEESTTTTSCHHHHHHHHHHHHHHH--HHHTCEEEEECCCHHHHT
T ss_pred             cEEeecccccCcchhhhcchHHHHHHHH--hhcCcceEEeeechhhhh
Confidence            9999999975421       11111222  124678899999887753

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=88.53  E-value=0.082  Score=44.00  Aligned_cols=24  Identities=29%  Similarity=0.264  Sum_probs=19.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHH
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      .---|.++|.+|+|||||...+..
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhc
Confidence            334566999999999999988743

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.84  E-value=0.14  Score=44.11  Aligned_cols=23  Identities=30%  Similarity=0.339  Sum_probs=19.2

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      .-|.++|.+|+|||||...+...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            34789999999999999887544

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.76  E-value=0.081  Score=43.69  Aligned_cols=21  Identities=24%  Similarity=0.203  Sum_probs=8.3

Q ss_pred             EEEEccCCCchHHHHHHHHHH
Q 048213          130 LGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~  150 (532)
                      |.++|.+|+|||||...+..+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999877653

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=87.50  E-value=0.25  Score=43.62  Aligned_cols=37  Identities=19%  Similarity=0.359  Sum_probs=26.6

Q ss_pred             HHHHHHHhc--CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          115 FNDILNALK--SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       115 ~~~i~~~l~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +.++...+.  ....-.|.|+|..|+|||||...++.+.
T Consensus        18 l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          18 LLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            344444444  2344568899999999999999998753

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=87.49  E-value=0.062  Score=43.63  Aligned_cols=22  Identities=18%  Similarity=0.185  Sum_probs=19.8

Q ss_pred             EEEEccCCCchHHHHHHHHHHh
Q 048213          130 LGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       130 v~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      |+++|.+|+|||||..++....
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999988653

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=87.28  E-value=0.34  Score=39.97  Aligned_cols=21  Identities=38%  Similarity=0.370  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      .|+|+|..++|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999999864

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=87.21  E-value=0.79  Score=43.19  Aligned_cols=104  Identities=14%  Similarity=0.087  Sum_probs=58.8

Q ss_pred             cchHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEE-----------------EeccCchhhHH
Q 048213          110 SRMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVI-----------------FVEESESGRAR  172 (532)
Q Consensus       110 gR~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~-----------------~~~~~~~~~~~  172 (532)
                      |-....-+.++.+.......|.|.|+.|+||||....+.+..... . ..++                 ...........
T Consensus       141 G~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~~~-~-~~i~tiEdPiE~~~~~~~q~~v~~~~~~~~~~  218 (401)
T d1p9ra_         141 GMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELNSS-E-RNILTVEDPIEFDIDGIGQTQVNPRVDMTFAR  218 (401)
T ss_dssp             CCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHCCT-T-SCEEEEESSCCSCCSSSEEEECBGGGTBCHHH
T ss_pred             cccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhcCC-C-ceEEEeccCcccccCCCCeeeecCCcCCCHHH
Confidence            444433333444555666899999999999999888887754221 1 1122                 11112223456


Q ss_pred             HHHHHHhccCcEEEEEcCCCCcccccccccccCCCCCCeEEEEeecC
Q 048213          173 SLCNRLKKEKMILVILDNIWENLDFHAVGIPHGDDHKGCKVLLTARS  219 (532)
Q Consensus       173 ~l~~~l~~~k~~LlVlDdv~~~~~~~~l~~~~~~~~~gs~ilvTtr~  219 (532)
                      .++..|.. ..=.|++.++.+.+........   ...|-.|+.|-..
T Consensus       219 ~l~~~lR~-dPDvi~igEiRd~~ta~~a~~a---a~tGhlV~tTlHa  261 (401)
T d1p9ra_         219 GLRAILRQ-DPDVVMVGEIRDLETAQIAVQA---SLTGHLVMSTLHT  261 (401)
T ss_dssp             HHHHHGGG-CCSEEEESCCCSHHHHHHHHHH---HHTTCEEEEEECC
T ss_pred             HHHHHHhh-cCCEEEecCcCChHHHHHHHHH---HhcCCeEEEEecc
Confidence            67777775 4556788888877544332111   2345555555443

