Citrus Sinensis ID: 011624

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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-
Protein Sequence
MEAVQFSTVASRHYSATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTRETWGLINSKSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccHHcHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccccccccEEEHHHHHHHHHHHccccccccccccccEEEEEEccccccHHHHHHHHHHHHHHccccEEEEEcccccHHHHHHHHHHHHHccccEEcccccccHHHHHHHHHHHHHHccccEEEEEcccccHHHHHHHHHHHHHHHHccccEEEEEEEccccHHHHHHHHHHHHHccccEEEEEcccccccccHHHHHHHHccccEEEEEccccccccccccccHHHHHccccccHHHHHHHHHHHccHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHcccHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEccccccccccccccccEEccccccccccccccccccccccccccHHHHHHHHHHccccEEEEcccccccEHHHHccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcccccccccEHHHHHHHHHHHHHHHcccccccccccccccEEEEEEccccccHHHHHHHHHHHHHHccccEEEEEcccccHHHHHHHHHHHHHHcccEEEccccccHHHHHHHHHHHHHHccccEEEEEccccccccHHHHHHHHHHHHHHcccEEEEEEEHHHcHHHHHHHHHHHHHccccEEEEEccccccccHHHHHHHHHHcccEEEEEcccccccEEEccHHHHHHHHcccccHHHHHHHHHHHccHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHcccccccccHHHccccHHHHHHHHHHHHHccHHHHccHHHHcccHccc
Coil and Loop (DISEMBL)
meavqfstvasrhysatsktfynsrisagksakfvsswaassdparlsstsrnlftretwglinsksvtirRNGRRRLIVRAEMFGQLTSGLEAAWNKLkgeetltkenivEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGlirgvrpdqqLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQgkscmlvagdvyrpaAIDQLVILGeqvgvpvytagtevkpsqiAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILtkldgdsrggaALSVkevsgkpiklvgrgermedlepfypdrmagrilgmGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRvigmipgmgkitpAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR
Flexible Loop (DISEMBL)
meavqfstvasrhysatsktfynsrISAGKSAKFVSSwaassdparlsstsrnlftretwglinsksvtirrngrrrLIVRAEMFGQLTSGLEAAWNklkgeetltkenivepMRDIRRALLEADVSLPVVRRFVQAVSeqavgvglirgvrpdqqlvKIVRDELVKLMGGEVSELVFAKSRPTVILLAglqgvgkttVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQiakqgleeakkknvdvviVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAalsvkevsgkpiklvgrgermedlepfYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIgmipgmgkitpAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR
Low Complexity Region (SEG)
MEAVQFSTVASRHYSATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTRETWGLINSKSVTIrrngrrrlivrAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGifffsiiiiGLTFKR
Disordered region (IsUnstruct)
****************************************************NLFTRETWGLINSKSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVK*************KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS***AAL*V*******IKLVG*******LEPFYPDRMAGRILGMGDVLSFVE********************ANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTF**
Disordered Region (DISOPRED)
*******TVASRHYSATSK***********************************************************IVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVM***************NFDFNDFLKQTRTVARMGSMSRVIGMIPG****************KIMEAMIEAMTPGIFFFSII*IGL****
Disordered Region (DISEMBL)
**************SATSKTFYNSRISAGK*******************TSRNLFTRETWGLINSKSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR
Disordered Region (DISPRO)
*EAVQFSTVASRHY*ATS**********************************NLFTRETWGLINSKSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFF**III******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHii
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEAVQFSTVASRHYSATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTRETWGLINSKSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR
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	481	2.2.26 [Sep-21-2011]
P37107	564	Signal recognition partic	yes	no	0.950	0.810	0.809	0.0
Q55311	485	Signal recognition partic	yes	no	0.794	0.787	0.587	1e-128
P74214	482	Signal recognition partic	N/A	no	0.792	0.790	0.574	1e-124
P37105	446	Signal recognition partic	yes	no	0.790	0.852	0.494	1e-102
Q54431	516	Signal recognition partic	yes	no	0.790	0.736	0.476	1e-102
P0AGD7	453	Signal recognition partic	N/A	no	0.790	0.838	0.498	3e-99
P0AGD8	453	Signal recognition partic	yes	no	0.790	0.838	0.498	3e-99
P0AGD9	453	Signal recognition partic	N/A	no	0.790	0.838	0.498	3e-99
O33013	521	Signal recognition partic	yes	no	0.794	0.733	0.470	4e-94
P66844	525	Signal recognition partic	yes	no	0.794	0.727	0.480	5e-91

>sp|P37107|SR54C_ARATH Signal recognition particle 54 kDa protein, chloroplastic OS=Arabidopsis thaliana GN=FFC PE=1 SV=1

 Score =  738 bits (1906), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 377/466 (80%), Positives = 410/466 (87%), Gaps = 9/466 (1%)

Query: 1   MEAVQFSTVASRHYSATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTRETW 60
           MEA+QFS+V       T     N RI A  S+ F      + + A LSS SRNL TRE W
Sbjct: 1   MEALQFSSV--NRVPCTLSCTGNRRIKAAFSSAFT---GGTINSASLSS-SRNLSTREIW 54

Query: 61  GLINSKSVTIRRNGR-RRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRR 119
             + SK+V    +GR RR  VRAEMFGQLT GLEAAW+KLKGEE LTK+NI EPMRDIRR
Sbjct: 55  SWVKSKTVV--GHGRYRRSQVRAEMFGQLTGGLEAAWSKLKGEEVLTKDNIAEPMRDIRR 112

Query: 120 ALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFA 179
           ALLEADVSLPVVRRFVQ+VS+QAVG+G+IRGV+PDQQLVKIV DELVKLMGGEVSEL FA
Sbjct: 113 ALLEADVSLPVVRRFVQSVSDQAVGMGVIRGVKPDQQLVKIVHDELVKLMGGEVSELQFA 172

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV 239
           KS PTVILLAGLQGVGKTTV AKLA YLKKQGKSCML+AGDVYRPAAIDQLVILGEQVGV
Sbjct: 173 KSGPTVILLAGLQGVGKTTVCAKLACYLKKQGKSCMLIAGDVYRPAAIDQLVILGEQVGV 232

Query: 240 PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEV 299
           PVYTAGT+VKP+ IAKQGL+EAKK NVDVVI+DTAGRLQIDK MMDELKDVK+ LNPTEV
Sbjct: 233 PVYTAGTDVKPADIAKQGLKEAKKNNVDVVIMDTAGRLQIDKGMMDELKDVKKFLNPTEV 292

Query: 300 LLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE 359
           LLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE
Sbjct: 293 LLVVDAMTGQEAAALVTTFNVEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE 352

Query: 360 RMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQT 419
           RMEDLEPFYPDRMAGRILGMGDVLSFVEKA EVM+QEDAE++QKKIMSA FDFNDFLKQT
Sbjct: 353 RMEDLEPFYPDRMAGRILGMGDVLSFVEKATEVMRQEDAEDLQKKIMSAKFDFNDFLKQT 412

Query: 420 RTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           R VA+MGSM+RV+GMIPGMGK++PAQ+REAEK+L +MEAMIE MTP
Sbjct: 413 RAVAKMGSMTRVLGMIPGMGKVSPAQIREAEKNLLVMEAMIEVMTP 458

Involved in cotranslational and post-translational sorting of thylakoid proteins. Binds GTP specifically. Activates the GTPase activity of CPFTSY when bound together. Required for light-harvesting chlorophyll a/b-binding protein (LHCP) integration into thylakoids.
Arabidopsis thaliana (taxid: 3702)

>sp|Q55311|SRP54_SYNE7 Signal recognition particle protein OS=Synechococcus elongatus (strain PCC 7942) GN=ffh PE=3 SV=1

 Score =  458 bits (1178), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 225/383 (58%), Positives = 297/383 (77%), Gaps = 1/383 (0%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  L   LE AW KL+G++ +++ N+ E ++++RRALLEADV+L VV+ F+  V E+AV
Sbjct: 1   MFDALAERLEQAWTKLRGQDKISESNVQEALKEVRRALLEADVNLGVVKEFIAQVQEKAV 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  +I G+RPDQQ +K+V DELV++MG     L  A   PTVIL+AGLQG GKTT +AKL
Sbjct: 61  GTQVISGIRPDQQFIKVVYDELVQVMGETHVPLAQAAKAPTVILMAGLQGAGKTTATAKL 120

Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A +L+K+G+S +LVA DVYRPAAIDQL+ LG+Q+ VPV+  G++  P +IA+QG+E+A++
Sbjct: 121 ALHLRKEGRSTLLVATDVYRPAAIDQLITLGKQIDVPVFELGSDANPVEIARQGVEKARQ 180

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           + +D VIVDTAGRLQID  MM+EL  VK  + P EVLLVVD+M GQEAA+L  +F+  IG
Sbjct: 181 EGIDTVIVDTAGRLQIDTEMMEELAQVKEAIAPHEVLLVVDSMIGQEAASLTRSFHERIG 240

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           ITGAILTKLDGDSRGGAALS++ VSG+PIK VG GE++E L+PF+P+RMA RILGMGDVL
Sbjct: 241 ITGAILTKLDGDSRGGAALSIRRVSGQPIKFVGLGEKVEALQPFHPERMASRILGMGDVL 300

Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGM-GKIT 442
           + VEKAQE +   D E+MQ+KI++A FDF DFLKQ R +  MGS++  I +IPG+ GKI 
Sbjct: 301 TLVEKAQEEIDLADVEKMQEKILAAKFDFTDFLKQMRLLKNMGSLAGFIKLIPGLGGKIN 360

Query: 443 PAQVREAEKSLKIMEAMIEAMTP 465
             Q+R+ E+ LK +EAMI +MTP
Sbjct: 361 DEQLRQGERQLKRVEAMINSMTP 383

Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY.

Synechococcus elongatus (strain PCC 7942) (taxid: 1140)

>sp|P74214|SRP54_SYNY3 Signal recognition particle protein OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=ffh PE=3 SV=1

 Score =  447 bits (1149), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 219/381 (57%), Positives = 289/381 (75%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  L   LE AW KL+G++ +++ NI E ++++RRALL ADV+L VV+ F++ V ++A+
Sbjct: 1   MFDALADRLEDAWKKLRGQDKISESNIKEALQEVRRALLAADVNLQVVKGFIKDVEQKAL 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  +I GV P QQ +KIV DELV LMG     L  A+  PTVIL+AGLQG GKTT +AKL
Sbjct: 61  GADVISGVNPGQQFIKIVYDELVNLMGESNVPLAQAEQAPTVILMAGLQGTGKTTATAKL 120

Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A YL+KQ +S ++VA DVYRPAAIDQL  LG+Q+ VPV+  G++  P +IA+QG+E+AK+
Sbjct: 121 ALYLRKQKRSALMVATDVYRPAAIDQLKTLGQQIDVPVFDLGSDANPVEIARQGVEKAKE 180

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
             VD V++DTAGRLQID  MM EL ++K+V+ P + LLVVDAMTGQEAA L  TF+ +IG
Sbjct: 181 LGVDTVLIDTAGRLQIDPQMMAELAEIKQVVKPDDTLLVVDAMTGQEAANLTHTFHEQIG 240

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           ITGAILTKLDGD+RGGAALSV+++SG+PIK VG GE++E L+PFYPDR+A RIL MGDVL
Sbjct: 241 ITGAILTKLDGDTRGGAALSVRQISGQPIKFVGVGEKVEALQPFYPDRLASRILNMGDVL 300

Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
           + VEKAQE +   D E++Q KI+ A FDF+DF+KQ R +  MGS+  ++ MIPGM K++ 
Sbjct: 301 TLVEKAQEAIDVGDVEKLQNKILEATFDFDDFIKQMRFMKNMGSLGGLLKMIPGMNKLSS 360

Query: 444 AQVREAEKSLKIMEAMIEAMT 464
             + + EK LK  EAMI +MT
Sbjct: 361 GDIEKGEKELKRTEAMISSMT 381

Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY.

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

>sp|P37105|SRP54_BACSU Signal recognition particle protein OS=Bacillus subtilis (strain 168) GN=ffh PE=1 SV=1

 Score =  372 bits (955), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 189/382 (49%), Positives = 282/382 (73%), Gaps = 2/382 (0%)

Query: 85  FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVG 144
           F  L   L+   +K++G+  ++++++ E MR++R ALLEADV+  VV+ FV+ VSE+AVG
Sbjct: 3   FEGLADRLQQTISKIRGKGKVSEQDVKEMMREVRLALLEADVNFKVVKDFVKKVSERAVG 62

Query: 145 VGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLA 204
             +++ + P QQ++K+V++EL +LMGGE S++  AK  PTVI++ GLQG GKTT S KLA
Sbjct: 63  QDVMKSLTPGQQVIKVVQEELTELMGGEESKIAVAKRPPTVIMMVGLQGAGKTTTSGKLA 122

Query: 205 NYL-KKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           N L KK  +  MLVA D+YRPAAI QL  LG+Q+ +PV++ G +V P +IAKQ +E+AK+
Sbjct: 123 NLLRKKHNRKPMLVAADIYRPAAIKQLETLGKQLDMPVFSLGDQVSPVEIAKQAIEKAKE 182

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           ++ D VI+DTAGRL ID  +MDEL +VK + NP E+ LVVD+MTGQ+A  +  +FN ++G
Sbjct: 183 EHYDYVILDTAGRLHIDHELMDELTNVKEIANPEEIFLVVDSMTGQDAVNVAKSFNEQLG 242

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           +TG +LTKLDGD+RGGAALS++ V+  PIK  G GE+++ LEPF+P+RMA RILGMGDVL
Sbjct: 243 LTGVVLTKLDGDTRGGAALSIRAVTNTPIKFAGLGEKLDALEPFHPERMASRILGMGDVL 302

Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
           + +EKAQ  + ++ A+E+++K+ + +F  +DFL+Q   V  MG +  ++ M+PG GK+  
Sbjct: 303 TLIEKAQASVDEDKAKELEQKMRTMSFTLDDFLEQLGQVRNMGPLDELLQMMPGAGKMKG 362

Query: 444 AQ-VREAEKSLKIMEAMIEAMT 464
            + ++  EK L  +EA+I++MT
Sbjct: 363 LKNIQVDEKQLNHVEAIIKSMT 384

Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual components.

Bacillus subtilis (strain 168) (taxid: 224308)

>sp|Q54431|SRP54_STRMU Signal recognition particle protein OS=Streptococcus mutans serotype c (strain ATCC 700610 / UA159) GN=ffh PE=3 SV=3

 Score =  371 bits (953), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 183/384 (47%), Positives = 270/384 (70%), Gaps = 4/384 (1%)

Query: 85  FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVG 144
           F  LT  L+  +  L+G+  L+++++ E  ++IR ALLEADV+LPVV+ F++ V ++AVG
Sbjct: 3   FESLTERLQGVFKNLRGKRKLSEKDVQEVTKEIRLALLEADVALPVVKEFIKRVRKRAVG 62

Query: 145 VGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLA 204
             +I  + P QQ++KIV +EL  ++G E +E+  +   PT+I++ GLQG GKTT + KLA
Sbjct: 63  HEVIDTLDPSQQIIKIVNEELTAVLGSETAEIEKSSKIPTIIMMVGLQGAGKTTFAGKLA 122

Query: 205 NYL-KKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           N L K++    +++A D+YRPAAIDQL  LG+Q+ VPV+  GTE    +I  QGL +AK+
Sbjct: 123 NKLVKEENARPLMIAADIYRPAAIDQLKTLGQQINVPVFDMGTEHSAVEIVSQGLAQAKE 182

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
              D V++DTAGRLQID+ +M EL+D+K + NP E+LLVVD+M GQEAA +   FN ++ 
Sbjct: 183 NRNDYVLIDTAGRLQIDEKLMTELRDIKALANPNEILLVVDSMIGQEAANVAREFNQQLE 242

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           +TG ILTK+DGD+RGGAALSV++++GKPIK  G GE++ D+E F+PDRM+ RILGMGD+L
Sbjct: 243 VTGVILTKIDGDTRGGAALSVRQITGKPIKFTGTGEKITDIETFHPDRMSSRILGMGDLL 302

Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
           + +EKA +   ++ + E+ +K+   +FDFNDF++Q   V  MGSM  ++ MIPGM    P
Sbjct: 303 TLIEKASQDYDEQKSAELAEKMRENSFDFNDFIEQLDQVQNMGSMEDILKMIPGMAN-NP 361

Query: 444 --AQVREAEKSLKIMEAMIEAMTP 465
             A V+  E  +    A++ +MTP
Sbjct: 362 ALANVKVDEGEIARKRAIVSSMTP 385

Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY.

Streptococcus mutans (taxid: 1309)

>sp|P0AGD7|SRP54_ECOLI Signal recognition particle protein OS=Escherichia coli (strain K12) GN=ffh PE=1 SV=1

 Score =  362 bits (929), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 192/385 (49%), Positives = 257/385 (66%), Gaps = 5/385 (1%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  LT  L      + G   LT++N+ + +R++R ALLEADV+LPVVR F+  V E+AV
Sbjct: 1   MFDNLTDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAV 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  + + + P Q+ VKIVR+ELV  MG E   L  A   P V+L+AGLQG GKTT   KL
Sbjct: 61  GHEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKL 120

Query: 204 ANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
             +L+ K  K  ++V+ DVYRPAAI QL  L EQVGV  + +    KP  I    L+EAK
Sbjct: 121 GKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKEAK 180

Query: 263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
            K  DV++VDTAGRL +D+AMMDE+K V   +NP E L VVDAMTGQ+AA     FN  +
Sbjct: 181 LKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEAL 240

Query: 323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
            +TG +LTK+DGD+RGGAALS++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDV
Sbjct: 241 PLTGVVLTKVDGDARGGAALSIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDV 300

Query: 383 LSFVEKAQEVMQQEDAEEMQKKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI 441
           LS +E  +  + +  AE++  K+   + FD NDFL+Q R +  MG M+ ++G +PGMG+I
Sbjct: 301 LSLIEDIESKVDRAQAEKLASKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI 360

Query: 442 TPAQVREA--EKSLKIMEAMIEAMT 464
            P  V+    +K L  MEA+I +MT
Sbjct: 361 -PDNVKSQMDDKVLVRMEAIINSMT 384

Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual components.

Escherichia coli (strain K12) (taxid: 83333)

>sp|P0AGD8|SRP54_ECOL6 Signal recognition particle protein OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=ffh PE=3 SV=1

 Score =  362 bits (929), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 192/385 (49%), Positives = 257/385 (66%), Gaps = 5/385 (1%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  LT  L      + G   LT++N+ + +R++R ALLEADV+LPVVR F+  V E+AV
Sbjct: 1   MFDNLTDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAV 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  + + + P Q+ VKIVR+ELV  MG E   L  A   P V+L+AGLQG GKTT   KL
Sbjct: 61  GHEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKL 120

Query: 204 ANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
             +L+ K  K  ++V+ DVYRPAAI QL  L EQVGV  + +    KP  I    L+EAK
Sbjct: 121 GKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKEAK 180

Query: 263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
            K  DV++VDTAGRL +D+AMMDE+K V   +NP E L VVDAMTGQ+AA     FN  +
Sbjct: 181 LKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEAL 240

Query: 323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
            +TG +LTK+DGD+RGGAALS++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDV
Sbjct: 241 PLTGVVLTKVDGDARGGAALSIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDV 300

Query: 383 LSFVEKAQEVMQQEDAEEMQKKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI 441
           LS +E  +  + +  AE++  K+   + FD NDFL+Q R +  MG M+ ++G +PGMG+I
Sbjct: 301 LSLIEDIESKVDRAQAEKLASKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI 360

Query: 442 TPAQVREA--EKSLKIMEAMIEAMT 464
            P  V+    +K L  MEA+I +MT
Sbjct: 361 -PDNVKSQMDDKVLVRMEAIINSMT 384

Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual components.

Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) (taxid: 199310)

>sp|P0AGD9|SRP54_ECO57 Signal recognition particle protein OS=Escherichia coli O157:H7 GN=ffh PE=3 SV=1

 Score =  362 bits (929), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 192/385 (49%), Positives = 257/385 (66%), Gaps = 5/385 (1%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  LT  L      + G   LT++N+ + +R++R ALLEADV+LPVVR F+  V E+AV
Sbjct: 1   MFDNLTDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAV 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  + + + P Q+ VKIVR+ELV  MG E   L  A   P V+L+AGLQG GKTT   KL
Sbjct: 61  GHEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKL 120

Query: 204 ANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
             +L+ K  K  ++V+ DVYRPAAI QL  L EQVGV  + +    KP  I    L+EAK
Sbjct: 121 GKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKEAK 180

Query: 263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
            K  DV++VDTAGRL +D+AMMDE+K V   +NP E L VVDAMTGQ+AA     FN  +
Sbjct: 181 LKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEAL 240

Query: 323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
            +TG +LTK+DGD+RGGAALS++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDV
Sbjct: 241 PLTGVVLTKVDGDARGGAALSIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDV 300

Query: 383 LSFVEKAQEVMQQEDAEEMQKKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI 441
           LS +E  +  + +  AE++  K+   + FD NDFL+Q R +  MG M+ ++G +PGMG+I
Sbjct: 301 LSLIEDIESKVDRAQAEKLASKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI 360

Query: 442 TPAQVREA--EKSLKIMEAMIEAMT 464
            P  V+    +K L  MEA+I +MT
Sbjct: 361 -PDNVKSQMDDKVLVRMEAIINSMT 384

Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY. Interaction with FtsY leads to the transfer of the RNC complex to the Sec translocase for insertion into the membrane, the hydrolysis of GTP by both Ffh and FtsY, and the dissociation of the SRP-FtsY complex into the individual components.

Escherichia coli O157:H7 (taxid: 83334)

>sp|O33013|SRP54_MYCLE Signal recognition particle protein OS=Mycobacterium leprae (strain TN) GN=ffh PE=3 SV=1

 Score =  345 bits (885), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 183/389 (47%), Positives = 254/389 (65%), Gaps = 7/389 (1%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  L++ L      L+G+  LT  +I    R+IR AL EADVSLPVVR FV  + E+A 
Sbjct: 1   MFESLSNRLTGVIQGLRGKGRLTDADIEATTREIRLALFEADVSLPVVRAFVHRIKERAR 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  +   + P QQ+VKIV +EL+ ++GGE  +L FAK+ PTV++LAGLQG GKTT++ KL
Sbjct: 61  GTEVSAALNPAQQIVKIVNEELIGILGGETRQLAFAKTPPTVVMLAGLQGSGKTTLAGKL 120

Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQ-------IAKQ 256
           A  L++QG + +LVA D+ RPAA++QL ++GE+ GVPV+       P         +A  
Sbjct: 121 AVRLRRQGHTPLLVACDLQRPAAVNQLQVVGERAGVPVFAPHPGASPDSGPGDPVAVASA 180

Query: 257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVT 316
           GL EA+ K+ DVVIVDTAGRL ID  +M +   ++  +NP EVL V+DAM GQ+A     
Sbjct: 181 GLVEARAKHFDVVIVDTAGRLGIDDELMAQAGAIREAINPDEVLFVLDAMIGQDAVTTAA 240

Query: 317 TFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRI 376
            F   +G TG +LTKLDGD+RGGAALSV+EV+G PI     GE+++D + F+PDRMA RI
Sbjct: 241 AFGAGVGFTGVVLTKLDGDARGGAALSVREVTGVPILFATTGEKLDDFDVFHPDRMASRI 300

Query: 377 LGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIP 436
           LGMGDVLS +E+A++V   E AE    KI++      DFL+Q   V +MG +  ++GM+P
Sbjct: 301 LGMGDVLSLIEQAEQVFDAEQAEAAAAKIVAGELTLEDFLEQMLAVRKMGLIGNLLGMLP 360

Query: 437 GMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           G G++     +  +K L  ++A+I  MTP
Sbjct: 361 GAGQVKEVLEQVDDKQLDRLQAIIRGMTP 389

Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY.

Mycobacterium leprae (taxid: 1769)

>sp|P66844|SRP54_MYCTU Signal recognition particle protein OS=Mycobacterium tuberculosis GN=ffh PE=1 SV=1

 Score =  335 bits (859), Expect = 5e-91,   Method: Compositional matrix adjust.
 Identities = 187/389 (48%), Positives = 254/389 (65%), Gaps = 7/389 (1%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  L+  L AA   L+G+  LT  +I    R+IR ALLEADVSLPVVR F+  + E+A 
Sbjct: 1   MFESLSDRLTAALQGLRGKGRLTDADIDATTREIRLALLEADVSLPVVRAFIHRIKERAR 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  +   + P QQ+VKIV +EL+ ++GGE  EL FAK+ PTV++LAGLQG GKTT++ KL
Sbjct: 61  GAEVSSALNPAQQVVKIVNEELISILGGETRELAFAKTPPTVVMLAGLQGSGKTTLAGKL 120

Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQ-------IAKQ 256
           A  L+ QG + +LVA D+ RPAA++QL ++GE+ GVPV+       P         +A  
Sbjct: 121 AARLRGQGHTPLLVACDLQRPAAVNQLQVVGERAGVPVFAPHPGASPESGPGDPVAVAAA 180

Query: 257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVT 316
           GL EA+ K+ DVVIVDTAGRL ID+ +M +   ++  +NP EVL V+DAM GQ+A     
Sbjct: 181 GLAEARAKHFDVVIVDTAGRLGIDEELMAQAAAIRDAINPDEVLFVLDAMIGQDAVTTAA 240

Query: 317 TFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRI 376
            F   +G TG  LTKLDGD+RGGAALSV+EV+G PI     GE++ED + F+PDRMA RI
Sbjct: 241 AFGEGVGFTGVALTKLDGDARGGAALSVREVTGVPILFASTGEKLEDFDVFHPDRMASRI 300

Query: 377 LGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIP 436
           LGMGDVLS +E+A++V   + AEE   KI +      DFL+Q   V +MG +  ++GM+P
Sbjct: 301 LGMGDVLSLIEQAEQVFDAQQAEEAAAKIGAGELTLEDFLEQMLAVRKMGPIGNLLGMLP 360

Query: 437 GMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           G  ++  A     +K L  ++A+I  MTP
Sbjct: 361 GAAQMKDALAEVDDKQLDRVQAIIRGMTP 389

Involved in targeting and insertion of nascent membrane proteins into the cytoplasmic membrane. Binds to the hydrophobic signal sequence of the ribosome-nascent chain (RNC) as it emerges from the ribosomes. The SRP-RNC complex is then targeted to the cytoplasmic membrane where it interacts with the SRP receptor FtsY.

Mycobacterium tuberculosis (taxid: 1773)

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	481
359481606	567	PREDICTED: signal recognition particle 5	0.958	0.813	0.858	0.0
255578951	572	signal recognition particle protein, put	0.960	0.807	0.837	0.0
449451269	572	PREDICTED: signal recognition particle 5	0.962	0.809	0.840	0.0
224138482	576	predicted protein [Populus trichocarpa]	0.964	0.805	0.825	0.0
224088549	559	predicted protein [Populus trichocarpa]	0.966	0.831	0.823	0.0
440583671	731	similar to signal recognition particle 5	0.956	0.629	0.825	0.0
356572574	565	PREDICTED: signal recognition particle 5	0.943	0.803	0.814	0.0
356505382	565	PREDICTED: signal recognition particle 5	0.950	0.808	0.815	0.0
297810481	562	hypothetical protein ARALYDRAFT_487173 [	0.945	0.809	0.806	0.0
15237580	564	signal recognition particle subunit [Ara	0.950	0.810	0.809	0.0

>gi|359481606|ref|XP_002276439.2| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-like [Vitis vinifera] gi|297740127|emb|CBI30309.3| unnamed protein product [Vitis vinifera]

 Score =  785 bits (2027), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 399/465 (85%), Positives = 423/465 (90%), Gaps = 4/465 (0%)

Query: 1   MEAVQFSTVASRHYSATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTRETW 60
           MEAV FSTVASR +S+TS +    +  + +S     SW AS  P  LSS  RN FTRE W
Sbjct: 1   MEAVPFSTVASRPFSSTSPSLSTPKSLSRRSTNTRCSWTASKLPLPLSS--RNPFTREVW 58

Query: 61  GLINSKSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRA 120
            L+ SKSV++RR  +   ++RAEMFGQLTSGLEAAW KLKGEE LTKENIVEPMRDIRRA
Sbjct: 59  SLVKSKSVSVRR--QMPGVIRAEMFGQLTSGLEAAWTKLKGEEVLTKENIVEPMRDIRRA 116

Query: 121 LLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAK 180
           LLEADVSLPVVRRFVQAVSEQAVGVGLIRGV+PDQQLVKIV DELVKLMGGEVSELVFAK
Sbjct: 117 LLEADVSLPVVRRFVQAVSEQAVGVGLIRGVKPDQQLVKIVHDELVKLMGGEVSELVFAK 176

Query: 181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVP 240
           S PTVILLAGLQGVGKTTV AKLA YLKKQGKSCMLVAGDVYRPAAIDQLVILGEQV VP
Sbjct: 177 SGPTVILLAGLQGVGKTTVCAKLAFYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVDVP 236

Query: 241 VYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVL 300
           VYTAGTEVKPSQIAKQGLEEA+KKN+DVVIVDTAGRLQIDKAMMDELKDVKR +NPTEVL
Sbjct: 237 VYTAGTEVKPSQIAKQGLEEARKKNIDVVIVDTAGRLQIDKAMMDELKDVKRAINPTEVL 296

Query: 301 LVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER 360
           LVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER
Sbjct: 297 LVVDAMTGQEAAALVTTFNVEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER 356

Query: 361 MEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTR 420
           MEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVM+QEDAEE+QKKIMSA FDFNDFLKQTR
Sbjct: 357 MEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEELQKKIMSAKFDFNDFLKQTR 416

Query: 421 TVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
            VARMGSM+RV+GMIPGMGK+TPAQ+REAEKSLK+ME MIEAMTP
Sbjct: 417 AVARMGSMTRVLGMIPGMGKVTPAQIREAEKSLKMMEGMIEAMTP 461

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255578951|ref|XP_002530328.1| signal recognition particle protein, putative [Ricinus communis] gi|223530132|gb|EEF32044.1| signal recognition particle protein, putative [Ricinus communis]

 Score =  784 bits (2025), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 393/469 (83%), Positives = 423/469 (90%), Gaps = 7/469 (1%)

Query: 1   MEAVQFSTVASRHYSATSKTFYNS--RISAGKSAKFVSSWAASSDPARLSSTSRNLFTRE 58
           MEAVQ STVASRH+S TS T  N+   +      KF SSW   S     S +SRNLFTRE
Sbjct: 1   MEAVQLSTVASRHFSTTSLTLANTTTNLKLSNCNKFRSSWTGCSGTV-ASLSSRNLFTRE 59

Query: 59  TWGLINSKS--VTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRD 116
            W  +N KS  VT+RR+      V+AEMFGQLT+GLE+AW+KLKG ETLTKENI EPMRD
Sbjct: 60  IWRWVNCKSSVVTLRRDFHS--AVKAEMFGQLTTGLESAWSKLKGAETLTKENIAEPMRD 117

Query: 117 IRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSEL 176
           +RRALLEADVSLPVVRRFVQ+V+++A+GVGLIRGV+PDQQLVKIV DELVKLMGGEVSEL
Sbjct: 118 MRRALLEADVSLPVVRRFVQSVTDEAIGVGLIRGVKPDQQLVKIVHDELVKLMGGEVSEL 177

Query: 177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ 236
           VFAK  PTVILLAGLQGVGKTTV AKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ
Sbjct: 178 VFAKYSPTVILLAGLQGVGKTTVCAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ 237

Query: 237 VGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNP 296
           VGVPVYT GTEVKPS+IAK+GLEEAKKKN+DVVIVDTAGRLQIDK MMDELK+VKRVLNP
Sbjct: 238 VGVPVYTEGTEVKPSEIAKRGLEEAKKKNIDVVIVDTAGRLQIDKGMMDELKEVKRVLNP 297

Query: 297 TEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG 356
           TEVLLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG
Sbjct: 298 TEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG 357

Query: 357 RGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFL 416
           RGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVM+QEDAE++QKKIMSA FDFNDFL
Sbjct: 358 RGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDLQKKIMSAKFDFNDFL 417

Query: 417 KQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           KQTR VARMGSM+RVIGMIPGMGK+TPAQ+REAEKSLKIME+MIEAMTP
Sbjct: 418 KQTRAVARMGSMTRVIGMIPGMGKVTPAQIREAEKSLKIMESMIEAMTP 466

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449451269|ref|XP_004143384.1| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-like [Cucumis sativus] gi|449482550|ref|XP_004156318.1| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-like [Cucumis sativus]

 Score =  780 bits (2014), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 394/469 (84%), Positives = 427/469 (91%), Gaps = 6/469 (1%)

Query: 1   MEAVQFSTVASRHYSATSKTFYNSR-ISAGKSA--KFVSSWAASSDPARLSS-TSRNLFT 56
           ME +Q STVASRH ++ S++   SR +  G +   K  S  ++    + L S +SRNLFT
Sbjct: 1   MEGLQISTVASRHLTSNSQSHCASRGLCHGSNCARKTSSISSSWLGSSNLKSLSSRNLFT 60

Query: 57  RETWGLINSKSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRD 116
           RE WG +++K+V  RR+   R +VRAEMFGQLTSGLEAAWNKLKGEE L+KENIVEPMRD
Sbjct: 61  REIWGWLHAKTVNTRRD--MRGVVRAEMFGQLTSGLEAAWNKLKGEEVLSKENIVEPMRD 118

Query: 117 IRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSEL 176
           IRRALLEADVSLPVVRRFVQAVS+QAVGVG+IRGVRPDQQLVKIV DELVKLMGGEVSEL
Sbjct: 119 IRRALLEADVSLPVVRRFVQAVSDQAVGVGVIRGVRPDQQLVKIVHDELVKLMGGEVSEL 178

Query: 177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ 236
           VF+KS PTVILLAGLQGVGKTTV AKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ
Sbjct: 179 VFSKSGPTVILLAGLQGVGKTTVCAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ 238

Query: 237 VGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNP 296
           VGVPVYTAGTEVKPS IAKQGL+EA+K  VDVVIVDTAGRLQID+AMMDELK+VKRV+NP
Sbjct: 239 VGVPVYTAGTEVKPSDIAKQGLQEARKNKVDVVIVDTAGRLQIDRAMMDELKEVKRVINP 298

Query: 297 TEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG 356
           TEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG
Sbjct: 299 TEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG 358

Query: 357 RGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFL 416
           RGERM+DLEPFYPDRMAGRILGMGDVLSFVEKAQEVM+QEDAEE+QKKI+SA FDFNDFL
Sbjct: 359 RGERMDDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEELQKKILSAKFDFNDFL 418

Query: 417 KQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           KQTR VARMGSM+RVIGMIPGMGK+TPAQVREAEKSLKIME+MIEAMTP
Sbjct: 419 KQTRAVARMGSMTRVIGMIPGMGKVTPAQVREAEKSLKIMESMIEAMTP 467

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138482|ref|XP_002322825.1| predicted protein [Populus trichocarpa] gi|222867455|gb|EEF04586.1| predicted protein [Populus trichocarpa]

 Score =  776 bits (2005), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 389/471 (82%), Positives = 417/471 (88%), Gaps = 7/471 (1%)

Query: 1   MEAVQFSTVASRHYSATS-----KTF-YNSRISAGKSAKFVSSWAASSDPARLSSTSRNL 54
           MEAVQ STVASRH+S  S     KT  Y S      +  F SSW  SS+    S +SRN 
Sbjct: 1   MEAVQLSTVASRHFSTPSLSKNNKTLSYYSSCPGCSTKSFCSSWTGSSNNV-TSLSSRNS 59

Query: 55  FTRETWGLINSKSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPM 114
           FT+E W  +  KSV   R      +V+AEMFGQLTSGLE+AWNKLKGEE LTKENIVEPM
Sbjct: 60  FTKEMWRWVTCKSVVTFRREMGGGVVKAEMFGQLTSGLESAWNKLKGEEVLTKENIVEPM 119

Query: 115 RDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVS 174
           RDIRRALLEADVSLPVVRRFVQ+VS+QAVGVGL+RGV+PDQQLVKIV DELVKLMGGEVS
Sbjct: 120 RDIRRALLEADVSLPVVRRFVQSVSDQAVGVGLVRGVKPDQQLVKIVHDELVKLMGGEVS 179

Query: 175 ELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILG 234
           ELVFAKS PTVILLAGLQGVGKTTV AKLANYLKKQGKSCML+AGDVYRPAAIDQLVILG
Sbjct: 180 ELVFAKSAPTVILLAGLQGVGKTTVCAKLANYLKKQGKSCMLIAGDVYRPAAIDQLVILG 239

Query: 235 EQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL 294
           EQVGVPVYT GT+VKPS+IA++GL EAKKKN+DVVIVDTAGRLQIDK MMDELKDVK +L
Sbjct: 240 EQVGVPVYTEGTDVKPSEIARKGLSEAKKKNIDVVIVDTAGRLQIDKGMMDELKDVKLIL 299

Query: 295 NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKL 354
           NPTEVLLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKL
Sbjct: 300 NPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKL 359

Query: 355 VGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFND 414
           VGRGERMEDLEPFYP+RMAGRILGMGDVLSFVEKAQEVM+QEDAEE+QKKIMSANFDFND
Sbjct: 360 VGRGERMEDLEPFYPNRMAGRILGMGDVLSFVEKAQEVMRQEDAEELQKKIMSANFDFND 419

Query: 415 FLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           FLKQTR VA+MGSM+RVIGMIPGM K+TP QVREAEK+LKIMEAMIE MTP
Sbjct: 420 FLKQTRAVAKMGSMTRVIGMIPGMAKVTPGQVREAEKNLKIMEAMIEVMTP 470

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224088549|ref|XP_002308469.1| predicted protein [Populus trichocarpa] gi|222854445|gb|EEE91992.1| predicted protein [Populus trichocarpa]

 Score =  769 bits (1986), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 387/470 (82%), Positives = 415/470 (88%), Gaps = 5/470 (1%)

Query: 1   MEAVQFSTVASRHYSATS-----KTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLF 55
           MEAVQFSTVASRH+S  S     K+F      +  SA+   S    S     S +SRN F
Sbjct: 1   MEAVQFSTVASRHFSTPSFARNNKSFSYYSSCSRNSARSSCSSWTGSSNNVTSLSSRNSF 60

Query: 56  TRETWGLINSKSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMR 115
           TRE W  +N KSV          +++AEMFGQLTSGLE+AWNKLKGEE LTKENI EPMR
Sbjct: 61  TREIWRWVNCKSVVTLGREMGGGVIKAEMFGQLTSGLESAWNKLKGEEVLTKENIAEPMR 120

Query: 116 DIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSE 175
           DIRRALLEADVSLPVVRRFVQ+V +QAVGVGLIRGV+PDQQ VKIVRDELVKLMGGEVSE
Sbjct: 121 DIRRALLEADVSLPVVRRFVQSVGDQAVGVGLIRGVKPDQQFVKIVRDELVKLMGGEVSE 180

Query: 176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE 235
           LVFAKS PTVILLAGLQGVGKTT+ AKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE
Sbjct: 181 LVFAKSGPTVILLAGLQGVGKTTICAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE 240

Query: 236 QVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN 295
           QVGV VYT GT+VKPS+IA++GL EAKKKN+DVVIVDTAGRLQIDKAMMDELKDVKRVLN
Sbjct: 241 QVGVSVYTEGTDVKPSEIARKGLAEAKKKNIDVVIVDTAGRLQIDKAMMDELKDVKRVLN 300

Query: 296 PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLV 355
           PTEVLLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKE+SGKPIKLV
Sbjct: 301 PTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEISGKPIKLV 360

Query: 356 GRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDF 415
           GRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAE++QKKIMSANFDFNDF
Sbjct: 361 GRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEDLQKKIMSANFDFNDF 420

Query: 416 LKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           LKQTR VA+MGSM+RV+GMIPGM K+TPAQ+REAEKSLKIME MIEAMTP
Sbjct: 421 LKQTRAVAKMGSMTRVLGMIPGMAKVTPAQIREAEKSLKIMEGMIEAMTP 470

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|440583671|emb|CCH47177.1| similar to signal recognition particle 54 kDa protein [Lupinus angustifolius]

 Score =  761 bits (1964), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 388/470 (82%), Positives = 428/470 (91%), Gaps = 10/470 (2%)

Query: 1   MEAVQFSTVASRHYS---ATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTR 57
           MEA+ FSTVASRH+S   + ++TF +S  S  K  K  SSW  SS     SS+  NLFT 
Sbjct: 1   MEALHFSTVASRHFSISLSHNRTFSSSAYSTHKPTKLSSSWTGSS----FSSSRNNLFTN 56

Query: 58  ETWGLINSKSVTIRRNGRRRL--IVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMR 115
           E WG +NSKSV++RR  R  L  +VRAEMFGQLTSGLEAAW+K+KGEE LTKENIVEPMR
Sbjct: 57  EIWGWVNSKSVSLRR-CRDILPGMVRAEMFGQLTSGLEAAWSKVKGEELLTKENIVEPMR 115

Query: 116 DIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSE 175
           DIRRALLEADVSLPVVRRFVQAV++QAVG+G+IRGVRPDQQLVKIV DELVKLMGGE SE
Sbjct: 116 DIRRALLEADVSLPVVRRFVQAVTDQAVGLGVIRGVRPDQQLVKIVHDELVKLMGGEFSE 175

Query: 176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE 235
           LVFAKS PTVILLAGLQGVGKTTV AKLANYLKKQGKSCMLVAGDVYRPAAIDQL ILG+
Sbjct: 176 LVFAKSGPTVILLAGLQGVGKTTVCAKLANYLKKQGKSCMLVAGDVYRPAAIDQLAILGK 235

Query: 236 QVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN 295
           QV VPVYTAGT+VKPS+IA+QGLEEAKKKN+DVV+VDTAGRLQI+K+MMDELK+VK+VLN
Sbjct: 236 QVDVPVYTAGTDVKPSEIARQGLEEAKKKNIDVVVVDTAGRLQINKSMMDELKEVKQVLN 295

Query: 296 PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLV 355
           PTE+LLVVDAMTGQEAAALVTTFN+EIGITGAIL+KLDGDSRGGAALSVKEVSGKPIKLV
Sbjct: 296 PTEILLVVDAMTGQEAAALVTTFNLEIGITGAILSKLDGDSRGGAALSVKEVSGKPIKLV 355

Query: 356 GRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDF 415
           GRGERMEDLEPFYPDRMAGRILGMGDVLSFVEK++EVMQQEDAEE+QKKIMSA FDFNDF
Sbjct: 356 GRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKSKEVMQQEDAEELQKKIMSAKFDFNDF 415

Query: 416 LKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           LKQTR+VARMGS+SRVIGMIPGM K+TPAQ+R+AEK+L+I EAMIEAMTP
Sbjct: 416 LKQTRSVARMGSVSRVIGMIPGMAKVTPAQIRDAEKNLQITEAMIEAMTP 465

Source: Lupinus angustifolius

Species: Lupinus angustifolius

Genus: Lupinus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356572574|ref|XP_003554443.1| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-like [Glycine max]

 Score =  756 bits (1952), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 383/470 (81%), Positives = 416/470 (88%), Gaps = 16/470 (3%)

Query: 1   MEAVQFSTVASRHYSATSKTFYNS---RISAGKSAKFVSSWAASSDPARLSSTSRNLFTR 57
           MEAV      SRH+S    +F  +   R S+ KS K  S W  +S       TS N F +
Sbjct: 1   MEAV----AGSRHFSTLPLSFSQNKTLRSSSAKSIKLSSPWTNAS------LTSPNCFAK 50

Query: 58  ETWGLINSKS--VTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMR 115
           E WG +NS S  V +RR+  R ++VRAEMFGQLTSGLE AWNKLKGEE L+KENIVEPMR
Sbjct: 51  EVWGWVNSNSKGVAVRRD-TRGVVVRAEMFGQLTSGLETAWNKLKGEEVLSKENIVEPMR 109

Query: 116 DIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSE 175
           DIRRALLEADVSLPVVRRFVQ+VS+QAVGVG+IRGVRPDQQLVKIV DELV+LMGGEVSE
Sbjct: 110 DIRRALLEADVSLPVVRRFVQSVSDQAVGVGVIRGVRPDQQLVKIVHDELVRLMGGEVSE 169

Query: 176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE 235
           LVFAKS PTVILLAGLQGVGKTTV AKLANYLKKQGKSCMLVAGDVYRPAAIDQL ILG+
Sbjct: 170 LVFAKSGPTVILLAGLQGVGKTTVCAKLANYLKKQGKSCMLVAGDVYRPAAIDQLAILGK 229

Query: 236 QVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN 295
           QV VPVYTAGT+VKPS+IAKQGLEEAKKK +DVVIVDTAGRLQIDK MMDELK+VK+ LN
Sbjct: 230 QVDVPVYTAGTDVKPSEIAKQGLEEAKKKKIDVVIVDTAGRLQIDKTMMDELKEVKKALN 289

Query: 296 PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLV 355
           PTEVLLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLV
Sbjct: 290 PTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLV 349

Query: 356 GRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDF 415
           GRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQ+VM+QEDAEE+QKKIMSA FDFNDF
Sbjct: 350 GRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQQVMRQEDAEELQKKIMSAKFDFNDF 409

Query: 416 LKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           LKQTRTVA+MGS+SRVIGMIPGMGK+TPAQ+R+AEK+L+ MEAMIEAMTP
Sbjct: 410 LKQTRTVAKMGSVSRVIGMIPGMGKVTPAQIRDAEKNLQNMEAMIEAMTP 459

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505382|ref|XP_003521470.1| PREDICTED: signal recognition particle 54 kDa protein, chloroplastic-like [Glycine max]

 Score =  751 bits (1938), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 381/467 (81%), Positives = 414/467 (88%), Gaps = 10/467 (2%)

Query: 1   MEAVQFSTVASRHYSATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTRETW 60
           MEAV      S H+S  S +F +++     SAK   S   SS     S +SRN F +E W
Sbjct: 1   MEAV----TGSHHFSTLSLSFSHNKTLRSSSAK---SIRLSSPSTNASLSSRNWFAKEVW 53

Query: 61  GLINSKS--VTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIR 118
           G +NS S  V +RR   R ++VRAEMFGQLTSGLE AWNKLKGEE L+KENIVEPMRDIR
Sbjct: 54  GWVNSNSKGVAVRRY-TRGVVVRAEMFGQLTSGLETAWNKLKGEEVLSKENIVEPMRDIR 112

Query: 119 RALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVF 178
           RALLEADVSLPVVRRFVQ+VS+QAVGVG+IRGVRPDQQLVKIV +ELV+LMGGEVSELVF
Sbjct: 113 RALLEADVSLPVVRRFVQSVSDQAVGVGVIRGVRPDQQLVKIVHEELVQLMGGEVSELVF 172

Query: 179 AKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVG 238
           AKS PTVILLAGLQGVGKTTV AKLANYLKKQGKSCMLVAGDVYRPAAIDQL ILG+QV 
Sbjct: 173 AKSGPTVILLAGLQGVGKTTVCAKLANYLKKQGKSCMLVAGDVYRPAAIDQLAILGKQVD 232

Query: 239 VPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTE 298
           VPVYTAGT+VKPS+IAKQGLEEAKKK +DVVIVDTAGRLQIDK MMDELK+VK+ LNPTE
Sbjct: 233 VPVYTAGTDVKPSEIAKQGLEEAKKKKIDVVIVDTAGRLQIDKTMMDELKEVKKALNPTE 292

Query: 299 VLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRG 358
           VLLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRG
Sbjct: 293 VLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRG 352

Query: 359 ERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQ 418
           ERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQ+VM+QEDAEE+QKKIMSA FDFNDFLKQ
Sbjct: 353 ERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQQVMRQEDAEELQKKIMSAKFDFNDFLKQ 412

Query: 419 TRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           TRTVA+MGS+SRVIGMIPGMGK+TPAQ+R+AEK+L  MEAMIEAMTP
Sbjct: 413 TRTVAKMGSVSRVIGMIPGMGKVTPAQIRDAEKNLLNMEAMIEAMTP 459

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297810481|ref|XP_002873124.1| hypothetical protein ARALYDRAFT_487173 [Arabidopsis lyrata subsp. lyrata] gi|297318961|gb|EFH49383.1| hypothetical protein ARALYDRAFT_487173 [Arabidopsis lyrata subsp. lyrata]

 Score =  739 bits (1907), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 376/466 (80%), Positives = 411/466 (88%), Gaps = 11/466 (2%)

Query: 1   MEAVQFSTVASRHYSATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTRETW 60
           MEA+QFS+    H+S +    Y   I   + A F S++  +S+ A LSS  RN  TRE W
Sbjct: 1   MEALQFSS----HFSVSRVPNYTLGIRRSR-ATFSSAFTGTSNSASLSS--RNPSTREIW 53

Query: 61  GLINSKSVTIRRNGR-RRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRR 119
             + SK+V     GR RR  VRAEMFGQLT GLEAAW+KLKGEE LTKENI EPMRDIRR
Sbjct: 54  SWVKSKTVG---QGRYRRSYVRAEMFGQLTGGLEAAWSKLKGEEVLTKENIAEPMRDIRR 110

Query: 120 ALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFA 179
           ALLEADVSLPVVRRFVQ+VS+QAVG+G+IRGV+PDQQLVKIV DELVKLMGGEVSEL FA
Sbjct: 111 ALLEADVSLPVVRRFVQSVSDQAVGMGVIRGVKPDQQLVKIVHDELVKLMGGEVSELQFA 170

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV 239
           KS PTVILLAGLQGVGKTTV AKLA YLKKQGKSCML+AGDVYRPAAIDQLVILGEQVGV
Sbjct: 171 KSGPTVILLAGLQGVGKTTVCAKLACYLKKQGKSCMLIAGDVYRPAAIDQLVILGEQVGV 230

Query: 240 PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEV 299
           PVYTAGT+VKP+ IAKQGL+EAKK NVDVVI+DTAGRLQIDK MMDELKDVK+ LNPTEV
Sbjct: 231 PVYTAGTDVKPADIAKQGLKEAKKNNVDVVIMDTAGRLQIDKGMMDELKDVKKFLNPTEV 290

Query: 300 LLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE 359
           LLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE
Sbjct: 291 LLVVDAMTGQEAAALVTTFNVEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE 350

Query: 360 RMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQT 419
           RMEDLEPFYPDRMAGRILGMGDVLSFVEKA EVM+QEDAE++QKKIMSA FDFNDFLKQT
Sbjct: 351 RMEDLEPFYPDRMAGRILGMGDVLSFVEKATEVMRQEDAEDLQKKIMSAKFDFNDFLKQT 410