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=86.51  E-value=0.2  Score=46.06  Aligned_cols=28  Identities=25%  Similarity=0.292  Sum_probs=23.6

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHhhcc
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKAENE  154 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  154 (532)
                      +..|.|-|+-|+||||+++.+.+....+
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~   33 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGG   33 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCS
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccC
Confidence            4568889999999999999999876544

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=85.88  E-value=1.2  Score=38.32  Aligned_cols=97  Identities=19%  Similarity=0.112  Sum_probs=56.1

Q ss_pred             CceEEEEEccCCCchHHHHHHHHHHhhc-------------cCCCCEEEEec---cC-------chhhHHHHHHHHh-cc
Q 048213          126 DVNMLGIYGMGGIRKTTPAKEVAIKAEN-------------EKLFDRVIFVE---ES-------ESGRARSLCNRLK-KE  181 (532)
Q Consensus       126 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~-------------~~~F~~~~~~~---~~-------~~~~~~~l~~~l~-~~  181 (532)
                      +-+++.|.|+.+.||||+.+.+.--.--             -..||.+....   ++       .......+.+.+. .+
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~I~~~~~~~d~~~~~~S~F~~E~~~~~~il~~~~  119 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLASGRSTFMVEMTETANILHNAT  119 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCEEEEEEC-----------CHHHHHHHHHHHHHCC
T ss_pred             CceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccchhheeEEccCcccccchhHHHHHHHHHHHHHHhcc
Confidence            4578999999999999999998653211             12355444111   11       1112334444443 25


Q ss_pred             CcEEEEEcCCCCcccc-------cccccccCCCCCCeEEEEeecChHHh
Q 048213          182 KMILVILDNIWENLDF-------HAVGIPHGDDHKGCKVLLTARSLDVL  223 (532)
Q Consensus       182 k~~LlVlDdv~~~~~~-------~~l~~~~~~~~~gs~ilvTtr~~~v~  223 (532)
                      ++.|+++|.+.....-       .++...+. ...++.+++||....+.
T Consensus       120 ~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~-~~~~~~~i~tTH~~~l~  167 (234)
T d1wb9a2         120 EYSLVLMDEIGRGTSTYDGLSLAWACAENLA-NKIKALTLFATHYFELT  167 (234)
T ss_dssp             TTEEEEEESCCCCSSSSHHHHHHHHHHHHHH-HTTCCEEEEECSCGGGG
T ss_pred             cccEEeecccccCCChhhhhHHHHHhhhhhh-ccccceEEEecchHHHh
Confidence            7899999999754211       11111221 23467899999987665

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=85.30  E-value=0.23  Score=46.31  Aligned_cols=34  Identities=24%  Similarity=0.091  Sum_probs=23.5

Q ss_pred             HHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          114 TFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       114 ~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ....+...+.   -+++.|.|++|.||||++..+...
T Consensus       153 Q~~A~~~al~---~~~~vI~G~pGTGKTt~i~~~l~~  186 (359)
T d1w36d1         153 QKVAAAVALT---RRISVISGGPGTGKTTTVAKLLAA  186 (359)
T ss_dssp             HHHHHHHHHT---BSEEEEECCTTSTHHHHHHHHHHH
T ss_pred             HHHHHHHHHc---CCeEEEEcCCCCCceehHHHHHHH
Confidence            3444444442   368999999999999988665443

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=85.07  E-value=0.87  Score=38.34  Aligned_cols=21  Identities=24%  Similarity=0.186  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchHHHHHHHHH
Q 048213          129 MLGIYGMGGIRKTTPAKEVAI  149 (532)
Q Consensus       129 vv~I~G~gGiGKTtLA~~v~~  149 (532)
                      -|+|+|-.+.|||||+.++..
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~   25 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTY   25 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            389999999999999988753

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=84.87  E-value=0.66  Score=39.97  Aligned_cols=66  Identities=18%  Similarity=0.164  Sum_probs=44.0

Q ss_pred             chHHHHHHHHHhcCCCceEEEEEccCCCchHHHHHHHHHHhhccCCCCEEEEeccCchhhHHHHHHHHh
Q 048213          111 RMSTFNDILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIKAENEKLFDRVIFVEESESGRARSLCNRLK  179 (532)
Q Consensus       111 R~~~~~~i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~~~F~~~~~~~~~~~~~~~~l~~~l~  179 (532)
                      .....++|.+.+..+......|+|--|+|||-+|..+....-.. .+...+..  ....+..+..+.++
T Consensus        60 Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~-g~qv~~l~--Pt~~La~Q~~~~~~  125 (233)
T d2eyqa3          60 QAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDN-HKQVAVLV--PTTLLAQQHYDNFR  125 (233)
T ss_dssp             HHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHHHTT-TCEEEEEC--SSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHHHHc-CCceEEEc--cHHHhHHHHHHHHH
Confidence            45667788888888888899999999999999998877654322 23333322  33344455544444

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=84.75  E-value=0.28  Score=42.32  Aligned_cols=23  Identities=17%  Similarity=0.140  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCchHHHHHHHHHH
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      ++|+|+|..+.|||||+.++...
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHhh
Confidence            56999999999999999988664

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=83.28  E-value=0.47  Score=39.68  Aligned_cols=37  Identities=19%  Similarity=0.141  Sum_probs=28.2

Q ss_pred             HHHHHHHhc-CCCceEEEEEccCCCchHHHHHHHHHHh
Q 048213          115 FNDILNALK-SPDVNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       115 ~~~i~~~l~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +..+..+|. ...-..+.++|+++.|||++|..+.+-.
T Consensus        40 l~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          40 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            445555554 3456899999999999999999887754

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=82.29  E-value=0.33  Score=44.49  Aligned_cols=26  Identities=31%  Similarity=0.175  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHhhc
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKAEN  153 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~~~  153 (532)
                      -.|+|-|.-|+||||+++.+.+....
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            35889999999999999999886543

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.58  E-value=0.45  Score=42.36  Aligned_cols=32  Identities=25%  Similarity=0.297  Sum_probs=26.4

Q ss_pred             HHHHhcCCCceEEEEEccCCCchHHHHHHHHHH
Q 048213          118 ILNALKSPDVNMLGIYGMGGIRKTTPAKEVAIK  150 (532)
Q Consensus       118 i~~~l~~~~~~vv~I~G~gGiGKTtLA~~v~~~  150 (532)
                      +++.+ ++++.||+|+|+-+.|||+|+..++..
T Consensus        24 ~l~~~-~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          24 ILSAI-TQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHHTC-CSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHHcC-CCCEEEEEEECCCCCCHHHHHHHHcCC
Confidence            44433 567899999999999999999998864

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=81.56  E-value=0.19  Score=43.45  Aligned_cols=24  Identities=13%  Similarity=0.199  Sum_probs=19.0

Q ss_pred             eEEEEEccCCCchHHHHHHHHHHh
Q 048213          128 NMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       128 ~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      ++..++|.+|+|||||..++..+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            455689999999999999986543

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=81.06  E-value=0.35  Score=44.14  Aligned_cols=25  Identities=24%  Similarity=0.190  Sum_probs=20.2

Q ss_pred             ceEEEEEccCCCchHHHHHHHHHHh
Q 048213          127 VNMLGIYGMGGIRKTTPAKEVAIKA  151 (532)
Q Consensus       127 ~~vv~I~G~gGiGKTtLA~~v~~~~  151 (532)
                      +..|+|-|.-|+||||+++.+.+..
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC--
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHh
Confidence            3468999999999999999987543