Query: 420 RTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           R VA+MGSM+RV+GMIPGMGK++PAQ+REAEK+L +MEAMIE MTP
Sbjct: 411 RAVAKMGSMTRVLGMIPGMGKVSPAQIREAEKNLLVMEAMIEVMTP 456

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15237580|ref|NP_196014.1| signal recognition particle subunit [Arabidopsis thaliana] gi|586038|sp|P37107.1|SR54C_ARATH RecName: Full=Signal recognition particle 54 kDa protein, chloroplastic; Short=54 chloroplast protein; Short=54CP; Short=SRP54; Short=cpSRP54; AltName: Full=FFC; Flags: Precursor gi|396701|emb|CAA79981.1| 54CP [Arabidopsis thaliana] gi|7406404|emb|CAB85514.1| signal recognition particle 54CP protein precursor [Arabidopsis thaliana] gi|15293131|gb|AAK93676.1| putative signal recognition particle 54CP protein precursor [Arabidopsis thaliana] gi|24030445|gb|AAN41376.1| putative signal recognition particle 54CP protein precursor [Arabidopsis thaliana] gi|332003291|gb|AED90674.1| signal recognition particle subunit [Arabidopsis thaliana]

 Score =  738 bits (1906), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 377/466 (80%), Positives = 410/466 (87%), Gaps = 9/466 (1%)

Query: 1   MEAVQFSTVASRHYSATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTRETW 60
           MEA+QFS+V       T     N RI A  S+ F      + + A LSS SRNL TRE W
Sbjct: 1   MEALQFSSV--NRVPCTLSCTGNRRIKAAFSSAFT---GGTINSASLSS-SRNLSTREIW 54

Query: 61  GLINSKSVTIRRNGR-RRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRR 119
             + SK+V    +GR RR  VRAEMFGQLT GLEAAW+KLKGEE LTK+NI EPMRDIRR
Sbjct: 55  SWVKSKTVV--GHGRYRRSQVRAEMFGQLTGGLEAAWSKLKGEEVLTKDNIAEPMRDIRR 112

Query: 120 ALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFA 179
           ALLEADVSLPVVRRFVQ+VS+QAVG+G+IRGV+PDQQLVKIV DELVKLMGGEVSEL FA
Sbjct: 113 ALLEADVSLPVVRRFVQSVSDQAVGMGVIRGVKPDQQLVKIVHDELVKLMGGEVSELQFA 172

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV 239
           KS PTVILLAGLQGVGKTTV AKLA YLKKQGKSCML+AGDVYRPAAIDQLVILGEQVGV
Sbjct: 173 KSGPTVILLAGLQGVGKTTVCAKLACYLKKQGKSCMLIAGDVYRPAAIDQLVILGEQVGV 232

Query: 240 PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEV 299
           PVYTAGT+VKP+ IAKQGL+EAKK NVDVVI+DTAGRLQIDK MMDELKDVK+ LNPTEV
Sbjct: 233 PVYTAGTDVKPADIAKQGLKEAKKNNVDVVIMDTAGRLQIDKGMMDELKDVKKFLNPTEV 292

Query: 300 LLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE 359
           LLVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE
Sbjct: 293 LLVVDAMTGQEAAALVTTFNVEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE 352

Query: 360 RMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQT 419
           RMEDLEPFYPDRMAGRILGMGDVLSFVEKA EVM+QEDAE++QKKIMSA FDFNDFLKQT
Sbjct: 353 RMEDLEPFYPDRMAGRILGMGDVLSFVEKATEVMRQEDAEDLQKKIMSAKFDFNDFLKQT 412

Query: 420 RTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
           R VA+MGSM+RV+GMIPGMGK++PAQ+REAEK+L +MEAMIE MTP
Sbjct: 413 RAVAKMGSMTRVLGMIPGMGKVSPAQIREAEKNLLVMEAMIEVMTP 458

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	481
TAIR|locus:2150620	564	CPSRP54 "chloroplast signal re	0.952	0.812	0.8	1e-185
TIGR_CMR|CHY_1434	446	CHY_1434 "signal recognition p	0.792	0.854	0.534	5.4e-102
TIGR_CMR|BA_3983	449	BA_3983 "signal recognition pa	0.790	0.846	0.481	5.3e-95
UNIPROTKB|Q97QD2	523	ffh "Signal recognition partic	0.790	0.726	0.479	1.8e-94
UNIPROTKB|P0AGD7	453	ffh [Escherichia coli K-12 (ta	0.790	0.838	0.498	9e-93
TIGR_CMR|CBU_0450	461	CBU_0450 "signal recognition p	0.792	0.826	0.492	5e-92
UNIPROTKB|P66844	525	ffh "Signal recognition partic	0.794	0.727	0.485	2.5e-90
TIGR_CMR|GSU_0642	452	GSU_0642 "signal recognition p	0.794	0.845	0.472	1.1e-89
TIGR_CMR|SO_1356	457	SO_1356 "signal recognition pa	0.790	0.831	0.476	8.6e-88
TIGR_CMR|VC_0560	461	VC_0560 "signal recognition pa	0.790	0.824	0.480	6e-87

TAIR|locus:2150620 CPSRP54 "chloroplast signal recognition particle 54 kDa subunit" [Arabidopsis thaliana (taxid:3702)]

 Score = 1801 (639.0 bits), Expect = 1.0e-185, P = 1.0e-185
 Identities = 372/465 (80%), Positives = 403/465 (86%)

Query:     1 MEAVQFSTVASRHYSATSKTFYNSRISAGKSAKFVSSWAASSDPARLSSTSRNLFTRETW 60
             MEA+QFS+V       T     N RI A  S+ F      S   A LSS SRNL TRE W
Sbjct:     1 MEALQFSSV--NRVPCTLSCTGNRRIKAAFSSAFTGGTINS---ASLSS-SRNLSTREIW 54

Query:    61 GLINSKSVTIXXXXXXXXXXXAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRA 120
               + SK+V +           AEMFGQLT GLEAAW+KLKGEE LTK+NI EPMRDIRRA
Sbjct:    55 SWVKSKTV-VGHGRYRRSQVRAEMFGQLTGGLEAAWSKLKGEEVLTKDNIAEPMRDIRRA 113

Query:   121 LLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAK 180
             LLEADVSLPVVRRFVQ+VS+QAVG+G+IRGV+PDQQLVKIV DELVKLMGGEVSEL FAK
Sbjct:   114 LLEADVSLPVVRRFVQSVSDQAVGMGVIRGVKPDQQLVKIVHDELVKLMGGEVSELQFAK 173

Query:   181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVP 240
             S PTVILLAGLQGVGKTTV AKLA YLKKQGKSCML+AGDVYRPAAIDQLVILGEQVGVP
Sbjct:   174 SGPTVILLAGLQGVGKTTVCAKLACYLKKQGKSCMLIAGDVYRPAAIDQLVILGEQVGVP 233

Query:   241 VYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVL 300
             VYTAGT+VKP+ IAKQGL+EAKK NVDVVI+DTAGRLQIDK MMDELKDVK+ LNPTEVL
Sbjct:   234 VYTAGTDVKPADIAKQGLKEAKKNNVDVVIMDTAGRLQIDKGMMDELKDVKKFLNPTEVL 293

Query:   301 LVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER 360
             LVVDAMTGQEAAALVTTFN+EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER
Sbjct:   294 LVVDAMTGQEAAALVTTFNVEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER 353

Query:   361 MEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTR 420
             MEDLEPFYPDRMAGRILGMGDVLSFVEKA EVM+QEDAE++QKKIMSA FDFNDFLKQTR
Sbjct:   354 MEDLEPFYPDRMAGRILGMGDVLSFVEKATEVMRQEDAEDLQKKIMSAKFDFNDFLKQTR 413

Query:   421 TVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
              VA+MGSM+RV+GMIPGMGK++PAQ+REAEK+L +MEAMIE MTP
Sbjct:   414 AVAKMGSMTRVLGMIPGMGKVSPAQIREAEKNLLVMEAMIEVMTP 458

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003729 "mRNA binding" evidence=ISS

GO:0005048 "signal sequence binding" evidence=IDA

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0005786 "signal recognition particle, endoplasmic reticulum targeting" evidence=ISS

GO:0006614 "SRP-dependent cotranslational protein targeting to membrane" evidence=IEA

GO:0006617 "SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition" evidence=ISS

GO:0008312 "7S RNA binding" evidence=IEA;ISS

GO:0009570 "chloroplast stroma" evidence=IDA

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

GO:0045038 "protein import into chloroplast thylakoid membrane" evidence=IDA

GO:0048500 "signal recognition particle" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0080085 "signal recognition particle, chloroplast targeting" evidence=IMP

GO:0009507 "chloroplast" evidence=IDA

GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA

GO:0051607 "defense response to virus" evidence=RCA

TIGR_CMR|CHY_1434 CHY_1434 "signal recognition particle protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 1011 (360.9 bits), Expect = 5.4e-102, P = 5.4e-102
 Identities = 204/382 (53%), Positives = 277/382 (72%)

Query:    84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
             +F  L++ L+  + KLKG+  LT+E++   +R++R ALLEADV+  VV+ F+  V E+AV
Sbjct:     2 VFENLSNKLQEVFKKLKGKGRLTEEDVNLALREVRIALLEADVNFQVVKDFIAKVKEKAV 61

Query:   144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
             G  ++  + P QQ++KIV +EL+ LMG   ++L  A S PT+I+L GLQG GKTT +AKL
Sbjct:    62 GHEVLESLTPGQQVIKIVHEELINLMGKTNAKLNDAGSPPTIIMLVGLQGAGKTTTAAKL 121

Query:   204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
             A  LKKQGK  +LVA DVYRPAAI QL +LG+ + VPV+T G E  P  IAK  +  AK 
Sbjct:   122 AYLLKKQGKKPLLVAADVYRPAAIKQLQVLGDTIDVPVFTMG-EQSPVDIAKASINFAKS 180

Query:   264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
                + VI+DTAGRL I++ +MDELK +K V++P E+LLVVDAMTGQ+A  +  +FN E+G
Sbjct:   181 NLKNYVIIDTAGRLHINEELMDELKKIKDVVHPHEILLVVDAMTGQDAVNVAKSFNDELG 240

Query:   324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
             +TG ILTKLDGD++GGAALSVK V+G PIK  G GE++E+LEPFYPDRMA RILGMGDVL
Sbjct:   241 LTGVILTKLDGDTKGGAALSVKAVTGCPIKFAGMGEKIENLEPFYPDRMASRILGMGDVL 300

Query:   384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
             + +EKA+E +  E A++MQ+K+ S  FD  DFL   + + +MG + +++GMIPGMGK+  
Sbjct:   301 TLIEKAKEALDAEKAQKMQEKLKSREFDLEDFLDSMQQIKKMGPLEQLLGMIPGMGKVKD 360

Query:   444 AQVREAEKSLKIMEAMIEAMTP 465
                   EK LK +EA+I +MTP
Sbjct:   361 IAGMVDEKELKHIEAIIYSMTP 382

GO:0003924 "GTPase activity" evidence=ISS

GO:0005048 "signal sequence binding" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

GO:0048501 "signal recognition particle, plasma membrane targeting" evidence=ISS

TIGR_CMR|BA_3983 BA_3983 "signal recognition particle protein" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 945 (337.7 bits), Expect = 5.3e-95, P = 5.3e-95
 Identities = 184/382 (48%), Positives = 273/382 (71%)

Query:    85 FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVG 144
             F  L   L+    K++G+  +++ ++ E MR++R ALLEADV+  VV+ FV+ VSE+AVG
Sbjct:     3 FEGLADRLQQTMQKIRGKGKVSEADVKEMMREVRLALLEADVNFKVVKDFVKRVSERAVG 62

Query:   145 VGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLA 204
               +++ + P QQ++K+V++EL +LMGGE S++  A   PTVI++ GLQG GKTT + KLA
Sbjct:    63 QDVMKSLTPGQQVIKVVQEELTELMGGEQSKIAIANKPPTVIMMVGLQGAGKTTTTGKLA 122

Query:   205 NYL-KKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
             N L KK  +  MLVA D+YRPAAI QL  LG+Q+ +PV++ G +V P +IAKQ + +AK+
Sbjct:   123 NLLRKKHNRKPMLVAADIYRPAAIKQLETLGKQLDMPVFSLGDQVSPVEIAKQAIAKAKE 182

Query:   264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
              + D V++DTAG L ID+ +MDEL  VK V  P E+ LVVDAMTGQ+A  +  +F+ ++G
Sbjct:   183 DHHDYVLIDTAGHLHIDEELMDELAKVKEVAKPDEIFLVVDAMTGQDAVNVAQSFHEQLG 242

Query:   324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
             +TG +LTKLDGD+RGGAALS+K V+  PIK  G GE+++ LE F+P+RMA RILGMGDVL
Sbjct:   243 LTGVVLTKLDGDTRGGAALSIKAVTNTPIKFAGMGEKLDALEAFHPERMASRILGMGDVL 302

Query:   384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
             + +EKAQ  + +E A+E+++K+ + +F  +DFL+Q   V ++G +  ++GM+PG  KI  
Sbjct:   303 TLIEKAQATVDEEKAKELEQKMRTLSFTLDDFLEQLGQVRQLGPLDELLGMLPGANKIKG 362

Query:   444 AQVREA-EKSLKIMEAMIEAMT 464
              +  +  EK +  +EA+I +MT
Sbjct:   363 LKNAQVDEKQIGHIEAIIRSMT 384

GO:0003924 "GTPase activity" evidence=ISS

GO:0005048 "signal sequence binding" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

GO:0048501 "signal recognition particle, plasma membrane targeting" evidence=ISS

UNIPROTKB|Q97QD2 ffh "Signal recognition particle protein" [Streptococcus pneumoniae TIGR4 (taxid:170187)]

 Score = 940 (336.0 bits), Expect = 1.8e-94, P = 1.8e-94
 Identities = 184/384 (47%), Positives = 270/384 (70%)

Query:    85 FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVG 144
             F  LT  L+  +  L+ +  +++ ++ E  ++IR ALLEADV+LPVV+ F++ V E+AVG
Sbjct:     3 FESLTERLQNVFKNLRKKGKISESDVQEATKEIRLALLEADVALPVVKDFIKKVRERAVG 62

Query:   145 VGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLA 204
               +I  + P QQ++KIV +EL  ++G + +E++ +   PT+I++ GLQG GKTT + KLA
Sbjct:    63 HEVIDTLNPAQQIIKIVDEELTAVLGSDTAEIIKSPKIPTIIMMVGLQGAGKTTFAGKLA 122

Query:   205 NYLKKQGKSC-MLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
             N LKK+  +  +++A D+YRPAAIDQL  LG+Q+ VPV+  GTEV   +I +QGLE+A+ 
Sbjct:   123 NKLKKEENARPLMIAADIYRPAAIDQLKTLGQQIDVPVFALGTEVPAVEIVRQGLEQAQT 182

Query:   264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
              + D V++DTAGRLQID+ +M+EL+DVK +  P E+LLVVDAM GQEAA +   FN ++ 
Sbjct:   183 NHNDYVLIDTAGRLQIDELLMNELRDVKALAQPNEILLVVDAMIGQEAANVAREFNAQLE 242

Query:   324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
             +TG ILTK+DGD+RGGAALSV+ ++GKPIK  G GE++ D+E F+PDRM+ RILGMGD+L
Sbjct:   243 VTGVILTKIDGDTRGGAALSVRHITGKPIKFTGTGEKITDIETFHPDRMSSRILGMGDML 302

Query:   384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
             + +EKA +   ++ A EM +K+    FDFNDF+ Q   V  MG M  ++ MIPGM    P
Sbjct:   303 TLIEKASQEYDEQKALEMAEKMRENTFDFNDFIDQLDQVQNMGPMEDLLKMIPGMAN-NP 361

Query:   444 A--QVREAEKSLKIMEAMIEAMTP 465
             A   ++  E+ +    A++ +MTP
Sbjct:   362 ALQNMKVDERQIARKRAIVSSMTP 385

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|P0AGD7 ffh [Escherichia coli K-12 (taxid:83333)]

 Score = 924 (330.3 bits), Expect = 9.0e-93, P = 9.0e-93
 Identities = 192/385 (49%), Positives = 257/385 (66%)

Query:    84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
             MF  LT  L      + G   LT++N+ + +R++R ALLEADV+LPVVR F+  V E+AV
Sbjct:     1 MFDNLTDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAV 60

Query:   144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
             G  + + + P Q+ VKIVR+ELV  MG E   L  A   P V+L+AGLQG GKTT   KL
Sbjct:    61 GHEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKL 120

Query:   204 ANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
               +L+ K  K  ++V+ DVYRPAAI QL  L EQVGV  + +    KP  I    L+EAK
Sbjct:   121 GKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKEAK 180

Query:   263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
              K  DV++VDTAGRL +D+AMMDE+K V   +NP E L VVDAMTGQ+AA     FN  +
Sbjct:   181 LKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEAL 240

Query:   323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
              +TG +LTK+DGD+RGGAALS++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDV
Sbjct:   241 PLTGVVLTKVDGDARGGAALSIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDV 300

Query:   383 LSFVEKAQEVMQQEDAEEMQKKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI 441
             LS +E  +  + +  AE++  K+   + FD NDFL+Q R +  MG M+ ++G +PGMG+I
Sbjct:   301 LSLIEDIESKVDRAQAEKLASKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI 360

Query:   442 TPAQVREA--EKSLKIMEAMIEAMT 464
              P  V+    +K L  MEA+I +MT
Sbjct:   361 -PDNVKSQMDDKVLVRMEAIINSMT 384

GO:0048500 "signal recognition particle" evidence=IEA;IMP

GO:0005525 "GTP binding" evidence=IEA;ISS;IMP;IDA

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

GO:0030529 "ribonucleoprotein complex" evidence=IDA

GO:0003924 "GTPase activity" evidence=IEA;ISS;IMP;IDA

GO:0008312 "7S RNA binding" evidence=IEA

GO:0006614 "SRP-dependent cotranslational protein targeting to membrane" evidence=IEA

GO:0005786 "signal recognition particle, endoplasmic reticulum targeting" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA;IMP

GO:0003723 "RNA binding" evidence=IEA

TIGR_CMR|CBU_0450 CBU_0450 "signal recognition particle protein" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 917 (327.9 bits), Expect = 5.0e-92, P = 5.0e-92
 Identities = 189/384 (49%), Positives = 269/384 (70%)

Query:    84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
             M   LT+ L  + NKL+G   LT+ENI   + DIR AL+EADV+LPVV+ F++ V E+A+
Sbjct:     1 MLNNLTNRLTTSINKLRGLGRLTEENIQSTLHDIRSALIEADVALPVVKDFIEHVREKAL 60

Query:   144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
             G  +I  VRP + LVK+V+DEL  L+G E+ E+      P VI++AGLQG GKTT  AKL
Sbjct:    61 GQEVIGNVRPGEALVKVVQDELTHLLGDELVEINLNAQPPIVIVMAGLQGSGKTTTVAKL 120

Query:   204 ANYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
             A +L + Q KS M+ + DVYRPAAI QL  L  Q+    +    + KP +IAK  L++A+
Sbjct:   121 ARWLLEIQKKSVMVASADVYRPAAIQQLETLASQINAIFFPTQADQKPVEIAKAALKQAE 180

Query:   263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
             K+ +DV+I+DTAGRL ID  +M+E+K +   + PTE+LLVVD+M GQ+AA +  +FN  +
Sbjct:   181 KQFMDVLILDTAGRLHIDNVLMEEMKAISDAVTPTEILLVVDSMMGQDAANVAKSFNDTL 240

Query:   323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
              +TG ILTKLDGD+RGGAALS++ ++ KPIK VG GE+++ LEPF+P+RMA RILGMGD+
Sbjct:   241 PLTGVILTKLDGDTRGGAALSMRMITQKPIKFVGVGEKIDALEPFHPNRMASRILGMGDI 300

Query:   383 LSFVEKAQEVMQQEDAEEMQKKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI 441
             +S VE+AQ  + Q+ A ++ KK+   N FDF+DFL Q + + +MG M  ++G +PGMG++
Sbjct:   301 VSLVEEAQRKVDQKQAAKIAKKLQKGNRFDFDDFLAQLQQMKKMGGMQSLLGKLPGMGQL 360

Query:   442 TP-AQVREAEKSLKIMEAMIEAMT 464
                A     +K L  M+A+I++MT
Sbjct:   361 PKGASAFLDDKLLVKMQAIIQSMT 384

GO:0003924 "GTPase activity" evidence=ISS

GO:0005048 "signal sequence binding" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

GO:0048501 "signal recognition particle, plasma membrane targeting" evidence=ISS

UNIPROTKB|P66844 ffh "Signal recognition particle protein" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 901 (322.2 bits), Expect = 2.5e-90, P = 2.5e-90
 Identities = 189/389 (48%), Positives = 256/389 (65%)

Query:    84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
             MF  L+  L AA   L+G+  LT  +I    R+IR ALLEADVSLPVVR F+  + E+A 
Sbjct:     1 MFESLSDRLTAALQGLRGKGRLTDADIDATTREIRLALLEADVSLPVVRAFIHRIKERAR 60

Query:   144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
             G  +   + P QQ+VKIV +EL+ ++GGE  EL FAK+ PTV++LAGLQG GKTT++ KL
Sbjct:    61 GAEVSSALNPAQQVVKIVNEELISILGGETRELAFAKTPPTVVMLAGLQGSGKTTLAGKL 120

Query:   204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT----AGTEVKPSQ---IAKQ 256
             A  L+ QG + +LVA D+ RPAA++QL ++GE+ GVPV+     A  E  P     +A  
Sbjct:   121 AARLRGQGHTPLLVACDLQRPAAVNQLQVVGERAGVPVFAPHPGASPESGPGDPVAVAAA 180

Query:   257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVT 316
             GL EA+ K+ DVVIVDTAGRL ID+ +M +   ++  +NP EVL V+DAM GQ+A     
Sbjct:   181 GLAEARAKHFDVVIVDTAGRLGIDEELMAQAAAIRDAINPDEVLFVLDAMIGQDAVTTAA 240

Query:   317 TFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRI 376
              F   +G TG  LTKLDGD+RGGAALSV+EV+G PI     GE++ED + F+PDRMA RI
Sbjct:   241 AFGEGVGFTGVALTKLDGDARGGAALSVREVTGVPILFASTGEKLEDFDVFHPDRMASRI 300

Query:   377 LGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIP 436
             LGMGDVLS +E+A++V   + AEE   KI +      DFL+Q   V +MG +  ++GM+P
Sbjct:   301 LGMGDVLSLIEQAEQVFDAQQAEEAAAKIGAGELTLEDFLEQMLAVRKMGPIGNLLGMLP 360

Query:   437 GMGKITPAQVREAEKSLKIMEAMIEAMTP 465
             G  ++  A     +K L  ++A+I  MTP
Sbjct:   361 GAAQMKDALAEVDDKQLDRVQAIIRGMTP 389

GO:0005618 "cell wall" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0040007 "growth" evidence=IMP

TIGR_CMR|GSU_0642 GSU_0642 "signal recognition particle protein" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 182/385 (47%), Positives = 260/385 (67%)

Query:    84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
             M   L+  L+  + KL+G+  +++ENI E +R++R  LLEADV+  VV+ FV+ V  +AV
Sbjct:     1 MLENLSDKLDVLFKKLRGQGVMSEENIKEALREVRLVLLEADVNFKVVKDFVERVRVRAV 60

Query:   144 GVGLIRGVRPDQQLVKIVRDELVKLMGG-EVSELVFAKSRPTVILLAGLQGVGKTTVSAK 202
             G  +++ + P QQ++KIV++ELV LMGG E + L  A   P  I++ GLQG GKTT   K
Sbjct:    61 GTQVLQSLTPGQQVIKIVQEELVALMGGGEDNSLDLAAKPPVPIMMVGLQGAGKTTSCGK 120

Query:   203 LANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
             LA  LK Q +  +LV  DVYRPAAI+QL  LG Q+ V V+ +  +  P  I ++ L  A 
Sbjct:   121 LARLLKGQRRRPLLVPADVYRPAAIEQLKTLGRQLSVEVFDSRADQDPVDICREALRYAT 180

Query:   263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
                 DVVI+DTAGR QID+ +M+EL  +K    P E+L V DAMTGQEA  + + FN  +
Sbjct:   181 LNGFDVVILDTAGRHQIDEYLMNELVRIKEAAEPREILFVADAMTGQEAVNVASGFNDRL 240

Query:   323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
              ITG +LTKLDGD++GGAALS++ V+GKP+KLVG GE+++ LE F+ DR+  RILGMGD+
Sbjct:   241 DITGVVLTKLDGDAKGGAALSIRAVTGKPVKLVGVGEKLDALEVFHADRLVSRILGMGDI 300

Query:   383 LSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK-I 441
             L+ VEKAQ     ++AE +Q+K+  + FD  DF  Q + + +MGS+  ++GMIPG+GK +
Sbjct:   301 LTLVEKAQATFDSQEAERLQQKLKKSQFDLEDFRNQLQQIKKMGSIESILGMIPGVGKAM 360

Query:   442 TPAQ-VREAEKSLKIMEAMIEAMTP 465
                Q  + +E+ LK +EA+I +MTP
Sbjct:   361 KQLQGAQPSERELKRIEAIIGSMTP 385

GO:0003924 "GTPase activity" evidence=ISS

GO:0005048 "signal sequence binding" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

GO:0048501 "signal recognition particle, plasma membrane targeting" evidence=ISS

TIGR_CMR|SO_1356 SO_1356 "signal recognition particle protein Ffh" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 877 (313.8 bits), Expect = 8.6e-88, P = 8.6e-88
 Identities = 184/386 (47%), Positives = 252/386 (65%)

Query:    84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
             MF  LT  L      + G   LT+EN+ E +R++R ALLEADV+LPVVR FV  V E+AV
Sbjct:     1 MFENLTDRLSRTLKNISGRGRLTEENVKETLREVRMALLEADVALPVVREFVNNVKERAV 60

Query:   144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
             G  + + + P Q  +KIV+ EL K MG     L  A   P V+++AGLQG GKTT  AKL
Sbjct:    61 GQEVAKSLSPGQAFIKIVQSELEKSMGEANQALDLATQPPAVVMMAGLQGAGKTTSVAKL 120

Query:   204 ANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
                L+ +  KS ++V+ DVYRPAAI QL  L  +V V  + +    KP  IAK  +  AK
Sbjct:   121 GKLLRTRHKKSVLVVSADVYRPAAIKQLETLATEVDVEFFPSDVSQKPIDIAKAAIAHAK 180

Query:   263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
              K +DVVI+DTAGRL +D+AMMDE+K +   L P E L VVDAMTGQ+AA     FN  +
Sbjct:   181 LKFIDVVILDTAGRLHVDEAMMDEIKALHAALKPIETLFVVDAMTGQDAANTAKAFNEAL 240

Query:   323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
              +TG ILTK+DGD+RGGAALS++ ++GKPIK +G GE+ + LEPF+PDR+A RILGMGDV
Sbjct:   241 PLTGVILTKVDGDARGGAALSIRHITGKPIKFLGVGEKTDALEPFHPDRIASRILGMGDV 300

Query:   383 LSFVEKAQEVMQQEDAEEMQKKI-MSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI 441
             LS +E+ +  + +E A ++  K+    +FD  DF +Q + +  MG M  +I  +PG+G++
Sbjct:   301 LSLIEEVERGVDKEKAMKLASKVKQGGSFDLEDFREQLQQMKNMGGMMSMIEKLPGVGQL 360

Query:   442 TP---AQVREAEKSLKIMEAMIEAMT 464
              P   AQ+++  K  + MEA+I +MT
Sbjct:   361 PPDALAQIQDG-KMTRQMEAIINSMT 385

GO:0003924 "GTPase activity" evidence=ISS

GO:0005048 "signal sequence binding" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

GO:0048501 "signal recognition particle, plasma membrane targeting" evidence=ISS

TIGR_CMR|VC_0560 VC_0560 "signal recognition particle protein" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 869 (311.0 bits), Expect = 6.0e-87, P = 6.0e-87
 Identities = 185/385 (48%), Positives = 251/385 (65%)

Query:    84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
             MF  LT  L      + G+  LT++NI + +R++R ALLEADV+LPVVR FV  V E AV
Sbjct:     1 MFENLTDRLSKTLKNISGKGRLTEDNIKDTLREVRMALLEADVALPVVRDFVNRVKEGAV 60

Query:   144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
             GV + + + P Q+ +KIVR +L  +MG     L  A   P VIL+AGLQG GKTT   KL
Sbjct:    61 GVEVSKSLTPGQEFIKIVRQQLEAVMGESNEALNLAAQPPAVILMAGLQGAGKTTSVGKL 120

Query:   204 ANYLKKQGKSCMLV-AGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
             +  LK++ K  +LV + DVYRPAAI QL  L   +GV  + +  + KP  IA   ++ AK
Sbjct:   121 SKLLKERDKKKVLVVSADVYRPAAIKQLETLANDLGVDFFPSTPDQKPIDIANAAIDHAK 180

Query:   263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
             KK  DV+IVDTAGRL ID+ MM E++ + + +NP E L VVDAMTGQ+AA     F   +
Sbjct:   181 KKFYDVLIVDTAGRLAIDEQMMAEIQALHKAINPVETLFVVDAMTGQDAADTAKAFGDAL 240

Query:   323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
              +TG ILTK+DGD+RGGAALSV+ ++GKPIK +G GE+ + LEPF+PDR+A RILGMGDV
Sbjct:   241 PLTGVILTKVDGDARGGAALSVRHITGKPIKFIGVGEKTDALEPFHPDRIASRILGMGDV 300

Query:   383 LSFVEKAQEVMQQEDAEEMQKKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI 441
             LS +E  Q  + QE AE++ KK      FD  DF +Q   +  MG M  ++  +PGM ++
Sbjct:   301 LSLIEDLQRNVDQEKAEKLAKKFKEKKGFDLEDFREQLGQMKNMGGMMGMLDKLPGMSQL 360

Query:   442 TPAQVREA--EKSLKIMEAMIEAMT 464
              PA +++   ++  K MEA+I +MT
Sbjct:   361 -PADMKDKVDDRVFKQMEAIINSMT 384

GO:0003924 "GTPase activity" evidence=ISS

GO:0005048 "signal sequence binding" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

GO:0048501 "signal recognition particle, plasma membrane targeting" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P37107	SR54C_ARATH	No assigned EC number	0.8090	0.9501	0.8102	yes	no
Q8K9F7	SRP54_BUCAP	No assigned EC number	0.3910	0.8004	0.8555	yes	no
Q55311	SRP54_SYNE7	No assigned EC number	0.5874	0.7941	0.7876	yes	no
P57473	SRP54_BUCAI	No assigned EC number	0.4005	0.8170	0.8713	yes	no
Q5JJC8	SRP54_PYRKO	No assigned EC number	0.3797	0.8024	0.8616	yes	no
C5A233	SRP54_THEGJ	No assigned EC number	0.3746	0.8024	0.8616	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.7.4	0.691
4th Layer	2.7.1.25	LOW CONFIDENCE prediction!
3rd Layer	2.7.1	LOW CONFIDENCE prediction!

---

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	481
PRK10867	433	PRK10867, PRK10867, signal recognition particle pr	0.0
COG0541	451	COG0541, Ffh, Signal recognition particle GTPase [	0.0
TIGR00959	428	TIGR00959, ffh, signal recognition particle protei	0.0
PRK00771	437	PRK00771, PRK00771, signal recognition particle pr	1e-140
pfam00448	196	pfam00448, SRP54, SRP54-type protein, GTPase domai	1e-103
smart00962	197	smart00962, SRP54, SRP54-type protein, GTPase doma	2e-99
cd03115	173	cd03115, SRP, The signal recognition particle (SRP	2e-96
COG0552	340	COG0552, FtsY, Signal recognition particle GTPase	2e-79
PRK10416	318	PRK10416, PRK10416, signal recognition particle-do	3e-79
TIGR00064	272	TIGR00064, ftsY, signal recognition particle-docki	5e-77
PRK14974	336	PRK14974, PRK14974, cell division protein FtsY; Pr	3e-73
TIGR01425	429	TIGR01425, SRP54_euk, signal recognition particle	2e-69
PRK05703	424	PRK05703, flhF, flagellar biosynthesis regulator F	1e-25
COG1419	407	COG1419, FlhF, Flagellar GTP-binding protein [Cell	8e-24
TIGR03499	283	TIGR03499, FlhF, flagellar biosynthetic protein Fl	7e-18
smart00963	77	smart00963, SRP54_N, SRP54-type protein, helical b	4e-16
pfam02978	101	pfam02978, SRP_SPB, Signal peptide binding domain	2e-15
PRK14723	767	PRK14723, flhF, flagellar biosynthesis regulator F	2e-13
smart00382	148	smart00382, AAA, ATPases associated with a variety	6e-12
PRK11889	436	PRK11889, flhF, flagellar biosynthesis regulator F	7e-12
PRK06731	270	PRK06731, flhF, flagellar biosynthesis regulator F	2e-11
PRK14722	374	PRK14722, flhF, flagellar biosynthesis regulator F	5e-11
PRK12727	559	PRK12727, PRK12727, flagellar biosynthesis regulat	2e-10
pfam02881	77	pfam02881, SRP54_N, SRP54-type protein, helical bu	3e-10
PRK12726	407	PRK12726, PRK12726, flagellar biosynthesis regulat	4e-10
PRK06995	484	PRK06995, flhF, flagellar biosynthesis regulator F	1e-09
PRK12724	432	PRK12724, PRK12724, flagellar biosynthesis regulat	1e-09
PRK14721	420	PRK14721, flhF, flagellar biosynthesis regulator F	4e-09
cd01983	99	cd01983, Fer4_NifH, The Fer4_NifH superfamily cont	1e-08
PRK12723	388	PRK12723, PRK12723, flagellar biosynthesis regulat	1e-06
pfam01583	157	pfam01583, APS_kinase, Adenylylsulphate kinase	3e-05
COG0529	197	COG0529, CysC, Adenylylsulfate kinase and related	4e-05
cd02027	149	cd02027, APSK, Adenosine 5'-phosphosulfate kinase	4e-04
cd02035	217	cd02035, ArsA, ArsA ATPase functionas as an efflux	5e-04
cd02034	116	cd02034, CooC, The accessory protein CooC, which c	8e-04
COG0489	265	COG0489, Mrp, ATPases involved in chromosome parti	0.001
cd02036	179	cd02036, MinD, Bacterial cell division requires th	0.002
pfam02374	304	pfam02374, ArsA_ATPase, Anion-transporting ATPase	0.002
COG4240	300	COG4240, COG4240, Predicted kinase [General functi	0.002
COG2074	299	COG2074, COG2074, 2-phosphoglycerate kinase [Carbo	0.004
pfam06414	191	pfam06414, Zeta_toxin, Zeta toxin	0.004

>gnl|CDD|236780 PRK10867, PRK10867, signal recognition particle protein; Provisional

 Score =  603 bits (1559), Expect = 0.0
 Identities = 215/383 (56%), Positives = 284/383 (74%), Gaps = 4/383 (1%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  L+  L +A+ KL+G+  LT+ +I E +R++R ALLEADV+LPVV+ F+  V E+AV
Sbjct: 1   MFESLSDRLSSAFKKLRGKGRLTEADIKEALREVRLALLEADVNLPVVKDFIARVKEKAV 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  +++ + P QQ++KIV DELV+++GGE SEL  A   PTVI++ GLQG GKTT + KL
Sbjct: 61  GQEVLKSLTPGQQVIKIVNDELVEILGGENSELNLAAKPPTVIMMVGLQGAGKTTTAGKL 120

Query: 204 ANYLKKQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
           A YLKK+  K  +LVA DVYRPAAI+QL  LGEQ+GVPV+ +G    P  IAK  LEEAK
Sbjct: 121 AKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEEAK 180

Query: 263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
           +   DVVIVDTAGRL ID+ +MDELK +K  +NP E+LLVVDAMTGQ+A      FN  +
Sbjct: 181 ENGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQDAVNTAKAFNEAL 240

Query: 323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
           G+TG ILTKLDGD+RGGAALS++ V+GKPIK +G GE+++DLEPF+PDRMA RILGMGDV
Sbjct: 241 GLTGVILTKLDGDARGGAALSIRAVTGKPIKFIGTGEKLDDLEPFHPDRMASRILGMGDV 300

Query: 383 LSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKIT 442
           LS +EKAQEV+ +E AE++ KK+    FD  DFL+Q + + +MG +  ++GM+PGMG + 
Sbjct: 301 LSLIEKAQEVVDEEKAEKLAKKLKKGKFDLEDFLEQLQQMKKMGGLGSLLGMLPGMGNMK 360

Query: 443 PAQVREAEKSLKIMEAMIEAMTP 465
                  +K LK +EA+I +MTP
Sbjct: 361 AQL---DDKELKRIEAIINSMTP 380

Length = 433

>gnl|CDD|223615 COG0541, Ffh, Signal recognition particle GTPase [Intracellular trafficking and secretion]

 Score =  544 bits (1404), Expect = 0.0
 Identities = 215/383 (56%), Positives = 287/383 (74%), Gaps = 1/383 (0%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  L+  L  A  KL+G+  +T++++ E +R+IRRALLEADV+L VV+ F++ + E+A+
Sbjct: 1   MFESLSDRLSNALKKLRGKGRITEKDVKEALREIRRALLEADVNLKVVKDFIKRIKERAL 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  + +G+ P QQ +KIV +ELVKL+GGE SEL  AK  PTVIL+ GLQG GKTT + KL
Sbjct: 61  GEEVPKGLTPGQQFIKIVYEELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKL 120

Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A YLKK+GK  +LVA D YRPAAI+QL  L EQVGVP + +GTE  P +IAK  LE+AK+
Sbjct: 121 AKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEKAKE 180

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  DVVIVDTAGRL ID+ +MDELK++K V+NP E LLVVDAM GQ+A      FN  +G
Sbjct: 181 EGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMIGQDAVNTAKAFNEALG 240

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           ITG ILTKLDGD+RGGAALS + ++GKPIK +G GE+++DLEPF+PDR A RILGMGDVL
Sbjct: 241 ITGVILTKLDGDARGGAALSARAITGKPIKFIGTGEKIDDLEPFHPDRFASRILGMGDVL 300

Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMG-KIT 442
           S +EKA+EV+ +E+AE++ +K+    F   DFL+Q   + +MG +S+++ MIPGMG K +
Sbjct: 301 SLIEKAEEVVDEEEAEKLAEKLKKGKFTLEDFLEQLEQMKKMGPLSKLLSMIPGMGMKDS 360

Query: 443 PAQVREAEKSLKIMEAMIEAMTP 465
              +   EK LK +EA+I++MTP
Sbjct: 361 DKDIELDEKKLKRIEAIIDSMTP 383

Length = 451

>gnl|CDD|233210 TIGR00959, ffh, signal recognition particle protein

 Score =  530 bits (1367), Expect = 0.0
 Identities = 212/384 (55%), Positives = 286/384 (74%), Gaps = 3/384 (0%)

Query: 85  FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVG 144
           F  L+  L+  + KL G  T+T++NI E +R+IR ALLEADV+L VV+ F++ V E+A+G
Sbjct: 1   FESLSERLQRIFKKLSGRGTITEKNIKEALREIRLALLEADVNLQVVKDFIKKVKEKALG 60

Query: 145 VGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLA 204
             +++ + P QQ +KIV +ELV ++GGE + L  AK  PTVIL+ GLQG GKTT   KLA
Sbjct: 61  QEVLKSLSPGQQFIKIVHEELVAILGGENASLNLAKKPPTVILMVGLQGSGKTTTCGKLA 120

Query: 205 NYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
            YLKK QGK  +LVA D+YRPAAI+QL +LG+QVGVPV+  G    P +IA++ LE AK+
Sbjct: 121 YYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYAKE 180

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
              DVVIVDTAGRLQID+ +M+EL  +K +LNP E+LLVVDAMTGQ+A     TFN  +G
Sbjct: 181 NGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQDAVNTAKTFNERLG 240

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           +TG +LTKLDGD+RGGAALSV+ V+GKPIK +G GE+++DLEPF+P+RMA RILGMGD+L
Sbjct: 241 LTGVVLTKLDGDARGGAALSVRSVTGKPIKFIGVGEKIDDLEPFHPERMASRILGMGDIL 300

Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
           S VEKAQEV+ +E+A+++ +K+    FD  DFL+Q R + +MG +S ++ MIPGMG + P
Sbjct: 301 SLVEKAQEVVDEEEAKKLAEKMKKGQFDLEDFLEQLRQIKKMGPLSSLLKMIPGMGGVKP 360

Query: 444 A--QVREAEKSLKIMEAMIEAMTP 465
           +   +   EK  K +EA+I +MTP
Sbjct: 361 SLSDLELDEKQFKRIEAIISSMTP 384

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle [Protein fate, Protein and peptide secretion and trafficking]. Length = 428

>gnl|CDD|179118 PRK00771, PRK00771, signal recognition particle protein Srp54; Provisional

 Score =  410 bits (1056), Expect = e-140
 Identities = 160/379 (42%), Positives = 245/379 (64%), Gaps = 4/379 (1%)

Query: 88  LTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGL 147
           L   L  A  KL G+  + ++ + E ++DI+RALL+ADV++ +V+   +++ E+A+    
Sbjct: 1   LGESLRDALKKLAGKSRIDEKTVKEVVKDIQRALLQADVNVKLVKELSKSIKERALEEEP 60

Query: 148 IRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYL 207
            +G+ P + ++KIV +ELVKL+G E +E +    +P  I+L GLQG GKTT +AKLA Y 
Sbjct: 61  PKGLTPREHVIKIVYEELVKLLGEE-TEPLVLPLKPQTIMLVGLQGSGKTTTAAKLARYF 119

Query: 208 KKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVD 267
           KK+G    LVA D YRPAA DQL  L E++GVP Y         +IAK+GLE+ KK   D
Sbjct: 120 KKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFKKA--D 177

Query: 268 VVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGA 327
           V+IVDTAGR  +++ +++E+K++K  + P EVLLV+DA  GQ+A      F+  +GI G 
Sbjct: 178 VIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQAKNQAKAFHEAVGIGGI 237

Query: 328 ILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVE 387
           I+TKLDG ++GG ALS    +G PIK +G GE+++DLE F PDR   R+LGMGD+ S +E
Sbjct: 238 IITKLDGTAKGGGALSAVAETGAPIKFIGTGEKIDDLERFDPDRFISRLLGMGDLESLLE 297

Query: 388 KAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMG-KITPAQV 446
           K +E + +E+ E+  +K+M   F   D  KQ   + +MG + +++ M+PG+G K+    +
Sbjct: 298 KVEEALDEEEEEKDVEKMMKGKFTLKDMYKQLEAMNKMGPLKQILQMLPGLGGKLPDEAL 357

Query: 447 REAEKSLKIMEAMIEAMTP 465
              E+ LK  +A++++MT 
Sbjct: 358 EVTEEKLKKYKAIMDSMTE 376

Length = 437

>gnl|CDD|215925 pfam00448, SRP54, SRP54-type protein, GTPase domain

 Score =  305 bits (784), Expect = e-103
 Identities = 119/196 (60%), Positives = 147/196 (75%)

Query: 183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY 242
           P VILL GLQG GKTT  AKLA YLKKQGK  +LVA D +R AAI+QL  L E++GVPV+
Sbjct: 1   PNVILLVGLQGSGKTTTIAKLAAYLKKQGKKVLLVAADTFRAAAIEQLKQLAERLGVPVF 60

Query: 243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLV 302
            +GT   P+ +A   +E+AK +N DVV+VDTAGRLQ DK +MDELK +KRV+ P EVLLV
Sbjct: 61  GSGTGSDPAAVAFDAVEKAKAENYDVVLVDTAGRLQNDKNLMDELKKIKRVIAPDEVLLV 120

Query: 303 VDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERME 362
           +DA TGQ A      FN  +GITG ILTKLDGD++GGAALS+   +GKPIK +G GE+++
Sbjct: 121 LDATTGQNALNQAKAFNEAVGITGVILTKLDGDAKGGAALSIAAETGKPIKFIGVGEKID 180

Query: 363 DLEPFYPDRMAGRILG 378
           DLEPF P+R   R+LG
Sbjct: 181 DLEPFDPERFVSRLLG 196

This family includes relatives of the G-domain of the SRP54 family of proteins. Length = 196

>gnl|CDD|214940 smart00962, SRP54, SRP54-type protein, GTPase domain

 Score =  296 bits (760), Expect = 2e-99
 Identities = 103/197 (52%), Positives = 131/197 (66%), Gaps = 1/197 (0%)

Query: 183 PTVILLAGLQGVGKTTVSAKLANYLKKQG-KSCMLVAGDVYRPAAIDQLVILGEQVGVPV 241
           P VILL G  GVGKTT  AKLA  LK +G K  +LVA D +R AA++QL    E +GV  
Sbjct: 1   PGVILLVGPNGVGKTTTIAKLAARLKLKGGKKVLLVAADTFRAAAVEQLKTYAEILGVVP 60

Query: 242 YTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLL 301
              G    P  +AK  +E AK +  DVV++DTAGRL  D+ +M+ELK +KRV+ P EVLL
Sbjct: 61  VAGGEGADPVAVAKDAVELAKARGYDVVLIDTAGRLHNDENLMEELKKIKRVIKPDEVLL 120

Query: 302 VVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM 361
           V DA TGQ+A      FN  +G+TG ILTKLDG ++GGAALS+   +G PIK +G GE++
Sbjct: 121 VSDATTGQDAVEQAKAFNEALGLTGIILTKLDGTAKGGAALSIAAETGLPIKFIGTGEKV 180

Query: 362 EDLEPFYPDRMAGRILG 378
            DLEPF P+R   R+LG
Sbjct: 181 PDLEPFDPERFVSRLLG 197

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. Length = 197

>gnl|CDD|239389 cd03115, SRP, The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

 Score =  287 bits (738), Expect = 2e-96
 Identities = 116/173 (67%), Positives = 139/173 (80%)

Query: 184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT 243
           TVILL GLQGVGKTT +AKLA YLKK+GK  +LVA D YRPAAI+QL +LGEQVGVPV+ 
Sbjct: 1   TVILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFE 60

Query: 244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVV 303
            G    P  IAK+ +E A+++N DVVIVDTAGRLQID+ +M+ELK +KRV+ P EVLLVV
Sbjct: 61  EGEGKDPVSIAKRAIEHAREENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVV 120

Query: 304 DAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG 356
           DAMTGQ+A      FN  +GITG ILTKLDGD+RGGAALS++ V+GKPIK +G
Sbjct: 121 DAMTGQDAVNQAKAFNEALGITGVILTKLDGDARGGAALSIRAVTGKPIKFIG 173

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. Length = 173

>gnl|CDD|223626 COG0552, FtsY, Signal recognition particle GTPase [Intracellular trafficking and secretion]

 Score =  250 bits (640), Expect = 2e-79
 Identities = 115/314 (36%), Positives = 178/314 (56%), Gaps = 19/314 (6%)

Query: 81  RAEMFGQLTSGL----EAAWNKLKGEETLT-KENIVE-PMRDIRRALLEADVSLPVVRRF 134
           +   F +L  GL    +     +KG      KE + E  + ++   L+EADV +      
Sbjct: 30  KEGWFERLKQGLSKTKKNFGKGIKGLFLKKIKEKLDEDLLEELEELLIEADVGVETAEEI 89

Query: 135 VQAVSEQAVGVGLIRGVRPDQQLVKIVRDELV----KLMGGEVSELVFAKSRPTVILLAG 190
           ++ + ++    G  + ++ ++ + + +R+ L+     +   ++   +  + +P VIL  G
Sbjct: 90  IEELRKR---EGKKKKIKDEETVKEALREALIEILRPVDKVDLPLEIPKEKKPFVILFVG 146

Query: 191 LQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKP 250
           + GVGKTT  AKLA YLK+QGKS +L AGD +R AAI+QL + GE++GVPV +      P
Sbjct: 147 VNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADP 206

Query: 251 SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN------PTEVLLVVD 304
           + +A   ++ AK + +DVV++DTAGRL   K +MDELK + RV+       P E+LLV+D
Sbjct: 207 AAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLD 266

Query: 305 AMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDL 364
           A TGQ A +    FN  +G+ G ILTKLDG ++GG  LS+    G PIK +G GE  +DL
Sbjct: 267 ATTGQNALSQAKIFNEAVGLDGIILTKLDGTAKGGIILSIAYELGIPIKFIGVGEGYDDL 326

Query: 365 EPFYPDRMAGRILG 378
            PF  +     +LG
Sbjct: 327 RPFDAEWFVDALLG 340

Length = 340

>gnl|CDD|236686 PRK10416, PRK10416, signal recognition particle-docking protein FtsY; Provisional

 Score =  248 bits (637), Expect = 3e-79
 Identities = 103/265 (38%), Positives = 160/265 (60%), Gaps = 10/265 (3%)

Query: 120 ALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFA 179
            L+EADV +      ++ + E+       + ++  ++L +++++EL +++      L   
Sbjct: 55  LLIEADVGVETTEEIIEELRERVKR----KNLKDPEELKELLKEELAEILEPVEKPLNIE 110

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV 239
           + +P VIL+ G+ GVGKTT   KLA+  K QGK  +L AGD +R AAI+QL + GE+VGV
Sbjct: 111 EKKPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGV 170

Query: 240 PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN---- 295
           PV        P+ +A   ++ AK + +DV+I+DTAGRL     +M+ELK +KRV+     
Sbjct: 171 PVIAQKEGADPASVAFDAIQAAKARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADP 230

Query: 296 --PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIK 353
             P EVLLV+DA TGQ A +    F+  +G+TG ILTKLDG ++GG   ++ +  G PIK
Sbjct: 231 DAPHEVLLVLDATTGQNALSQAKAFHEAVGLTGIILTKLDGTAKGGVVFAIADELGIPIK 290

Query: 354 LVGRGERMEDLEPFYPDRMAGRILG 378
            +G GE ++DL+PF  +     +LG
Sbjct: 291 FIGVGEGIDDLQPFDAEEFVDALLG 315

Length = 318

>gnl|CDD|232804 TIGR00064, ftsY, signal recognition particle-docking protein FtsY

 Score =  241 bits (618), Expect = 5e-77
 Identities = 113/272 (41%), Positives = 167/272 (61%), Gaps = 10/272 (3%)

Query: 112 EPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGG 171
           +   ++   LLE+DV   VV + ++A+ ++  G    + V+  + L +I+++ L +++  
Sbjct: 5   DFFEELEEILLESDVGYEVVEKIIEALKKELKG----KKVKDAELLKEILKEYLKEILKE 60

Query: 172 EVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV 231
              EL+  +++P VIL  G+ GVGKTT  AKLAN LKKQGKS +L AGD +R AAI+QL 
Sbjct: 61  TDLELIVEENKPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLE 120

Query: 232 ILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVK 291
              +++GV V        P+ +A   +++AK +N+DVV++DTAGRLQ    +MDELK +K
Sbjct: 121 EWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNIDVVLIDTAGRLQNKVNLMDELKKIK 180

Query: 292 RVL------NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVK 345
           RV+       P EVLLV+DA TGQ A      FN  +G+TG ILTKLDG ++GG  LS+ 
Sbjct: 181 RVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAVGLTGIILTKLDGTAKGGIILSIA 240

Query: 346 EVSGKPIKLVGRGERMEDLEPFYPDRMAGRIL 377
                PIK +G GE+++DL PF  D     + 
Sbjct: 241 YELKLPIKFIGVGEKIDDLAPFDADWFVEALF 272

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 [Protein fate, Protein and peptide secretion and trafficking]. Length = 272

>gnl|CDD|237875 PRK14974, PRK14974, cell division protein FtsY; Provisional

 Score =  234 bits (598), Expect = 3e-73
 Identities = 107/279 (38%), Positives = 169/279 (60%), Gaps = 4/279 (1%)

Query: 104 TLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRD 163
            + +++I + + ++   LLE+DV+L V    ++++ E+ VG  + RG   ++ +   +++
Sbjct: 57  EIKEKDIEDLLEELELELLESDVALEVAEEILESLKEKLVGKKVKRGEDVEEIVKNALKE 116

Query: 164 ELVKLMG----GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG 219
            L++++      ++ E + +K +P VI+  G+ G GKTT  AKLA YLKK G S ++ AG
Sbjct: 117 ALLEVLSVGDLFDLIEEIKSKGKPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAG 176

Query: 220 DVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI 279
           D +R  AI+QL    E++GV V        P+ +A   +E AK + +DVV++DTAGR+  
Sbjct: 177 DTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKARGIDVVLIDTAGRMHT 236

Query: 280 DKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGG 339
           D  +MDELK + RV  P  V+ V DA+ G +A      FN  +GI G ILTK+D D++GG
Sbjct: 237 DANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFNEAVGIDGVILTKVDADAKGG 296

Query: 340 AALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG 378
           AALS+  V GKPI  +G G+  +DL PF PD    ++LG
Sbjct: 297 AALSIAYVIGKPILFLGVGQGYDDLIPFDPDWFVDKLLG 335

Length = 336

>gnl|CDD|130492 TIGR01425, SRP54_euk, signal recognition particle protein SRP54

 Score =  227 bits (580), Expect = 2e-69
 Identities = 115/380 (30%), Positives = 200/380 (52%), Gaps = 2/380 (0%)

Query: 87  QLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVG 146
            L S + +A   +     + +E +   +++I  ALLE+DV++ +VR+  + + +      
Sbjct: 4   DLGSSITSALRSMSNATVIDEEVLNAMLKEICTALLESDVNIKLVRQLRENIKKAINLEE 63

Query: 147 LIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANY 206
           +  G+   + +   V  EL  L+   V      K +  VI+  GLQG GKTT   KLA Y
Sbjct: 64  MASGLNKRKMIQHAVFKELCNLVDPGVEAFTPKKGKQNVIMFVGLQGSGKTTTCTKLAYY 123

Query: 207 LKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNV 266
            +++G    LV  D +R  A DQL     +  +P Y + TE  P +IA +G+E+ KK+N 
Sbjct: 124 YQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFKKENF 183

Query: 267 DVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITG 326
           D++IVDT+GR + + ++ +E+  V   + P  ++ V+D   GQ A A    F   + +  
Sbjct: 184 DIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQAKAFKDSVDVGS 243

Query: 327 AILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFV 386
            I+TKLDG ++GG ALS    +  PI  +G GE ++D E F       ++LGMGD+   +
Sbjct: 244 VIITKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEIFKTQPFISKLLGMGDIEGLI 303

Query: 387 EKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQV 446
           +K Q++   ++ + + +K+    F   D  +Q + + +MG + +++ MIPG      ++ 
Sbjct: 304 DKVQDLKLDDNEKALIEKLKEGTFTLRDMYEQFQNLLKMGPLGQILSMIPGFSTDFMSKG 363

Query: 447 REAEKSLKIMEAM--IEAMT 464
            E E   KI + M  +++MT
Sbjct: 364 NEEESMAKIKKLMTIMDSMT 383

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. Length = 429

>gnl|CDD|235570 PRK05703, flhF, flagellar biosynthesis regulator FlhF; Validated

 Score =  108 bits (272), Expect = 1e-25
 Identities = 75/291 (25%), Positives = 136/291 (46%), Gaps = 31/291 (10%)

Query: 96  WNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQ 155
            ++L G      E I     ++ + L  + +S  +  + ++ + E             ++
Sbjct: 147 EDQLSGLRQ--VERIPPEFAELYKRLKRSGLSPEIAEKLLKLLLE--------HMPPRER 196

Query: 156 QLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLAN--YLKKQGKS 213
              + + + L  ++   V +++       V+ L G  GVGKTT  AKLA    L    K 
Sbjct: 197 TAWRYLLELLANMIPVRVEDILKQGG---VVALVGPTGVGKTTTLAKLAARYALLYGKKK 253

Query: 214 CMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK--KNVDVVIV 271
             L+  D YR  A++QL    + +G+PV              + L +A +  ++ DV+++
Sbjct: 254 VALITLDTYRIGAVEQLKTYAKIMGIPVEVVYD--------PKELAKALEQLRDCDVILI 305

Query: 272 DTAGRLQIDKAMMDELKD-VKRVLNPTEVLLVVDAMTGQE--AAALVTTFNIEIGITGAI 328
           DTAGR Q DK +++ELK  ++    P +V LV+ + T +      +   F+  + + G I
Sbjct: 306 DTAGRSQRDKRLIEELKALIEFSGEPIDVYLVL-SATTKYEDLKDIYKHFSR-LPLDGLI 363

Query: 329 LTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM-EDLEPFYPDRMAGRILG 378
            TKLD  S  G+ LS+   SG PI  +  G+R+ +D++   P+ +   +LG
Sbjct: 364 FTKLDETSSLGSILSLLIESGLPISYLTNGQRVPDDIKVANPEELVRLLLG 414

Length = 424

>gnl|CDD|224337 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and secretion]

 Score =  102 bits (257), Expect = 8e-24
 Identities = 75/227 (33%), Positives = 118/227 (51%), Gaps = 17/227 (7%)

Query: 158 VKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANY--LKKQGKSCM 215
           ++   ++L KL+   +  L+  + R  VI L G  GVGKTT  AKLA    + K+ K   
Sbjct: 180 LRYFSEKLRKLLLSLIENLIVEQKR--VIALVGPTGVGKTTTLAKLAARYVMLKKKKKVA 237

Query: 216 LVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK--KNVDVVIVDT 273
           ++  D YR  A++QL    + +GVP+            + + L EA +  ++ DV++VDT
Sbjct: 238 IITTDTYRIGAVEQLKTYADIMGVPLEVV--------YSPKELAEAIEALRDCDVILVDT 289

Query: 274 AGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA-MTGQEAAALVTTFNIEIGITGAILTKL 332
           AGR Q DK  ++ELK++  V +  EV LV+ A    ++   ++  F+    I G I TKL
Sbjct: 290 AGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFS-LFPIDGLIFTKL 348

Query: 333 DGDSRGGAALSVKEVSGKPIKLVGRGERM-EDLEPFYPDRMAGRILG 378
           D  +  G   S+   +  P+  V  G+R+ ED+    PD +  RILG
Sbjct: 349 DETTSLGNLFSLMYETRLPVSYVTNGQRVPEDIVVANPDYLVRRILG 395

Length = 407

>gnl|CDD|234232 TIGR03499, FlhF, flagellar biosynthetic protein FlhF

 Score = 83.5 bits (207), Expect = 7e-18
 Identities = 50/177 (28%), Positives = 75/177 (42%), Gaps = 23/177 (12%)

Query: 103 ETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVR 162
             L  +        +   LLEA VS  + R  ++ + E              +   + +R
Sbjct: 126 AGLALQRRDPEGAKLLERLLEAGVSEELARELLEKLPEDL----------DAEDAWRWLR 175

Query: 163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANY--LKKQGKSCMLVAGD 220
           + L  ++  +  E      R  VI L G  GVGKTT  AKLA    L+   K   L+  D
Sbjct: 176 EALEGMLPVKPEE-DPILERGGVIALVGPTGVGKTTTLAKLAARFVLEHGKKKVALITTD 234

Query: 221 VYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK--KNVDVVIVDTAG 275
            YR  A++QL    E +GVPV  A           + L EA    ++ D++++DTAG
Sbjct: 235 TYRIGAVEQLKTYAEILGVPVKVARDP--------KELAEALDRLRDKDLILIDTAG 283

[Cellular processes, Chemotaxis and motility]. Length = 283

>gnl|CDD|214941 smart00963, SRP54_N, SRP54-type protein, helical bundle domain

 Score = 73.0 bits (180), Expect = 4e-16
 Identities = 31/78 (39%), Positives = 53/78 (67%), Gaps = 1/78 (1%)

Query: 92  LEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGV 151
           L  A  KL GE  LT+++  E + ++  ALLEADV + VV+  ++ V E+A G  +++G+
Sbjct: 1   LSKALGKLLGELFLTEKDDEELLEELEEALLEADVGVEVVKEIIERVKEKAKG-EVLKGL 59

Query: 152 RPDQQLVKIVRDELVKLM 169
            P Q++ KI+++ELVK++
Sbjct: 60  TPKQEVKKILKEELVKIL 77

This entry represents the N-terminal helical bundle 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. Length = 77

>gnl|CDD|202493 pfam02978, SRP_SPB, Signal peptide binding domain

 Score = 71.4 bits (176), Expect = 2e-15
 Identities = 27/58 (46%), Positives = 40/58 (68%), Gaps = 2/58 (3%)

Query: 410 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA--QVREAEKSLKIMEAMIEAMTP 465
           F   DFL+Q + + +MG +S+++ MIPGMGK+ P    V   EK LK +EA+I++MTP
Sbjct: 2   FTLRDFLEQLQQIKKMGPLSKLLSMIPGMGKLMPKEKNVELDEKKLKRIEAIIDSMTP 59

Length = 101

>gnl|CDD|237802 PRK14723, flhF, flagellar biosynthesis regulator FlhF; Provisional

 Score = 72.5 bits (178), Expect = 2e-13
 Identities = 82/297 (27%), Positives = 131/297 (44%), Gaps = 47/297 (15%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRD-IRRALLEADVSLPVVR----RFVQAV 138
           M  +  +GL  A  ++ G +         P+R  + R LL A  S  + R    R     
Sbjct: 105 MLERQLAGLLWAAGEVAGRD---------PLRASLFRWLLGAGFSGQLARALLERLPVGY 155

Query: 139 SEQAVGVGLIRGVRPDQQLVK---IVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVG 195
             +   +  IR      +L     ++RDE   L  G V  LV            G  GVG
Sbjct: 156 D-RPAAMAWIRN-----ELATHLPVLRDEDALLAQGGVLALV------------GPTGVG 197

Query: 196 KTTVSAKL-ANYLKKQGKSCM-LVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQI 253
           KTT +AKL A  + ++G   + L+  D +R  A++QL I G  +GVPV+     VK +  
Sbjct: 198 KTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHA----VKDAAD 253

Query: 254 AKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-GQEAA 312
            +  L     K+  +V++DT G  Q D+ + +++  +  V  P   LL+++A + G    
Sbjct: 254 LRFALAALGDKH--LVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLN 311

Query: 313 ALVTTFNIEIG--ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM-EDLEP 366
            +V  +    G  + G I+TKLD  +  G AL        P+  V  G+++ E LE 
Sbjct: 312 EVVHAYRHGAGEDVDGCIITKLDEATHLGPALDTVIRHRLPVHYVSTGQKVPEHLEL 368

Length = 767

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 63.2 bits (153), Expect = 6e-12
 Identities = 32/150 (21%), Positives = 54/150 (36%), Gaps = 13/150 (8%)

Query: 182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPV 241
              VIL+ G  G GKTT++  LA  L   G   + + G+      +DQL+++        
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60

Query: 242 YTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRL-------QIDKAMMDELKDVKRVL 294
            +           +  L  A+K   DV+I+D    L        +       L  + +  
Sbjct: 61  GSGE------LRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSE 114

Query: 295 NPTEVLLVVDAMTGQEAAALVTTFNIEIGI 324
               V+L  +       A L   F+  I +
Sbjct: 115 KNLTVILTTNDEKDLGPALLRRRFDRRIVL 144

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. Length = 148

>gnl|CDD|183360 PRK11889, flhF, flagellar biosynthesis regulator FlhF; Provisional

 Score = 67.0 bits (163), Expect = 7e-12
 Identities = 54/187 (28%), Positives = 88/187 (47%), Gaps = 6/187 (3%)

Query: 174 SELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVIL 233
           +E VF K   T+ L+ G  GVGKTT  AK+A     + K+   +  D  R   + QL   
Sbjct: 233 TENVFEKEVQTIALI-GPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDY 291

Query: 234 GEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRV 293
            + +G  V     E   ++      EEA+   VD +++DTAG+       ++E+ +    
Sbjct: 292 VKTIGFEVIAVRDEAAMTRALTYFKEEAR---VDYILIDTAGKNYRASETVEEMIETMGQ 348

Query: 294 LNPTEVLLVVDA-MTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPI 352
           + P  + L + A M  ++   ++T F  +I I G + TK D  +  G  L +  VS  PI
Sbjct: 349 VEPDYICLTLSASMKSKDMIEIITNFK-DIHIDGIVFTKFDETASSGELLKIPAVSSAPI 407

Query: 353 KLVGRGE 359
            L+  G+
Sbjct: 408 VLMTDGQ 414

Length = 436

>gnl|CDD|75717 PRK06731, flhF, flagellar biosynthesis regulator FlhF; Validated

 Score = 64.0 bits (155), Expect = 2e-11
 Identities = 54/187 (28%), Positives = 88/187 (47%), Gaps = 6/187 (3%)

Query: 174 SELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVIL 233
           +E VF K   T+ L+ G  GVGKTT  AK+A     + K+   +  D  R   + QL   
Sbjct: 67  TENVFEKEVQTIALI-GPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDY 125

Query: 234 GEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRV 293
            + +G  V     E   ++      EEA+   VD +++DTAG+       ++E+ +    
Sbjct: 126 VKTIGFEVIAVRDEAAMTRALTYFKEEAR---VDYILIDTAGKNYRASETVEEMIETMGQ 182

Query: 294 LNPTEVLLVVDA-MTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPI 352
           + P  + L + A M  ++   ++T F  +I I G + TK D  +  G  L +  VS  PI
Sbjct: 183 VEPDYICLTLSASMKSKDMIEIITNFK-DIHIDGIVFTKFDETASSGELLKIPAVSSAPI 241

Query: 353 KLVGRGE 359
            L+  G+
Sbjct: 242 VLMTDGQ 248

Length = 270

>gnl|CDD|173185 PRK14722, flhF, flagellar biosynthesis regulator FlhF; Provisional

 Score = 63.6 bits (154), Expect = 5e-11
 Identities = 58/193 (30%), Positives = 90/193 (46%), Gaps = 17/193 (8%)

Query: 182 RPTVILLAGLQGVGKTTVSAKLAN--YLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV 239
           R  V  L G  GVGKTT +AKLA    ++       L+  D YR    +QL I G+ +GV
Sbjct: 136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGV 195

Query: 240 PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEV 299
           PV+     VK     +  L E + K++  V++DT G  Q D+ + D++  +     P + 
Sbjct: 196 PVHA----VKDGGDLQLALAELRNKHM--VLIDTIGMSQRDRTVSDQIAMLHGADTPVQR 249

Query: 300 LLVVDAMT-GQEAAALVTTFNIEIG--------ITGAILTKLDGDSRGGAALSVKEVSGK 350
           LL+++A + G     +V  +    G        + G ILTKLD  S  G  L        
Sbjct: 250 LLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEASNLGGVLDTVIRYKL 309

Query: 351 PIKLVGRGERMED 363
           P+  V  G+++ +
Sbjct: 310 PVHYVSTGQKVPE 322

Length = 374

>gnl|CDD|237182 PRK12727, PRK12727, flagellar biosynthesis regulator FlhF; Provisional

 Score = 62.7 bits (152), Expect = 2e-10
 Identities = 60/181 (33%), Positives = 82/181 (45%), Gaps = 9/181 (4%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQ--GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY 242
           VI L G  G GKTT  AKLA     Q   +   LV  D  R    +QL   G Q+G+ V+
Sbjct: 352 VIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVH 411

Query: 243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLV 302
            A +      +    LE  + ++  +V++DTAG  Q D+A+  +L  + R       LLV
Sbjct: 412 EADSAESLLDL----LE--RLRDYKLVLIDTAGMGQRDRALAAQLNWL-RAARQVTSLLV 464

Query: 303 VDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERME 362
           + A         V          G +LTKLD   R G+ALSV      PI  V  G+R+ 
Sbjct: 465 LPANAHFSDLDEVVRRFAHAKPQGVVLTKLDETGRFGSALSVVVDHQMPITWVTDGQRVP 524

Query: 363 D 363
           D
Sbjct: 525 D 525

Length = 559

>gnl|CDD|217266 pfam02881, SRP54_N, SRP54-type protein, helical bundle domain

 Score = 56.1 bits (136), Expect = 3e-10
 Identities = 21/81 (25%), Positives = 41/81 (50%), Gaps = 7/81 (8%)

Query: 88  LTSGLEAAWNKLKG---EETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVG 144
           L  GL    +KL G   +  L ++ I E + ++  ALLEADV +    + ++ + E    
Sbjct: 1   LKEGLSKTRSKLGGKIKDLFLGEKKIDELLEELEEALLEADVGVETTEKIIERLKELV-- 58

Query: 145 VGLIRGVRPDQQLVKIVRDEL 165
               +G+   +++ K +++EL
Sbjct: 59  --GRKGLSDPEEIKKALKEEL 77

Length = 77

>gnl|CDD|183704 PRK12726, PRK12726, flagellar biosynthesis regulator FlhF; Provisional

 Score = 61.3 bits (148), Expect = 4e-10
 Identities = 76/316 (24%), Positives = 144/316 (45%), Gaps = 24/316 (7%)

Query: 66  KSVTIRRNGRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEAD 125
           KSV   R     L+ + ++   L +G E A +    EE  T+E  +  MR +  A L  +
Sbjct: 74  KSVVKNRPKTDDLLKKEKLLEMLAAGAELAQSTPLLEERKTQEEELSAMR-LELAALNRE 132

Query: 126 VSLPVVRR------FVQ-----AVSEQAVGVGLIRGVRPDQQL----VKIVRDELVKLMG 170
           +++ +         FV+      +S+  V   +  G +  +Q+    +  + D  V  + 
Sbjct: 133 LAVKMREEREQNSDFVKFLKGRGISDTYVADFMQAGRKQFKQVETAHLDDITDWFVPYLS 192

Query: 171 GEVS-ELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQ 229
           G+++ E  F  S   +I L G  GVGKTT   KL   L KQ ++   +  D +R  A++Q
Sbjct: 193 GKLAVEDSFDLSNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQ 252

Query: 230 LVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKD 289
                +++ V +  A +   P+++ +          VD +++DT GR  + +  + E+  
Sbjct: 253 FQGYADKLDVELIVATS---PAELEEAVQYMTYVNCVDHILIDTVGRNYLAEESVSEISA 309

Query: 290 VKRVLNPTEVLLVVDAMTGQEAAALVTTFN--IEIGITGAILTKLDGDSRGGAALSVKEV 347
              V++P   L      +G ++A ++T      EI I G I+TK+D  +R G   +V + 
Sbjct: 310 YTDVVHPD--LTCFTFSSGMKSADVMTILPKLAEIPIDGFIITKMDETTRIGDLYTVMQE 367

Query: 348 SGKPIKLVGRGERMED 363
           +  P+  +  G+ + +
Sbjct: 368 TNLPVLYMTDGQNITE 383

Length = 407

>gnl|CDD|235904 PRK06995, flhF, flagellar biosynthesis regulator FlhF; Validated

 Score = 60.0 bits (146), Expect = 1e-09
 Identities = 63/183 (34%), Positives = 88/183 (48%), Gaps = 42/183 (22%)

Query: 177 VFAKSRPTVILLAGLQGVGKTTVSAKL-ANYLKKQGKSCM-LVAGDVYRPAAIDQLVILG 234
           VFA   PT        GVGKTT +AKL A  + + G S + L+  D YR    +QL I G
Sbjct: 258 VFALMGPT--------GVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYG 309

Query: 235 EQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDEL------- 287
           + +GVPV+     VK +   +  L E + K+  +V++DT G  Q D+ + +++       
Sbjct: 310 KILGVPVHA----VKDAADLRLALSELRNKH--IVLIDTIGMSQRDRMVSEQIAMLHGAG 363

Query: 288 KDVKR--VLNPT---EVLL-VVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAA 341
             VKR  +LN T   + L  VV A  G              G+ G ILTKLD  +  G A
Sbjct: 364 APVKRLLLLNATSHGDTLNEVVQAYRGP-------------GLAGCILTKLDEAASLGGA 410

Query: 342 LSV 344
           L V
Sbjct: 411 LDV 413

Length = 484

>gnl|CDD|183703 PRK12724, PRK12724, flagellar biosynthesis regulator FlhF; Provisional

 Score = 59.6 bits (144), Expect = 1e-09
 Identities = 45/158 (28%), Positives = 71/158 (44%), Gaps = 11/158 (6%)

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLA-NYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVG 238
           K++  V+   G  G GKTT  AKLA  Y    GKS  L   D YR AAI+QL    + +G
Sbjct: 220 KNQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMG 279

Query: 239 VPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL---N 295
           +P Y       P +  K+  E   +   +++++DTAG    +   ++ ++         +
Sbjct: 280 MPFY-------PVKDIKKFKETLARDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKD 332

Query: 296 PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLD 333
             E LLV+ + +       V      +     +LTKLD
Sbjct: 333 SVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTKLD 370

Length = 432

>gnl|CDD|173184 PRK14721, flhF, flagellar biosynthesis regulator FlhF; Provisional

 Score = 58.4 bits (141), Expect = 4e-09
 Identities = 53/183 (28%), Positives = 89/183 (48%), Gaps = 9/183 (4%)

Query: 185 VILLAGLQGVGKTTVSAKLAN--YLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY 242
           V  L G  GVGKTT +AKLA    ++       L+  D YR    +QL I G+ +GV V 
Sbjct: 193 VYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVR 252

Query: 243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLV 302
           +    +K     +  L E + K+  +V++DT G  Q D+ + +++  + +     + LL+
Sbjct: 253 S----IKDIADLQLMLHELRGKH--MVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLL 306

Query: 303 VDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM- 361
           ++A +  +    V +     GI G I+TK+D  +  G AL         +  V  G+++ 
Sbjct: 307 LNATSSGDTLDEVISAYQGHGIHGCIITKVDEAASLGIALDAVIRRKLVLHYVTNGQKVP 366

Query: 362 EDL 364
           EDL
Sbjct: 367 EDL 369

Length = 420

>gnl|CDD|238941 cd01983, Fer4_NifH, The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

 Score = 52.0 bits (125), Expect = 1e-08
 Identities = 29/152 (19%), Positives = 46/152 (30%), Gaps = 59/152 (38%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTA 244
           VI++ G  GVGKTT++A LA  L K+GK  +L+                           
Sbjct: 1   VIVVTGKGGVGKTTLAANLAAALAKRGKRVLLID-------------------------- 34

Query: 245 GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVD 304
                                 D V++DT   L +       L  +  +L    V++V  
Sbjct: 35  ----------------------DYVLIDTPPGLGL-----LVLLCLLALLAADLVIIVTT 67

Query: 305 AMTGQEAAALVTT------FNIEIGITGAILT 330
                   A   T          +   G ++ 
Sbjct: 68  PEALAVLGARRLTEVVLELAIEGLRPVGVVVN 99

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion. Length = 99

>gnl|CDD|183702 PRK12723, PRK12723, flagellar biosynthesis regulator FlhF; Provisional

 Score = 50.7 bits (121), Expect = 1e-06
 Identities = 65/281 (23%), Positives = 115/281 (40%), Gaps = 45/281 (16%)

Query: 99  LKGEETLTKENIVEPMRDIRRALLEA--DVSLPVVRRFVQAVSEQAVGVGLIRGVR---- 152
           +K EE  + E++++ ++ ++  L     +++ P + +    + E       I+ +     
Sbjct: 77  IKKEENSSIEDVLKEVKSLKNELAHKKEEINHPTILKIEDILRENDFSESYIKDINEFIK 136

Query: 153 --------PDQQLVK----IVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVS 200
                    D   V+    I   + +K  G  +  L     +  V +L G  GVGKTT  
Sbjct: 137 KEFSLSDLDDYDKVRDSVIIYIAKTIKCSGSIIDNL-----KKRVFILVGPTGVGKTTTI 191

Query: 201 AKLANYL----KKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQ 256
           AKLA         +  +  ++  D YR  A  Q+   G+ +G+PV      ++  +  K+
Sbjct: 192 AKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPV----KAIESFKDLKE 247

Query: 257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNP----TEVLLVVDAMTGQEAA 312
             E  + K+ D+V+VDT G+   D   + E+K+   +LN      E  L V + T     
Sbjct: 248 --EITQSKDFDLVLVDTIGKSPKDFMKLAEMKE---LLNACGRDAEFHLAVSSTTKTSDV 302

Query: 313 ALVTTFNIEIGITGAILTKLDGDSRGGAALSV-----KEVS 348
             +            I TKLD  +  G  +S+     KEVS
Sbjct: 303 KEIFHQFSPFSYKTVIFTKLDETTCVGNLISLIYEMRKEVS 343

Length = 388

>gnl|CDD|216586 pfam01583, APS_kinase, Adenylylsulphate kinase

 Score = 43.8 bits (104), Expect = 3e-05
 Identities = 16/42 (38%), Positives = 21/42 (50%)

Query: 182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR 223
           R   I   GL G GK+T++  L   L  QG S  ++ GD  R
Sbjct: 1   RGCTIWFTGLSGSGKSTIANALERKLFAQGISVYVLDGDNVR 42

Enzyme that catalyzes the phosphorylation of adenylylsulphate to 3'-phosphoadenylylsulfate. This domain contains an ATP binding P-loop motif. Length = 157

>gnl|CDD|223603 COG0529, CysC, Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

 Score = 44.2 bits (105), Expect = 4e-05
 Identities = 15/44 (34%), Positives = 21/44 (47%)

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR 223
             +  VI   GL G GK+T++  L   L  +G    L+ GD  R
Sbjct: 20  GQKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVR 63

Length = 197

>gnl|CDD|238985 cd02027, APSK, Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

 Score = 40.5 bits (96), Expect = 4e-04
 Identities = 15/39 (38%), Positives = 23/39 (58%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR 223
           VI L GL G GK+T++  L   L ++G+   ++ GD  R
Sbjct: 1   VIWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGDNVR 39

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate. Length = 149

>gnl|CDD|238992 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

 Score = 41.1 bits (97), Expect = 5e-04
 Identities = 41/177 (23%), Positives = 63/177 (35%), Gaps = 53/177 (29%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA------IDQLVILGEQVG 238
           VI   G  GVGKTT++A  A  L ++GK  +LV+ D   PA       +  L        
Sbjct: 1   VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVSTD---PAHNLSDKGLPNLSDAFIVED 57

Query: 239 VPVYT--AGTEVKPSQIAKQ-----------------GLEEA----------KKKNVDVV 269
             +       EV  ++  ++                 G+EE            +   DV+
Sbjct: 58  PEIAPNLYREEVDATRRVERAWGGEGGLMLELAAALPGIEELASLLAVFREFSEGLYDVI 117

Query: 270 IVDTA--G---RLQIDKAMMDELKDVKRVLNPTEVLLVV--DAMTGQEAAALVTTFN 319
           + DTA  G   RL     + + L D +R    T   LV   + +   E    +T   
Sbjct: 118 VFDTAPTGHTLRL----LVRELLTDPER----TSFRLVTLPEKLPLYETERAITELA 166

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence. Length = 217

>gnl|CDD|238991 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)

 Score = 38.8 bits (91), Expect = 8e-04
 Identities = 16/36 (44%), Positives = 23/36 (63%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD 220
            I + G  GVGKTT++A LA YL ++GK  + +  D
Sbjct: 1   KIAITGKGGVGKTTIAALLARYLAEKGKPVLAIDAD 36

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. Length = 116

>gnl|CDD|223563 COG0489, Mrp, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

 Score = 40.9 bits (96), Expect = 0.001
 Identities = 38/201 (18%), Positives = 67/201 (33%), Gaps = 44/201 (21%)

Query: 190 GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILG--EQVGVPVYTAGTE 247
           G  GVGK+TV+  LA  L + GK  +L+  D+  P+      +LG     G+    AG  
Sbjct: 65  GKGGVGKSTVAVNLAAALAQLGKRVLLLDADLRGPS---IPRMLGLENLPGLTELLAGEA 121

Query: 248 VKP---------------------------SQIAKQGLEEAKKKNVDVVIVDTA-GRLQI 279
           ++P                           S+   Q LE+      D VI+DT  G    
Sbjct: 122 LEPVIQHDGIKVLSILPLGPVPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPGTGDA 181

Query: 280 DKAMMDELKDVKRVLNPTEVLLVV--DAMTGQEAAALVTTFN-IEIGITGAILTKLDGDS 336
           D  ++  + D         V++V        ++    +       I + G +        
Sbjct: 182 DATVLQRIPD--------GVVIVTTPGKTALEDVKKAIDMLEKAGIPVLGVVENMSYFIC 233

Query: 337 RGGAALSVKEVSGKPIKLVGR 357
                   ++ + +    +G 
Sbjct: 234 PRCGEGGGEKYAERYGPYLGS 254

Length = 265

>gnl|CDD|238993 cd02036, MinD, Bacterial cell division requires the formation of a septum at mid-cell

 Score = 38.7 bits (91), Expect = 0.002
 Identities = 32/153 (20%), Positives = 55/153 (35%), Gaps = 45/153 (29%)

Query: 193 GVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQ 252
           GVGKTT +A L   L + G   +L+  D+     +D ++ L  +V   VYT         
Sbjct: 10  GVGKTTTTANLGTALAQLGYKVVLIDADLGLR-NLDLILGLENRV---VYTL-------- 57

Query: 253 IAKQGLEEAKKKNV---DVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ 309
                       +V   D +++D+   ++          D        E LLV       
Sbjct: 58  -----------HDVLAGDYILIDSPAGIERGFITAIAPAD--------EALLVTTP---- 94

Query: 310 EAAALVTTFNI-------EIGITGAILTKLDGD 335
           E ++L     +        I + G I+ ++  D
Sbjct: 95  EISSLRDADRVKGLLEALGIKVVGVIVNRVRPD 127

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer. Length = 179

>gnl|CDD|217004 pfam02374, ArsA_ATPase, Anion-transporting ATPase

 Score = 39.6 bits (93), Expect = 0.002
 Identities = 20/43 (46%), Positives = 23/43 (53%), Gaps = 3/43 (6%)

Query: 183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA 225
              I   G  GVGKTTVS   A  L +QGK  +LV+ D   PA
Sbjct: 1   MRWIFFGGKGGVGKTTVSCATAVRLSEQGKKVLLVSTD---PA 40

This Pfam family represents a conserved domain, which is sometimes repeated, in an anion-transporting ATPase. The ATPase is involved in the removal of arsenate, antimonite, and arsenate from the cell. Length = 304

>gnl|CDD|226691 COG4240, COG4240, Predicted kinase [General function prediction only]

 Score = 39.5 bits (92), Expect = 0.002
 Identities = 22/97 (22%), Positives = 41/97 (42%), Gaps = 4/97 (4%)

Query: 141 QAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVS 200
            A     I   R       + +D  + L   +++     + RP ++ ++G QG GK+T+S
Sbjct: 9   AAALARFIDQERLPPAFAALAQDLHLPL-LAKIAPWAQERGRPLIVGISGPQGSGKSTLS 67

Query: 201 AKLANYLKKQGKSCMLVAG--DVYRPAAIDQLVILGE 235
           A +   L  +G          D+Y   A D+L +  +
Sbjct: 68  ALIVRLLAAKGLERTATLSLDDLYLTHA-DRLRLARQ 103

Length = 300

>gnl|CDD|224985 COG2074, COG2074, 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

 Score = 38.9 bits (91), Expect = 0.004
 Identities = 26/95 (27%), Positives = 47/95 (49%), Gaps = 9/95 (9%)

Query: 119 RALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSE--- 175
           R+L  A V   +       + E+    G IR V  D+ + ++ + +L++    EV++   
Sbjct: 22  RSLTAAGVDPDLAYSIAIEIQEELKKEG-IRLVTKDE-IREVYQ-KLLEKGDPEVAKRYL 78

Query: 176 ---LVFAKSRPTVILLAGLQGVGKTTVSAKLANYL 207
               +    RP +IL+ G  GVGK+T++ +LA  L
Sbjct: 79  LWRRIRKMKRPLIILIGGASGVGKSTIAGELARRL 113

Length = 299

>gnl|CDD|219014 pfam06414, Zeta_toxin, Zeta toxin

 Score = 38.0 bits (89), Expect = 0.004
 Identities = 22/100 (22%), Positives = 41/100 (41%), Gaps = 13/100 (13%)

Query: 181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP--AAIDQLVILGEQVG 238
            RP  +LL G  G GKT ++  L   L   G + + +  D  R      D+L        
Sbjct: 10  ERPVAVLLGGQPGAGKTELARALLEEL--GGGNVVRIDPDELRTYHPDYDELQKAD---- 63

Query: 239 VPVYTAGTEVKP--SQIAKQGLEEAKKKNVDVVIVDTAGR 276
                A    +P  S+  ++ ++ A ++  + +I++   R
Sbjct: 64  --PKDASELTQPDASRWVEKLIDYAIERGYN-IILEGTLR 100

This family consists of several bacterial zeta toxin proteins. Zeta toxin is thought to be part of a postregulational killing system in bacteria. It relies on antitoxin/toxin systems that secure stable inheritance of low and medium copy number plasmids during cell division and kill cells that have lost the plasmid. Length = 191

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	481
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	100.0
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	100.0
PRK10867	433	signal recognition particle protein; Provisional	100.0
KOG0780	483	consensus Signal recognition particle, subunit Srp	100.0
TIGR00959	428	ffh signal recognition particle protein. This mode	100.0
PRK00771	437	signal recognition particle protein Srp54; Provisi	100.0
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	100.0
PRK14974	336	cell division protein FtsY; Provisional	100.0
PRK10416	318	signal recognition particle-docking protein FtsY;	100.0
TIGR00064	272	ftsY signal recognition particle-docking protein F	100.0
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	100.0
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	100.0
COG1797	451	CobB Cobyrinic acid a,c-diamide synthase [Coenzyme	100.0
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	100.0
KOG0781	587	consensus Signal recognition particle receptor, al	100.0
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	100.0
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	100.0
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	100.0
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	100.0
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	100.0
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	100.0
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	100.0
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	99.97
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	99.97
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	99.96
PRK13896	433	cobyrinic acid a,c-diamide synthase; Provisional	99.94
cd03115	173	SRP The signal recognition particle (SRP) mediates	99.93
TIGR00379	449	cobB cobyrinic acid a,c-diamide synthase. This mod	99.9
PRK01077	451	cobyrinic acid a,c-diamide synthase; Validated	99.89
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	99.81
PRK06278	476	cobyrinic acid a,c-diamide synthase; Validated	99.68
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	99.67
cd02117	212	NifH_like This family contains the NifH (iron prot	99.67
PRK11670	369	antiporter inner membrane protein; Provisional	99.63
PRK13235	274	nifH nitrogenase reductase; Reviewed	99.62
PRK13232	273	nifH nitrogenase reductase; Reviewed	99.61
cd02040	270	NifH NifH gene encodes component II (iron protein)	99.59
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	99.59
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	99.59
PRK13233	275	nifH nitrogenase reductase; Reviewed	99.58
PRK13236	296	nitrogenase reductase; Reviewed	99.58
cd03110	179	Fer4_NifH_child This protein family's function is	99.58
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	99.57
PHA02518	211	ParA-like protein; Provisional	99.57
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	99.56
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	99.55
COG0489	265	Mrp ATPases involved in chromosome partitioning [C	99.55
cd02032	267	Bchl_like This family of proteins contains bchL an	99.55
PRK13234	295	nifH nitrogenase reductase; Reviewed	99.55
PRK00784	488	cobyric acid synthase; Provisional	99.54
TIGR03029	274	EpsG chain length determinant protein tyrosine kin	99.53
cd02036	179	MinD Bacterial cell division requires the formatio	99.52
CHL00072	290	chlL photochlorophyllide reductase subunit L	99.52
COG2894	272	MinD Septum formation inhibitor-activating ATPase	99.52
CHL00175	281	minD septum-site determining protein; Validated	99.52
PRK13849	231	putative crown gall tumor protein VirC1; Provision	99.52
PRK13230	279	nitrogenase reductase-like protein; Reviewed	99.52
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	99.52
TIGR01287	275	nifH nitrogenase iron protein. This model describe	99.51
PRK09841	726	cryptic autophosphorylating protein tyrosine kinas	99.51
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	99.51
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	99.51
PRK13869	405	plasmid-partitioning protein RepA; Provisional	99.5
TIGR00313	475	cobQ cobyric acid synthase CobQ.	99.5
KOG3022	300	consensus Predicted ATPase, nucleotide-binding [Ce	99.49
TIGR02016	296	BchX chlorophyllide reductase iron protein subunit	99.49
cd02033	329	BchX Chlorophyllide reductase converts chlorophyll	99.49
PRK11519	719	tyrosine kinase; Provisional	99.49
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	99.46
PRK13231	264	nitrogenase reductase-like protein; Reviewed	99.46
PRK10818	270	cell division inhibitor MinD; Provisional	99.45
TIGR03453	387	partition_RepA plasmid partitioning protein RepA.	99.44
TIGR01005	754	eps_transp_fam exopolysaccharide transport protein	99.43
cd02035	217	ArsA ArsA ATPase functionas as an efflux pump loca	99.42
cd00550	254	ArsA_ATPase Oxyanion-translocating ATPase (ArsA).	99.42
PHA02519	387	plasmid partition protein SopA; Reviewed	99.41
PRK10037	250	cell division protein; Provisional	99.41
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.4
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	99.39
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	99.39
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.38
PRK13705	388	plasmid-partitioning protein SopA; Provisional	99.37
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	99.35
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.35
COG0455	262	flhG Antiactivator of flagellar biosynthesis FleN,	99.35
cd03114	148	ArgK-like The function of this protein family is u	99.34
COG1192	259	Soj ATPases involved in chromosome partitioning [C	99.32
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.29
PF00142	273	Fer4_NifH: 4Fe-4S iron sulfur cluster binding prot	99.28
cd03111	106	CpaE_like This protein family consists of proteins	99.28
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	99.26
PF06564	243	YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ p	99.26
PF09140	261	MipZ: ATPase MipZ; InterPro: IPR015223 Cell divisi	99.26
PRK00090	222	bioD dithiobiotin synthetase; Reviewed	99.23
COG1348	278	NifH Nitrogenase subunit NifH (ATPase) [Inorganic	99.21
PRK13768	253	GTPase; Provisional	99.2
PF02978	104	SRP_SPB: Signal peptide binding domain; InterPro:	99.18
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	99.14
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.08
PF13500	199	AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R	99.06
COG1149	284	MinD superfamily P-loop ATPase containing an inser	99.03
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	99.02
cd02034	116	CooC The accessory protein CooC, which contains a	98.99
TIGR00347	166	bioD dethiobiotin synthase. Dethiobiotin synthase	98.96
PRK12374	231	putative dithiobiotin synthetase; Provisional	98.92
PF13614	157	AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ	98.91
COG1159	298	Era GTPase [General function prediction only]	98.9
PRK05632	684	phosphate acetyltransferase; Reviewed	98.86
cd03109	134	DTBS Dethiobiotin synthetase (DTBS) is the penulti	98.84
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	98.84
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	98.81
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.81
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.8
COG0132	223	BioD Dethiobiotin synthetase [Coenzyme metabolism]	98.79
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	98.74
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.73
cd03112	158	CobW_like The function of this protein family is u	98.73
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.68
COG1341	398	Predicted GTPase or GTP-binding protein [General f	98.64
PRK13886	241	conjugal transfer protein TraL; Provisional	98.62
PF02881	75	SRP54_N: SRP54-type protein, helical bundle domain	98.6
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	98.59
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.57
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	98.51
PRK00089	292	era GTPase Era; Reviewed	98.49
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	98.48
TIGR02237	209	recomb_radB DNA repair and recombination protein R	98.47
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	98.43
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	98.42
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	98.42
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.41
PRK12337	475	2-phosphoglycerate kinase; Provisional	98.41
cd01394	218	radB RadB. The archaeal protein radB shares simila	98.4
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.4
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.34
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.34
PHA02542	473	41 41 helicase; Provisional	98.34
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	98.34
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	98.33
PRK15494	339	era GTPase Era; Provisional	98.33
PRK06067	234	flagellar accessory protein FlaH; Validated	98.33
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.33
PRK11537	318	putative GTP-binding protein YjiA; Provisional	98.31
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	98.29
KOG2825	323	consensus Putative arsenite-translocating ATPase [	98.29
smart00382	148	AAA ATPases associated with a variety of cellular	98.29
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	98.29
PRK04220	301	2-phosphoglycerate kinase; Provisional	98.28
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	98.24
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	98.24
PRK00889	175	adenylylsulfate kinase; Provisional	98.23
PRK08533	230	flagellar accessory protein FlaH; Reviewed	98.23
PRK09354	349	recA recombinase A; Provisional	98.21
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	98.2
cd00983	325	recA RecA is a bacterial enzyme which has roles in	98.2
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.19
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	98.18
COG1492	486	CobQ Cobyric acid synthase [Coenzyme metabolism]	98.17
PRK11823	446	DNA repair protein RadA; Provisional	98.15
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	98.13
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	98.13
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	98.09
PTZ00035	337	Rad51 protein; Provisional	98.08
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	98.06
PRK04328	249	hypothetical protein; Provisional	98.05
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	98.05
PRK12739	691	elongation factor G; Reviewed	98.04
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	98.04
PRK04296	190	thymidine kinase; Provisional	98.04
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.02
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	98.02
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.0
cd00881	189	GTP_translation_factor GTP translation factor fami	98.0
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.99
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	97.99
PRK00007	693	elongation factor G; Reviewed	97.98
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	97.98
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.98
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	97.95
PRK08760	476	replicative DNA helicase; Provisional	97.94
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.93
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	97.93
PRK06696	223	uridine kinase; Validated	97.92
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.91
KOG1533	290	consensus Predicted GTPase [General function predi	97.9
PRK05439	311	pantothenate kinase; Provisional	97.9
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.9
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.89
PRK05973	237	replicative DNA helicase; Provisional	97.88
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.87
KOG0635	207	consensus Adenosine 5'-phosphosulfate kinase [Inor	97.87
TIGR00665	434	DnaB replicative DNA helicase. This model describe	97.85
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.85
COG0523	323	Putative GTPases (G3E family) [General function pr	97.85
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.85
COG1160	444	Predicted GTPases [General function prediction onl	97.85
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	97.84
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	97.84
PRK13351	687	elongation factor G; Reviewed	97.84
PRK06526	254	transposase; Provisional	97.83
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.82
PRK09165	497	replicative DNA helicase; Provisional	97.81
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	97.8
PRK08233	182	hypothetical protein; Provisional	97.79
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.78
PRK07667	193	uridine kinase; Provisional	97.77
PRK05748	448	replicative DNA helicase; Provisional	97.77
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	97.76
PLN02974	817	adenosylmethionine-8-amino-7-oxononanoate transami	97.76
PRK14494	229	putative molybdopterin-guanine dinucleotide biosyn	97.76
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.74
PRK05595	444	replicative DNA helicase; Provisional	97.74
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	97.73
PRK00741	526	prfC peptide chain release factor 3; Provisional	97.72
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	97.71
PRK07952	244	DNA replication protein DnaC; Validated	97.71
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	97.7
cd03116	159	MobB Molybdenum is an essential trace element in t	97.7
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	97.69
TIGR00503	527	prfC peptide chain release factor 3. This translat	97.69
PRK06762	166	hypothetical protein; Provisional	97.68
PRK15453	290	phosphoribulokinase; Provisional	97.67
PRK09302	509	circadian clock protein KaiC; Reviewed	97.67
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	97.67
PRK12298	390	obgE GTPase CgtA; Reviewed	97.66
COG2074	299	2-phosphoglycerate kinase [Carbohydrate transport	97.66
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	97.66
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	97.65
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	97.64
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.64
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	97.62
PF00154	322	RecA: recA bacterial DNA recombination protein; In	97.62
COG4240	300	Predicted kinase [General function prediction only	97.62
PRK09866	741	hypothetical protein; Provisional	97.61
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	97.61
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	97.6
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.59
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	97.59
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	97.59
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	97.59
PRK00049	396	elongation factor Tu; Reviewed	97.59
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.56
PRK03846	198	adenylylsulfate kinase; Provisional	97.56
COG1084	346	Predicted GTPase [General function prediction only	97.56
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	97.56
PRK09302	509	circadian clock protein KaiC; Reviewed	97.56
PLN03127	447	Elongation factor Tu; Provisional	97.56
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	97.55
PRK08727	233	hypothetical protein; Validated	97.55
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.55
PRK09519	790	recA DNA recombination protein RecA; Reviewed	97.55
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	97.54
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	97.54
PRK08506	472	replicative DNA helicase; Provisional	97.53
PRK05541	176	adenylylsulfate kinase; Provisional	97.53
PRK12735	396	elongation factor Tu; Reviewed	97.53
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	97.53
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	97.51
PRK06749	428	replicative DNA helicase; Provisional	97.51
PRK00093	435	GTP-binding protein Der; Reviewed	97.51
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	97.51
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	97.5
PRK07773	886	replicative DNA helicase; Validated	97.49
PRK05480	209	uridine/cytidine kinase; Provisional	97.49
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	97.49
PRK05636	505	replicative DNA helicase; Provisional	97.48
KOG2743	391	consensus Cobalamin synthesis protein [Coenzyme tr	97.48
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	97.48
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	97.47
PRK14495	452	putative molybdopterin-guanine dinucleotide biosyn	97.47
PRK14489	366	putative bifunctional molybdopterin-guanine dinucl	97.46
COG1072	283	CoaA Panthothenate kinase [Coenzyme metabolism]	97.46
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.46
PF13245	76	AAA_19: Part of AAA domain	97.46
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	97.45
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	97.45
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	97.44
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.44
KOG0462	650	consensus Elongation factor-type GTP-binding prote	97.44
PRK08006	471	replicative DNA helicase; Provisional	97.44
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.43
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	97.43
PRK06893	229	DNA replication initiation factor; Validated	97.42
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	97.42
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.41
PRK12736	394	elongation factor Tu; Reviewed	97.41
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.41
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	97.41
KOG1534	273	consensus Putative transcription factor FET5 [Tran	97.4
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	97.39
PRK06835	329	DNA replication protein DnaC; Validated	97.38
PRK07004	460	replicative DNA helicase; Provisional	97.37
CHL00071	409	tufA elongation factor Tu	97.36
PRK15467	158	ethanolamine utilization protein EutP; Provisional	97.35
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	97.35
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.35
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.35
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	97.35
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	97.33
PRK03003	472	GTP-binding protein Der; Reviewed	97.33
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	97.33
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.33
PTZ00141	446	elongation factor 1- alpha; Provisional	97.32
TIGR00485	394	EF-Tu translation elongation factor TU. This align	97.32
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.32
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	97.31
PRK14491	597	putative bifunctional molybdopterin-guanine dinucl	97.31
PF09439	181	SRPRB: Signal recognition particle receptor beta s	97.31
COG1763	161	MobB Molybdopterin-guanine dinucleotide biosynthes	97.3
PLN00043	447	elongation factor 1-alpha; Provisional	97.29
PRK08181	269	transposase; Validated	97.29
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.29
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	97.29
PRK03003	472	GTP-binding protein Der; Reviewed	97.28
smart00178	184	SAR Sar1p-like members of the Ras-family of small	97.28
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	97.28
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	97.27
PRK06904	472	replicative DNA helicase; Validated	97.27
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.26
PF13479	213	AAA_24: AAA domain	97.26
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	97.26
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.26
PRK06321	472	replicative DNA helicase; Provisional	97.26
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.25
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	97.25
PRK00093	435	GTP-binding protein Der; Reviewed	97.24
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.24
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.24
PRK12377	248	putative replication protein; Provisional	97.23
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.23
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	97.23
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	97.22
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	97.21
PTZ00416	836	elongation factor 2; Provisional	97.21
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	97.21
PRK09183	259	transposase/IS protein; Provisional	97.2
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	97.2
KOG1805	1100	consensus DNA replication helicase [Replication, r	97.2
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.19
PRK12740	668	elongation factor G; Reviewed	97.19
PRK05433	600	GTP-binding protein LepA; Provisional	97.19
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	97.18
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	97.18
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	97.18
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	97.18
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.17
PLN03126	478	Elongation factor Tu; Provisional	97.17
PRK05642	234	DNA replication initiation factor; Validated	97.17
PRK11058	426	GTPase HflX; Provisional	97.17
TIGR00345	284	arsA arsenite-activated ATPase (arsA). The N-termi	97.17
PRK08840	464	replicative DNA helicase; Provisional	97.17
PF00004	132	AAA: ATPase family associated with various cellula	97.16
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	97.16
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	97.16
COG2403	449	Predicted GTPase [General function prediction only	97.15
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.15
PRK12422	445	chromosomal replication initiation protein; Provis	97.15
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	97.15
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.14
COG1160	444	Predicted GTPases [General function prediction onl	97.14
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	97.14
PLN03118	211	Rab family protein; Provisional	97.14
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.13
PRK07560	731	elongation factor EF-2; Reviewed	97.13
PRK12317	425	elongation factor 1-alpha; Reviewed	97.13
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	97.13
PRK08084	235	DNA replication initiation factor; Provisional	97.12
PHA02530	300	pseT polynucleotide kinase; Provisional	97.12
PRK12297	424	obgE GTPase CgtA; Reviewed	97.11
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	97.11
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	97.11
PRK12296	500	obgE GTPase CgtA; Reviewed	97.11
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	97.1
PRK13695	174	putative NTPase; Provisional	97.1
PLN00116	843	translation elongation factor EF-2 subunit; Provis	97.1
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	97.1
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	97.09
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	97.09
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	97.09
COG1217	603	TypA Predicted membrane GTPase involved in stress	97.08
KOG2749	415	consensus mRNA cleavage and polyadenylation factor	97.08
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.07
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	97.06
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	97.06
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.06
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.05
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	97.05
PLN03046	460	D-glycerate 3-kinase; Provisional	97.04
PRK08116	268	hypothetical protein; Validated	97.04
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	97.03
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	97.03
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	97.03
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	97.02
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	97.02
PLN02796	347	D-glycerate 3-kinase	97.02
PTZ00301	210	uridine kinase; Provisional	97.02
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	97.0
PRK10218	607	GTP-binding protein; Provisional	97.0
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.0
cd01881	176	Obg_like The Obg-like subfamily consists of five w	96.99
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	96.99
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	96.99
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	96.98
KOG0464	753	consensus Elongation factor G [Translation, riboso	96.98
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	96.98
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	96.97
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	96.97
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.96
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	96.96
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.94
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.94
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	96.94
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.94
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	96.93
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	96.93
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	96.93
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	96.92
PRK06921	266	hypothetical protein; Provisional	96.92
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	96.91
PRK04004	586	translation initiation factor IF-2; Validated	96.91
PRK12299	335	obgE GTPase CgtA; Reviewed	96.91
PRK08939	306	primosomal protein DnaI; Reviewed	96.91
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.9
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	96.89
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.88
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.87
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.87
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	96.87
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	96.87
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.85
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	96.85
cd04105	203	SR_beta Signal recognition particle receptor, beta	96.84
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	96.84
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	96.84
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	96.84
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	96.84
PRK00411	394	cdc6 cell division control protein 6; Reviewed	96.84
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.84
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	96.83
PRK04213	201	GTP-binding protein; Provisional	96.83
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	96.83
PRK06851	367	hypothetical protein; Provisional	96.83
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	96.81
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.81
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	96.81
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	96.8
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	96.8
PLN02348	395	phosphoribulokinase	96.79
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	96.79
TIGR01448	720	recD_rel helicase, putative, RecD/TraA family. Thi	96.79
PRK04040	188	adenylate kinase; Provisional	96.79
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	96.77
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.77
PRK05306	787	infB translation initiation factor IF-2; Validated	96.76
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	96.75
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.74
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	96.74
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.73
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.73
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	96.73
PRK06547	172	hypothetical protein; Provisional	96.73
PRK01184	184	hypothetical protein; Provisional	96.72
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	96.71
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	96.71
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	96.71
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	96.71
PHA00729	226	NTP-binding motif containing protein	96.7
CHL00189	742	infB translation initiation factor 2; Provisional	96.69
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	96.69
CHL00095	821	clpC Clp protease ATP binding subunit	96.68
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	96.68
cd03113	255	CTGs CTP synthetase (CTPs) is a two-domain protein	96.68
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	96.68
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	96.67
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	96.66
PRK14087	450	dnaA chromosomal replication initiation protein; P	96.66
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	96.66
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.66
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.66
COG0486	454	ThdF Predicted GTPase [General function prediction	96.66
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	96.65
PLN00223	181	ADP-ribosylation factor; Provisional	96.65
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.63
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	96.63
PF07755	301	DUF1611: Protein of unknown function (DUF1611); In	96.62
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	96.61
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	96.6
PRK06761	282	hypothetical protein; Provisional	96.59
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	96.59
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	96.58
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	96.58
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	96.58
PRK00131	175	aroK shikimate kinase; Reviewed	96.58
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	96.57
PTZ00133	182	ADP-ribosylation factor; Provisional	96.57
PRK00652	325	lpxK tetraacyldisaccharide 4'-kinase; Reviewed	96.56
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	96.56
COG0050	394	TufB GTPases - translation elongation factors [Tra	96.56
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	96.56
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.55

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=100.00  E-value=1e-85  Score=667.26  Aligned_cols=398  Identities=55%  Similarity=0.869  Sum_probs=382.0

Q ss_pred             HHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHH
Q 011624           84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRD  163 (481)
Q Consensus        84 ~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  163 (481)
                      ||++|+++|++++++++++..++|++|++.++||+.+|+++||+..+|++|++++++++.+++++.+++|.|+++++|++
T Consensus         1 m~e~L~~~l~~~l~kl~g~~~i~E~~i~e~~reir~ALLeADVnl~vVk~fi~~ikera~g~ev~~~l~p~q~~iKiV~e   80 (451)
T COG0541           1 MFESLSDRLSNALKKLRGKGRITEKDVKEALREIRRALLEADVNLKVVKDFIKRIKERALGEEVPKGLTPGQQFIKIVYE   80 (451)
T ss_pred             ChHHHHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhccccCCCCCCHHHHHHHHHHH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeec
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT  243 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~  243 (481)
                      ||+++||++..++.+..++|.||+++|.+|+||||++++||.||+++|++|++|+||+|||++++||+++++..++|+|.
T Consensus        81 ELv~llG~~~~~~~l~~~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~  160 (451)
T COG0541          81 ELVKLLGGENSELNLAKKPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFG  160 (451)
T ss_pred             HHHHHhCCCCcccccCCCCCeEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceec
Confidence            99999998666777777789999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCC
Q 011624          244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG  323 (481)
Q Consensus       244 ~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~  323 (481)
                      .+...+|.+++++++++++...||+|||||+|+++.|..++.|+..+..+++|++++||+|+++||+++++++.|++.++
T Consensus       161 ~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~GQdA~~~A~aF~e~l~  240 (451)
T COG0541         161 SGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMIGQDAVNTAKAFNEALG  240 (451)
T ss_pred             CCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEecccchHHHHHHHHHhhhcC
Confidence            98788999999999999998889999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHH
Q 011624          324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQK  403 (481)
Q Consensus       324 i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~  403 (481)
                      ++|||+||+|+++++|.++++.+.+|.||+|+|+|++++||++|+|+|+++|+||+||+.+|+|++++..++++.++..+
T Consensus       241 itGvIlTKlDGdaRGGaALS~~~~tg~PIkFiGtGEki~dLE~F~P~R~asRILGMGDv~sLvEk~~~~~d~e~a~~~~~  320 (451)
T COG0541         241 ITGVILTKLDGDARGGAALSARAITGKPIKFIGTGEKIDDLEPFHPDRFASRILGMGDVLSLIEKAEEVVDEEEAEKLAE  320 (451)
T ss_pred             CceEEEEcccCCCcchHHHhhHHHHCCCeEEEecCCCcccCCCcChHHHHHHhcCcccHHHHHHHHHHhhhHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccccHHHHHHHHhhhhccCCccccccCCCCCC-CccccccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          404 KIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMG-KITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       404 k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~-~~~~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      ++.+++|||+||++|++++.+|||++++++|+||++ ..........+..|+++++||+|||.+|+.+|.+|++||+||
T Consensus       321 kl~~g~FtL~Df~~Ql~~m~kmGpl~~ll~miPG~~~~~~~~~~~~~e~~~kr~~aIi~SMT~~Er~nP~ii~~SR~rR  399 (451)
T COG0541         321 KLKKGKFTLEDFLEQLEQMKKMGPLSKLLSMIPGMGMKDSDKDIELDEKKLKRIEAIIDSMTPEERENPDIINASRKRR  399 (451)
T ss_pred             HHHhCCCCHHHHHHHHHHHHccCCHHHHHHhCCCCCCCCchhhhhccHHHHHHHHHHHHcCCHHHhhCccccChHHHHH
Confidence            999999999999999999999999999999999986 222222334577899999999999999999999999999987

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=100.00  E-value=2.5e-72  Score=582.49  Aligned_cols=398  Identities=28%  Similarity=0.517  Sum_probs=371.6

Q ss_pred             HHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHH
Q 011624           84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRD  163 (481)
Q Consensus        84 ~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  163 (481)
                      +|++|+++|.+++++++++..+++++|++++++|+.+|+++||+.+++++|++++++...+.++..+.+|.+++.+++++
T Consensus         1 ~l~~L~~~l~~~~~~l~~~~~l~e~~i~~~l~ei~~aLleaDV~~~vv~~~~~~v~~~~~~~~~~~~~~~~~~v~~~v~~   80 (429)
T TIGR01425         1 VLADLGSSITSALRSMSNATVIDEEVLNAMLKEICTALLESDVNIKLVRQLRENIKKAINLEEMASGLNKRKMIQHAVFK   80 (429)
T ss_pred             ChhHHHHHHHHHHHHHhCCCccCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHhccccccccCHHHHHHHHHHH
Confidence            47899999999999999999999999999999999999999999999999999999999999988899999999999999


Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeec
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT  243 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~  243 (481)
                      +|.+++++...++.+..++|++|+++|++||||||++++||.+|+++|++|++|++|+||+++++|++.+++..++|++.
T Consensus        81 ~L~~~l~~~~~~~~~~~~~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~  160 (429)
T TIGR01425        81 ELCNLVDPGVEAFTPKKGKQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYG  160 (429)
T ss_pred             HHHHHhCCCCccccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEe
Confidence            99999997766676666778999999999999999999999999999999999999999999999999999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCC
Q 011624          244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG  323 (481)
Q Consensus       244 ~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~  323 (481)
                      .....+|..+++++++.++..+||+|||||||+++.+..++.|+.++.....|++++||+|+++++++.++++.|+..++
T Consensus       161 ~~~~~dp~~i~~~~l~~~~~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~a~~F~~~~~  240 (429)
T TIGR01425       161 SYTESDPVKIASEGVEKFKKENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQAKAFKDSVD  240 (429)
T ss_pred             ecCCCCHHHHHHHHHHHHHhCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHHHHHHHhccC
Confidence            76677888888889988876789999999999999999999999999999999999999999999999999999998899


Q ss_pred             eeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHH
Q 011624          324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQK  403 (481)
Q Consensus       324 i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~  403 (481)
                      +.|+|+||+|+++++|.++++...+|+||.|+|+||+++|+++|+|+++++++||+||+.+|+|++++..++++..++.+
T Consensus       241 ~~g~IlTKlD~~argG~aLs~~~~t~~PI~fig~Ge~v~Dle~f~p~~~~~rilgmgDi~~L~ek~~~~~~~~~~~~~~~  320 (429)
T TIGR01425       241 VGSVIITKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEIFKTQPFISKLLGMGDIEGLIDKVQDLKLDDNEKALIE  320 (429)
T ss_pred             CcEEEEECccCCCCccHHhhhHHHHCCCeEEEcCCCChhhcCcCChHHHHHHHhcCCCcHHHHHHHHHhhhHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999888888999


Q ss_pred             hhhcccccHHHHHHHHhhhhccCCccccccCCCCCCC-ccccc-cchhhhcchhHHHHHHccChhhhcc--CCcc--ccc
Q 011624          404 KIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK-ITPAQ-VREAEKSLKIMEAMIEAMTPGIFFF--SIII--IGL  477 (481)
Q Consensus       404 k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~-~~~~~-~~d~a~~f~~~~~li~sm~~e~~~~--~~l~--~~~  477 (481)
                      ++.+++|||+||++|++++.+||+++++++|+||+++ +.... ....+..|+++++||+|||++||.+  |.+|  ++|
T Consensus       321 k~~~~~f~l~D~~~q~~~i~kmG~~~~i~~m~Pg~~~~~~~~~~~~~~~~~~~~~~aii~SMT~~Er~~~~p~i~~~~~s  400 (429)
T TIGR01425       321 KLKEGTFTLRDMYEQFQNLLKMGPLGQILSMIPGFSTDFMSKGNEEESMAKIKKLMTIMDSMTDQELDSTDGKVFSKQPS  400 (429)
T ss_pred             HHHhCCCCHHHHHHHHHHHHhccCHHHHHHhCcCcchhhhhhhcccccHHHHHhHHHHHhcCCHHHHccCCCccccCCcc
Confidence            9999999999999999999999999999999999763 32111 1234578999999999999999998  8999  889


Q ss_pred             ccCC
Q 011624          478 TFKR  481 (481)
Q Consensus       478 ~~~~  481 (481)
                      |++|
T Consensus       401 R~~R  404 (429)
T TIGR01425       401 RIQR  404 (429)
T ss_pred             HHHH
Confidence            9876

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=100.00  E-value=2.2e-71  Score=578.75  Aligned_cols=395  Identities=55%  Similarity=0.893  Sum_probs=371.4

Q ss_pred             HHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHH
Q 011624           84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRD  163 (481)
Q Consensus        84 ~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  163 (481)
                      ||++|+++|+++++++.++..+++++|++++++|+.+|+++||+.+++++|++++++++.+.++..+++|.+++.+++++
T Consensus         1 mf~~l~~~l~~~~~~l~~~~~~~e~~i~~~l~ei~~~Ll~aDV~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~v~~   80 (433)
T PRK10867          1 MFESLSDRLSSAFKKLRGKGRLTEADIKEALREVRLALLEADVNLPVVKDFIARVKEKAVGQEVLKSLTPGQQVIKIVND   80 (433)
T ss_pred             ChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHhhccccccCCcHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999888888888999999999999


Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      +|.+++++...++.+...+|.+|+++|++|+||||++++||.+|+++ |++|++|++|+|||++++|++.+++..|+|++
T Consensus        81 el~~~l~~~~~~~~~~~~~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~  160 (433)
T PRK10867         81 ELVEILGGENSELNLAAKPPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVF  160 (433)
T ss_pred             HHHHHhCCCcceeeecCCCCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEE
Confidence            99999987666666666679999999999999999999999999988 99999999999999999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcC
Q 011624          243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI  322 (481)
Q Consensus       243 ~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~  322 (481)
                      ......+|.++++++++.++..+||+|||||||+++.+..++.++..+...+.|++++||+|++++++++++++.|+..+
T Consensus       161 ~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq~av~~a~~F~~~~  240 (433)
T PRK10867        161 PSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQDAVNTAKAFNEAL  240 (433)
T ss_pred             ecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHHHHHHHHHHHHhhC
Confidence            87666789999988888777678999999999999999999999999999999999999999999999999999999889


Q ss_pred             CeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHH
Q 011624          323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ  402 (481)
Q Consensus       323 ~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~  402 (481)
                      ++.|+|+||+|++.++|.++++...+++||.|+|+||+++||++|+|+++++++||+||+.+|+|++++..++++..++.
T Consensus       241 ~i~giIlTKlD~~~rgG~alsi~~~~~~PI~fig~Ge~v~DLe~f~p~~~~~~ilgmgD~~~l~e~~~~~~~~~~~~~~~  320 (433)
T PRK10867        241 GLTGVILTKLDGDARGGAALSIRAVTGKPIKFIGTGEKLDDLEPFHPDRMASRILGMGDVLSLIEKAQEVVDEEKAEKLA  320 (433)
T ss_pred             CCCEEEEeCccCcccccHHHHHHHHHCcCEEEEeCCCccccCccCCHHHHHHHHhCCCChHHHHHHHHHhhCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999988888899


Q ss_pred             HhhhcccccHHHHHHHHhhhhccCCccccccCCCCCCCccccccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          403 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       403 ~k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      +++.+++||++||++|++++.+||+++++++|+||++++..   ...+..|+++++||+|||++||.+|.+|++||++|
T Consensus       321 ~~~~~g~f~l~d~~~q~~~~~kmG~~~~~~~m~Pg~~~~~~---~~~~~~~~~~~~ii~SMt~~Er~~p~~~~~sR~~R  396 (433)
T PRK10867        321 KKLKKGKFDLEDFLEQLQQMKKMGGLGSLLGMLPGMGNMKA---QLDDKELKRIEAIINSMTPKERANPDILNGSRKRR  396 (433)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHhCCCcccccc---cccHHHHHHHHHHHHcCCHHHHhCccccchHHHHH
Confidence            99999999999999999999999999999999999765432   22347889999999999999999999999999887

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.1e-71  Score=552.20  Aligned_cols=397  Identities=37%  Similarity=0.602  Sum_probs=378.9

Q ss_pred             HHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHH
Q 011624           84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRD  163 (481)
Q Consensus        84 ~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  163 (481)
                      ++..|+.+|.++++++.....++++.++.+|++|+++|+++||++.+++++.+++++.+...+...+.++.+.+.+.+++
T Consensus         2 vla~lGrrI~~a~~~~s~~t~~~~~~l~~~L~eI~~ALLesDV~~~lV~~l~~nir~~i~~~~~~~G~nk~r~i~~~vf~   81 (483)
T KOG0780|consen    2 VLAELGRRITSAFSRMSNATSIDETALNTMLKEICRALLESDVNPRLVKELRENIRKIINLEKLASGVNKRRIIQKAVFD   81 (483)
T ss_pred             chHHhchhHHHHHHHhccCCcchHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHhchhhhccccCHHHHHHHHHHH
Confidence            46788889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeec
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT  243 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~  243 (481)
                      ||+.+++++..++.+.+.+|.||+++|.+|+||||+|.+||+|++++|++|.||++|+||++++||++.++...++|+|.
T Consensus        82 eL~kl~dp~~~~~~~~K~kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~yg  161 (483)
T KOG0780|consen   82 ELVKLLDPGKSALQPKKGKPSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYG  161 (483)
T ss_pred             HHHHHhCCCCcccccccCCCcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeEe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCC
Q 011624          244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG  323 (481)
Q Consensus       244 ~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~  323 (481)
                      .++..+|..++.+.+++++.++||+||+||.|+++.+..+++|+.++.+.+.|+.+++|+|+++||.+.++++.|+..++
T Consensus       162 syte~dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Qa~aFk~~vd  241 (483)
T KOG0780|consen  162 SYTEADPVKIASEGVDRFKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQARAFKETVD  241 (483)
T ss_pred             cccccchHHHHHHHHHHHHhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHH
Q 011624          324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQK  403 (481)
Q Consensus       324 i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~  403 (481)
                      +.+||+||+|+++++|.++++.+.++.||.|||+|++++|+++|+|++|++++||+||+.+|+|+++|+. .++..++.+
T Consensus       242 vg~vIlTKlDGhakGGgAlSaVaaTksPIiFIGtGEhmdDlE~F~pk~FvsrlLGmGDi~glvek~~ev~-~~d~~el~~  320 (483)
T KOG0780|consen  242 VGAVILTKLDGHAKGGGALSAVAATKSPIIFIGTGEHMDDLEPFDPKPFVSRLLGMGDIEGLVEKVQEVG-KDDAKELVE  320 (483)
T ss_pred             cceEEEEecccCCCCCceeeehhhhCCCEEEEecCccccccCCCChHHHHHHHhccccHHHHHHHHHHHh-hhhHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998 677788999


Q ss_pred             hhhcccccHHHHHHHHhhhhccCCccccccCCCCCCCccccccchhhhcchhHHHHHHccChhhhccCCcc--cccccCC
Q 011624          404 KIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIII--IGLTFKR  481 (481)
Q Consensus       404 k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~--~~~~~~~  481 (481)
                      ++..++||+.|||+|.+.+.+|||++++++|+||++.++.+..+....++++|.++|+|||.+|+.-|.++  +++|..|
T Consensus       321 kl~~gkFtlrd~y~Qfq~imkmGp~s~v~~MiPG~s~m~~~~e~Es~~~~krm~~mmDsMt~~Elds~~~f~~~p~R~~R  400 (483)
T KOG0780|consen  321 KLKQGKFTLRDFYDQFQNIMKMGPLSQVLGMIPGMSMMSKGNEEESSAKLKRMMTMMDSMTDEELDSPELFVEEPSRIMR  400 (483)
T ss_pred             HHHhCCccHHHHHHHHHHHHhhCCHHHHHhhCCCcccCCCcchhHHHHHHHHHHHHHHhcChhhccCccccccCchHhhh
Confidence            99999999999999999999999999999999999977777766677888999999999999999888764  4455443

>TIGR00959 ffh signal recognition particle protein

Probab=100.00  E-value=9.8e-70  Score=566.24  Aligned_cols=397  Identities=54%  Similarity=0.866  Sum_probs=369.0

Q ss_pred             HHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHH
Q 011624           85 FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDE  164 (481)
Q Consensus        85 ~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~  164 (481)
                      |++|+++|+++++++.+++.++++++++++++|+.+|+++||+.+++++|++++++.+.+.++..+.++.+.+.++++++
T Consensus         1 ~~~L~~~~~~~~~~l~~~~~~~e~~i~~~l~ei~~~Ll~aDV~~~~v~~~~~~i~~~~~~~~~~~~~~~~~~~~~~v~~e   80 (428)
T TIGR00959         1 FESLSERLQRIFKKLSGRGTITEKNIKEALREIRLALLEADVNLQVVKDFIKKVKEKALGQEVLKSLSPGQQFIKIVHEE   80 (428)
T ss_pred             CchHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHhccccccccCCcHHHHHHHHHHH
Confidence            67899999999999999999999999999999999999999999999999999999999888888899999999999999


Q ss_pred             HHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeec
Q 011624          165 LVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT  243 (481)
Q Consensus       165 L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~  243 (481)
                      |.+++++...++.+...+|.+++++|++|+||||++++||.+|. ++|++|++|++|+|||++.+|+..++...|+|++.
T Consensus        81 L~~~l~~~~~~~~~~~~~p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~  160 (428)
T TIGR00959        81 LVAILGGENASLNLAKKPPTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFA  160 (428)
T ss_pred             HHHHhCCCCcccccCCCCCEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEe
Confidence            99999876555655556799999999999999999999999987 67999999999999999999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCC
Q 011624          244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG  323 (481)
Q Consensus       244 ~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~  323 (481)
                      .....+|.++..++++.+...+||+|||||||+++.|..++.++..+...+.|++++||+|+++++++.++++.|...++
T Consensus       161 ~~~~~~P~~i~~~al~~~~~~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq~~~~~a~~f~~~v~  240 (428)
T TIGR00959       161 LGKGQSPVEIARRALEYAKENGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQDAVNTAKTFNERLG  240 (428)
T ss_pred             cCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchHHHHHHHHHHHhhCC
Confidence            77667888888888888766789999999999999999999999999999999999999999999999999999998899


Q ss_pred             eeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHH
Q 011624          324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQK  403 (481)
Q Consensus       324 i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~  403 (481)
                      +.|+|+||+|++.++|.++++...+++||.|+|+||+++|+++|+|+++++++||+||+.+|+|++++..++++..++.+
T Consensus       241 i~giIlTKlD~~~~~G~~lsi~~~~~~PI~fi~~Ge~i~dl~~f~p~~~~~~iLg~gD~~~l~e~~~~~~~~~~~~~~~~  320 (428)
T TIGR00959       241 LTGVVLTKLDGDARGGAALSVRSVTGKPIKFIGVGEKIDDLEPFHPERMASRILGMGDILSLVEKAQEVVDEEEAKKLAE  320 (428)
T ss_pred             CCEEEEeCccCcccccHHHHHHHHHCcCEEEEeCCCChhhCccCCHHHHHHHHhCCCChHHHHHHHHHhhCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998888888999


Q ss_pred             hhhcccccHHHHHHHHhhhhccCCccccccCCCCCCCcccccc--chhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          404 KIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQV--REAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       404 k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~--~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      ++.+++||++||++|++++.+||+++++++|+||+++......  ...+..|+++++||+|||++|+.+|.++++||++|
T Consensus       321 ~~~~~~f~l~d~~~q~~~~~kmG~~~~~~~~~Pg~~~~~~~~~~~~~~~~~~~~~~~ii~SMt~~Er~~p~~~~~sR~~R  400 (428)
T TIGR00959       321 KMKKGQFDLEDFLEQLRQIKKMGPLSSLLKMIPGMGGVKPSLSDLELDEKQFKRIEAIISSMTPEERRNPKILNPSRRKR  400 (428)
T ss_pred             HHHhCCCCHHHHHHHHHHHHhcCCHHHHHHhCcCccccccccccccccHHHHHHHHHHHHcCCHHHHhCcccccHHHHHH
Confidence            9999999999999999999999999999999999875422111  22456899999999999999999999999999887

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=100.00  E-value=6.1e-68  Score=554.05  Aligned_cols=391  Identities=41%  Similarity=0.709  Sum_probs=360.2

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHH
Q 011624           88 LTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVK  167 (481)
Q Consensus        88 l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~  167 (481)
                      |+++|.++++++.+++.+++++|++++++|+.+|+++||+++++++|++++++...+.++..+.++.+.+.++++++|.+
T Consensus         1 l~~~l~~~~~~l~~~~~l~e~~i~~~l~ei~~aLl~adV~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~v~~~L~~   80 (437)
T PRK00771          1 LGESLRDALKKLAGKSRIDEKTVKEVVKDIQRALLQADVNVKLVKELSKSIKERALEEEPPKGLTPREHVIKIVYEELVK   80 (437)
T ss_pred             CchHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHhcccccccCCcHHHHHHHHHHHHHH
Confidence            57889999999999999999999999999999999999999999999999999999888888899999999999999999


Q ss_pred             HhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC
Q 011624          168 LMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE  247 (481)
Q Consensus       168 ~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~  247 (481)
                      ++++...++... .+|.+++++|++|+||||++++||.+|+++|++|++|++|+|||++.+|+..+++..++|++.....
T Consensus        81 ~l~~~~~~~~~~-~~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~  159 (437)
T PRK00771         81 LLGEETEPLVLP-LKPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDN  159 (437)
T ss_pred             HhCCCccccccC-CCCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCc
Confidence            998765444333 5789999999999999999999999999999999999999999999999999999999999876555


Q ss_pred             CCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEE
Q 011624          248 VKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGA  327 (481)
Q Consensus       248 ~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~Gv  327 (481)
                      .++.+.++++++.+.  ++|+|||||||+++.+..++.|+..+.....|+.++||+|+++++++.++++.|+..+++.|+
T Consensus       160 ~d~~~i~~~al~~~~--~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq~av~~a~~F~~~l~i~gv  237 (437)
T PRK00771        160 KDAVEIAKEGLEKFK--KADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQAKNQAKAFHEAVGIGGI  237 (437)
T ss_pred             cCHHHHHHHHHHHhh--cCCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccHHHHHHHHHHHhcCCCCEE
Confidence            678888888888863  569999999999999999999999999999999999999999999999999999988999999


Q ss_pred             EEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhc
Q 011624          328 ILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMS  407 (481)
Q Consensus       328 IlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~  407 (481)
                      |+||+|+++++|.++++...+++||.|+|+||+++||++|+|+++++++||+||+.+|+|++++..++++..++.+++.+
T Consensus       238 IlTKlD~~a~~G~~ls~~~~~~~Pi~fig~Ge~v~Dle~f~~~~~~~~ilgmgd~~~l~e~~~~~~~~~~~~~~~~~~~~  317 (437)
T PRK00771        238 IITKLDGTAKGGGALSAVAETGAPIKFIGTGEKIDDLERFDPDRFISRLLGMGDLESLLEKVEEALDEEEEEKDVEKMMK  317 (437)
T ss_pred             EEecccCCCcccHHHHHHHHHCcCEEEEecCCCcccCCcCCHHHHHHHHhCCCChHHHHHHHHHhhhHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999888888889999999


Q ss_pred             ccccHHHHHHHHhhhhccCCccccccCCCCCCC-ccccccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          408 ANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK-ITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       408 ~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~-~~~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      ++||++||++|++++.+||+++++++|+||+++ +........+..|+++++||+|||++|+.+|.++++||++|
T Consensus       318 ~~f~l~d~~~q~~~~~kmG~~~~~~~m~pg~~~~~~~~~~~~~~~~~~~~~~ii~SMt~~Er~~p~~~~~sR~~R  392 (437)
T PRK00771        318 GKFTLKDMYKQLEAMNKMGPLKQILQMLPGLGGKLPDEALEVTEEKLKKYKAIMDSMTEEELENPEIINASRIRR  392 (437)
T ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHhCcCccccchhhhhcccHHHHHHHHHHHHcCCHHHHhCcccccHHHHHH
Confidence            999999999999999999999999999999764 32211123456889999999999999999999999999887

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=100.00  E-value=1.3e-48  Score=386.49  Aligned_cols=293  Identities=37%  Similarity=0.627  Sum_probs=256.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhC------CCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHH-HhhccccCCCChh
Q 011624           82 AEMFGQLTSGLEAAWNKLKG------EETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQ-AVGVGLIRGVRPD  154 (481)
Q Consensus        82 ~~~~~~l~~~l~~~~~~~~~------~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~-~~~~~~~~~~~~~  154 (481)
                      ..+|+.+.++|.++.+.+..      .....++..++.++++++.|+++||+.+++.+|++.+++. ....    .....
T Consensus        31 ~~~~~~~~~gl~k~~~~~~~~~~~~~~~~~~~~~de~~~eeLE~~Li~aDvg~e~~~~i~~~l~~~~~~~~----~~~~~  106 (340)
T COG0552          31 EGWFERLKQGLSKTKKNFGKGIKGLFLKKIKEKLDEDLLEELEELLIEADVGVETAEEIIEELRKREGKKK----KIKDE  106 (340)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHhhhhccccccchhHHHHHHHHHHHHHccccHHHHHHHHHHHHHHhcccc----cCCCH
Confidence            67778888887777666543      1223344567789999999999999999999999999985 3222    22346


Q ss_pred             HHHHHHHHHHHHHHhcCccc----cccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHH
Q 011624          155 QQLVKIVRDELVKLMGGEVS----ELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQL  230 (481)
Q Consensus       155 ~~~~~~l~~~L~~~l~~~~~----~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql  230 (481)
                      +.+.+.+.+.+.+++.+...    ......++|.||+++|.+|+||||++++||++|.++|++|++..||+||.++++||
T Consensus       107 ~~v~~~l~~~l~~il~~~~~~~~~~~~~~~~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL  186 (340)
T COG0552         107 ETVKEALREALIEILRPVDKVDLPLEIPKEKKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQL  186 (340)
T ss_pred             HHHHHHHHHHHHHHhcccccccchhhhccCCCcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHH
Confidence            77788888999999885322    11223457999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCC------ceEEEEEe
Q 011624          231 VILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNP------TEVLLVVD  304 (481)
Q Consensus       231 ~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p------~~vvLVvd  304 (481)
                      ..|++..|++++......+|+.++.+++++++.+++|+|||||+||++.+.++|.||.++.+++.+      +++++|+|
T Consensus       187 ~~w~er~gv~vI~~~~G~DpAaVafDAi~~Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlD  266 (340)
T COG0552         187 EVWGERLGVPVISGKEGADPAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLD  266 (340)
T ss_pred             HHHHHHhCCeEEccCCCCCcHHHHHHHHHHHHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEE
Confidence            999999999999866789999999999999999999999999999999999999999999998864      55899999


Q ss_pred             CcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          305 AMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       305 a~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      |++||+++++++.|++.++++|+|+||+|+++++|.++++.+.+++||.|+|.||.++||.+|+++.|++.+++
T Consensus       267 AttGqnal~QAk~F~eav~l~GiIlTKlDgtAKGG~il~I~~~l~~PI~fiGvGE~~~DL~~Fd~~~fv~~L~~  340 (340)
T COG0552         267 ATTGQNALSQAKIFNEAVGLDGIILTKLDGTAKGGIILSIAYELGIPIKFIGVGEGYDDLRPFDAEWFVDALLG  340 (340)
T ss_pred             cccChhHHHHHHHHHHhcCCceEEEEecccCCCcceeeeHHHHhCCCEEEEeCCCChhhccccCHHHHHHHhhC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999887764

>PRK14974 cell division protein FtsY; Provisional

Probab=100.00  E-value=1.9e-44  Score=365.98  Aligned_cols=273  Identities=39%  Similarity=0.660  Sum_probs=252.0

Q ss_pred             CChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccc-----c
Q 011624          105 LTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVF-----A  179 (481)
Q Consensus       105 ~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~-----~  179 (481)
                      ++++++++++++|+..|+++||+.+++++|++++++.+.+.++..+.++.+.+.+.+++++.++++... .+..     .
T Consensus        58 ~~~~~~~~~l~~l~~~Ll~~dv~~~~a~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~-~~~~~~~~~~  136 (336)
T PRK14974         58 IKEKDIEDLLEELELELLESDVALEVAEEILESLKEKLVGKKVKRGEDVEEIVKNALKEALLEVLSVGD-LFDLIEEIKS  136 (336)
T ss_pred             cCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHhhccCCCccCHHHHHHHHHHHHHHHHhCCCc-chhhhhhhhc
Confidence            889999999999999999999999999999999999998888777777788889999999999997543 1111     2


Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHH
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~  259 (481)
                      ..+|.+++++|++|+||||++++||.+|.++|++|+++++|+||.++.+|++.|++..|++++......+|..++.++++
T Consensus       137 ~~~~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~  216 (336)
T PRK14974        137 KGKPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIE  216 (336)
T ss_pred             cCCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHH
Confidence            34689999999999999999999999999999999999999999999999999999999999877777788888888888


Q ss_pred             HHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchh
Q 011624          260 EAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGG  339 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g  339 (481)
                      .++..++|+|||||+|+++.+..++.+|.++.+...|+.++||+|+++++++.++++.|...+++.|+|+||+|++.++|
T Consensus       217 ~~~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a~~f~~~~~~~giIlTKlD~~~~~G  296 (336)
T PRK14974        217 HAKARGIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFNEAVGIDGVILTKVDADAKGG  296 (336)
T ss_pred             HHHhCCCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHHHHHHhcCCCCEEEEeeecCCCCcc
Confidence            87778899999999999999999999999999999999999999999999999999999988999999999999999999


Q ss_pred             HHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          340 AALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       340 ~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      .++++...+++||.|+|+||+++||++|+|+++++++||
T Consensus       297 ~~ls~~~~~~~Pi~~i~~Gq~v~Dl~~~~~~~~v~~llg  335 (336)
T PRK14974        297 AALSIAYVIGKPILFLGVGQGYDDLIPFDPDWFVDKLLG  335 (336)
T ss_pred             HHHHHHHHHCcCEEEEeCCCChhhcccCCHHHHHHHHhC
Confidence            999999999999999999999999999999999999987

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=100.00  E-value=6.8e-43  Score=353.44  Aligned_cols=291  Identities=37%  Similarity=0.661  Sum_probs=251.9

Q ss_pred             HHHHHHHHHHHHHHHHHHh-------hCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCCh
Q 011624           81 RAEMFGQLTSGLEAAWNKL-------KGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRP  153 (481)
Q Consensus        81 ~~~~~~~l~~~l~~~~~~~-------~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~  153 (481)
                      .+.||++|.++|.++.+.+       .+...+++    +.+++|++.|+++||+++++++|++++++......    ..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~~l~~~L~~~dv~~~~a~~i~~~~~~~~~~~~----~~~   84 (318)
T PRK10416         13 KEGWFERLKKGLSKTRENFGEGINGLFAKKKIDE----DLLEELEELLIEADVGVETTEEIIEELRERVKRKN----LKD   84 (318)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHhccC----CCC
Confidence            5678888888877665444       33445554    36689999999999999999999999998875443    345


Q ss_pred             hHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHh
Q 011624          154 DQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVIL  233 (481)
Q Consensus       154 ~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~  233 (481)
                      .+.+.+.+++++.++++....++.....+|.+++++|++|+||||++++||.+++.+|++|+++++|+||+++++|+..|
T Consensus        85 ~~~~~~~l~~~l~~~l~~~~~~~~~~~~~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~  164 (318)
T PRK10416         85 PEELKELLKEELAEILEPVEKPLNIEEKKPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVW  164 (318)
T ss_pred             HHHHHHHHHHHHHHHhCcCCccccccCCCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHH
Confidence            66788999999999997544444444456899999999999999999999999999999999999999999999999999


Q ss_pred             hhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhcc------CCceEEEEEeCcc
Q 011624          234 GEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAMT  307 (481)
Q Consensus       234 ~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~------~p~~vvLVvda~~  307 (481)
                      +...+++++......+|...+.+.+.....++||+|||||||+++.+..++.|+.++.+++      .|++++||+|+++
T Consensus       165 a~~~~i~~~~~~~~~dpa~~v~~~l~~~~~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~  244 (318)
T PRK10416        165 GERVGVPVIAQKEGADPASVAFDAIQAAKARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATT  244 (318)
T ss_pred             HHHcCceEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCC
Confidence            9999999987766677877766777666668999999999999999999999999988754      4788999999999


Q ss_pred             hHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCC
Q 011624          308 GQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGM  379 (481)
Q Consensus       308 ~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGl  379 (481)
                      +++...++..|...+++.|+|+||+|++.++|.++++...+++||.|+|+||+++||++|+|++++++++|.
T Consensus       245 g~~~~~~a~~f~~~~~~~giIlTKlD~t~~~G~~l~~~~~~~~Pi~~v~~Gq~~~Dl~~~~~~~~~~~ll~~  316 (318)
T PRK10416        245 GQNALSQAKAFHEAVGLTGIILTKLDGTAKGGVVFAIADELGIPIKFIGVGEGIDDLQPFDAEEFVDALLGG  316 (318)
T ss_pred             ChHHHHHHHHHHhhCCCCEEEEECCCCCCCccHHHHHHHHHCCCEEEEeCCCChhhCccCCHHHHHHHHhCC
Confidence            999988999998888999999999999999999999999999999999999999999999999999999874

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=100.00  E-value=2.9e-41  Score=335.10  Aligned_cols=265  Identities=42%  Similarity=0.670  Sum_probs=235.0

Q ss_pred             hhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEE
Q 011624          109 NIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILL  188 (481)
Q Consensus       109 ~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i  188 (481)
                      .+++.+++|+..|+++||+++++++|++++++...+.+..    ..+.+.+.+++.+.+.++....++.....+|+++++
T Consensus         2 ~~~~~~~~l~~~L~~~dv~~~~~~~i~~~~~~~~~~~~~~----~~~~~~~~~~e~l~~~~~~~~~~~~~~~~~~~vi~l   77 (272)
T TIGR00064         2 DDEDFFEELEEILLESDVGYEVVEKIIEALKKELKGKKVK----DAELLKEILKEYLKEILKETDLELIVEENKPNVILF   77 (272)
T ss_pred             ccHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHhhccCC----CHHHHHHHHHHHHHHHHcccchhhcccCCCCeEEEE
Confidence            3567899999999999999999999999999887655433    245678889999999887532333344556899999


Q ss_pred             EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcE
Q 011624          189 AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDV  268 (481)
Q Consensus       189 ~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~  268 (481)
                      +|++|+||||++++||.+++++|++|++|++|+||+++.+|+..|++..|++++......+|.....+.+..+..++||+
T Consensus        78 ~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~~~~D~  157 (272)
T TIGR00064        78 VGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKARNIDV  157 (272)
T ss_pred             ECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHHCCCCE
Confidence            99999999999999999999999999999999999999999999999999998877667778877777777766678999


Q ss_pred             EEEcCCCCccccHHHHHHHHhhhhccC------CceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHH
Q 011624          269 VIVDTAGRLQIDKAMMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL  342 (481)
Q Consensus       269 VIIDt~G~~~~d~~~~~el~~i~~~~~------p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~  342 (481)
                      |||||||+.+.|...+.||.++.+...      |+.++||+|++++++...++..|...+++.|+|+||+|++.++|.++
T Consensus       158 ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~f~~~~~~~g~IlTKlDe~~~~G~~l  237 (272)
T TIGR00064       158 VLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAVGLTGIILTKLDGTAKGGIIL  237 (272)
T ss_pred             EEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHHHHHHhhCCCCEEEEEccCCCCCccHHH
Confidence            999999999999999999999998877      89999999999899888999999888899999999999999999999


Q ss_pred             HHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhc
Q 011624          343 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRIL  377 (481)
Q Consensus       343 ~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~l  377 (481)
                      ++...+++||.|+++||+++|+++|+|+++++++|
T Consensus       238 ~~~~~~~~Pi~~~~~Gq~~~dl~~~~~~~~~~~ll  272 (272)
T TIGR00064       238 SIAYELKLPIKFIGVGEKIDDLAPFDADWFVEALF  272 (272)
T ss_pred             HHHHHHCcCEEEEeCCCChHhCccCCHHHHHHHhC
Confidence            99999999999999999999999999999988765

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.

>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=100.00  E-value=2e-38  Score=300.40  Aligned_cols=196  Identities=48%  Similarity=0.722  Sum_probs=183.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      |+|++++|++||||||+++|||++++.+|++|.+|++|+||.++.+|++.|++..|+|++......+|.+.++++++.+.
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~   80 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFR   80 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHh
Confidence            78999999999999999999999999889999999999999999999999999999999988777789999999999887


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHH
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL  342 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~  342 (481)
                      .+++|+|||||||+.+.+...+.++.++.....|++++||++++.+++....+..|...+++.++|+||+|++.+.|.++
T Consensus        81 ~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~~~~~lIlTKlDet~~~G~~l  160 (196)
T PF00448_consen   81 KKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAFGIDGLILTKLDETARLGALL  160 (196)
T ss_dssp             HTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHSSTCEEEEESTTSSSTTHHHH
T ss_pred             hcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcccCceEEEEeecCCCCcccce
Confidence            77899999999999999999999999999999999999999999998888888888888899999999999999999999


Q ss_pred             HHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          343 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       343 ~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      ++...+++||.|+++||+++|+++|+|+++++++||
T Consensus       161 ~~~~~~~~Pi~~it~Gq~V~Dl~~~~~~~l~~~llg  196 (196)
T PF00448_consen  161 SLAYESGLPISYITTGQRVDDLEPASPERLASRLLG  196 (196)
T ss_dssp             HHHHHHTSEEEEEESSSSTTGEEE-THHHHHHHHHT
T ss_pred             eHHHHhCCCeEEEECCCChhcCccCCHHHHHHHhcC
Confidence            999999999999999999999999999999999987

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 ....

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=100.00  E-value=8.7e-35  Score=296.01  Aligned_cols=258  Identities=21%  Similarity=0.341  Sum_probs=217.2

Q ss_pred             hhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEE
Q 011624          109 NIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILL  188 (481)
Q Consensus       109 ~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i  188 (481)
                      .....++.+++.|++.||++.+++++++.+........   ..+ ...+.+.+.+.+...+....   . ...+|++|++
T Consensus       175 ~~~~~~~~i~~~L~~~dV~~~~~~~ll~~~~~~~~~~~---~~~-~~~~~~~l~~~l~~~l~~~~---~-~~~~~~vI~L  246 (436)
T PRK11889        175 SVPFIIQKVIRMLEQNDVEQYFIHAYAEKLKVKFENAT---MIT-EEEVIEYILEDMRSHFNTEN---V-FEKEVQTIAL  246 (436)
T ss_pred             ccchHHHHHHHHHHHCCCCHHHHHHHHHHHHhhhcccc---cCC-HHHHHHHHHHHHHHHhcccc---c-cccCCcEEEE
Confidence            34556788999999999999999999999876533221   112 34556667777776665421   1 1235789999


Q ss_pred             EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc-CCCc
Q 011624          189 AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK-KNVD  267 (481)
Q Consensus       189 ~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~-~~~D  267 (481)
                      +|++||||||++++||..|..+|++|+++++|+||.++++|++.|++..|++++...   ++.++ .+.+..+.. .++|
T Consensus       247 VGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~---d~~~L-~~aL~~lk~~~~~D  322 (436)
T PRK11889        247 IGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVR---DEAAM-TRALTYFKEEARVD  322 (436)
T ss_pred             ECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecC---CHHHH-HHHHHHHHhccCCC
Confidence            999999999999999999999999999999999999999999999999999998643   45544 466766642 3699


Q ss_pred             EEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-hHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHH
Q 011624          268 VVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-GQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKE  346 (481)
Q Consensus       268 ~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~  346 (481)
                      +|||||+|+.+.+...+.++.++.....|+.++||+|+++ .++..++++.|+. +++.|+|+||+|++.++|.+++++.
T Consensus       323 vVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~~F~~-~~idglI~TKLDET~k~G~iLni~~  401 (436)
T PRK11889        323 YILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKD-IHIDGIVFTKFDETASSGELLKIPA  401 (436)
T ss_pred             EEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHHHhcC-CCCCEEEEEcccCCCCccHHHHHHH
Confidence            9999999999989999999999998888999999999954 4677889999985 8999999999999999999999999


Q ss_pred             HhCCCeEEeecCCCC-CCCCCcChhhHhhhhcCC
Q 011624          347 VSGKPIKLVGRGERM-EDLEPFYPDRMAGRILGM  379 (481)
Q Consensus       347 ~~glPV~~ig~g~~v-~dl~~f~~~~~~~r~lGl  379 (481)
                      .+++||.|+|+||++ +|++.++++.++.+++|-
T Consensus       402 ~~~lPIsyit~GQ~VPeDI~~A~~~~L~~~llg~  435 (436)
T PRK11889        402 VSSAPIVLMTDGQDVKKNIHIATAEHLAKQMLQT  435 (436)
T ss_pred             HHCcCEEEEeCCCCCCcchhhCCHHHHHHHHhcC
Confidence            999999999999999 899999999999988874

>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]

Probab=100.00  E-value=3.3e-36  Score=306.34  Aligned_cols=265  Identities=23%  Similarity=0.313  Sum_probs=223.9

Q ss_pred             EEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc--hhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          186 ILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR--PAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       186 I~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r--p~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      +++.|+ +|+||||++..|+++|+++|++|.     +||  |+|+|+. +|....|.+++|++.|+.+.+.+++.+.+. 
T Consensus         3 vvIAg~~SG~GKTTvT~glm~aL~~rg~~Vq-----pfKvGPDYIDP~-~H~~atG~~srNLD~~mm~~~~v~~~f~~~-   75 (451)
T COG1797           3 VVIAGTSSGSGKTTVTLGLMRALRRRGLKVQ-----PFKVGPDYIDPG-YHTAATGRPSRNLDSWMMGEEGVRALFARA-   75 (451)
T ss_pred             eEEecCCCCCcHHHHHHHHHHHHHhcCCccc-----ccccCCCccCch-hhhHhhCCccCCCchhhcCHHHHHHHHHHh-
Confidence            455566 999999999999999999999999     999  9999997 899999999999999999999999999886 


Q ss_pred             cCCCcEEEEcCCCCcc------ccHHHHHHHHhhhhccCCceEEEEEeC-cchHHHHHHH---HHhhhcCCeeEEEEcCC
Q 011624          263 KKNVDVVIVDTAGRLQ------IDKAMMDELKDVKRVLNPTEVLLVVDA-MTGQEAAALV---TTFNIEIGITGAILTKL  332 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~------~d~~~~~el~~i~~~~~p~~vvLVvda-~~~~~~~~~~---~~f~~~~~i~GvIlnKv  332 (481)
                      .++.|+.||++.-.+-      .+..+++++++++.    .+|+||+|+ ...+++++++   +.|+++++|.|||+|++
T Consensus        76 ~~~adi~vIEGVMGLfDG~~~~~~~gSTA~lAk~l~----~PVvLVid~~~~s~S~AAiv~G~~~fdp~v~iaGVIlNrV  151 (451)
T COG1797          76 AADADIAVIEGVMGLFDGRGSATDTGSTADLAKLLG----APVVLVVDASGLSRSVAAIVKGFKHFDPDVNIAGVILNRV  151 (451)
T ss_pred             cCCCCEEEEeeccccccCCCCCcCCCCHHHHHHHhC----CCEEEEEeCcchhHHHHHHHHHHHhcCCCCceEEEEEecC
Confidence            4889999997752221      15688999999988    899999999 6667787777   55688999999999999


Q ss_pred             CCCCchhHHHHHHHH-hCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhccccc
Q 011624          333 DGDSRGGAALSVKEV-SGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFD  411 (481)
Q Consensus       333 D~~~~~g~~~~~~~~-~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~~~~d  411 (481)
                      .+.+|+..+..+++. +|+||  +|+.++.++++      +.+||||+      + ++.|..+.++..+.++.+++.++|
T Consensus       152 gserH~~llr~Ale~~~gv~v--lG~lpr~~~l~------lp~RHLGL------V-~a~E~~~~~~~~~~~a~~v~~~vD  216 (451)
T COG1797         152 GSERHYELLRDALEEYTGVPV--LGYLPRDDDLE------LPSRHLGL------V-PASERLELEAKLEALAEVVEKHVD  216 (451)
T ss_pred             CCHHHHHHHHHHhhhcCCCcE--EEEecCCcccC------Cccccccc------c-cchhhhhHHHHHHHHHHHHHhhCC
Confidence            999999999887776 89999  99999999977      66779999      7 888888888888999999999999


Q ss_pred             HHHHHHHHhhhhccCCccccccCCCCCCCccccccchhhhcc---hhHHHHHHccChhhhccCCccccc
Q 011624          412 FNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSL---KIMEAMIEAMTPGIFFFSIIIIGL  477 (481)
Q Consensus       412 l~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~~d~a~~f---~~~~~li~sm~~e~~~~~~l~~~~  477 (481)
                      +|.+++.+....+..+.-......+.....+||+|+|+||+|   +|++.| +.+|+|+++||||-|+.
T Consensus       217 ld~l~~ia~~~~~~~~~~~~~~~~~~~~~~rIAVA~D~AF~FyY~~nl~~L-r~~GAelv~FSPL~D~~  284 (451)
T COG1797         217 LDALLEIASSAGPLEPDLSPEPERGNPLGVRIAVARDAAFNFYYPENLELL-REAGAELVFFSPLADEE  284 (451)
T ss_pred             HHHHHHHHhccCCCCCCccccccccCCcCceEEEEecchhccccHHHHHHH-HHCCCEEEEeCCcCCCC
Confidence            999999998754322211111111121237899999999999   999999 99999999999998753

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=100.00  E-value=2.4e-34  Score=296.39  Aligned_cols=285  Identities=20%  Similarity=0.290  Sum_probs=226.1

Q ss_pred             HHHHHHHHHHHHHHHH-----HHhhCCCC-------CChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhcccc
Q 011624           81 RAEMFGQLTSGLEAAW-----NKLKGEET-------LTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLI  148 (481)
Q Consensus        81 ~~~~~~~l~~~l~~~~-----~~~~~~~~-------~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~  148 (481)
                      ...-++.|.+.+.+.+     +.+.+++.       +++++....+.++++.|+++||+.+++++|++.+.+...+...+
T Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~L~~~Ll~~gV~~~la~~Li~~l~~~~~~~~~~  191 (432)
T PRK12724        112 ESFELEEVITEPERPVGLSFEKELFEKNSFLESETTIVRKEKDSPLQRLGERLVREGMSQSYVEEMASKLEERLSPVDQG  191 (432)
T ss_pred             cHHHHHHHHhhhhhhhhhhHHHHhhcccccccccccccHhhhhhHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhcccccc
Confidence            3344667777777655     56655554       48888899999999999999999999999999998776443322


Q ss_pred             CCCChhHHHHHHHHHHHHHHhcCcccccccc-CCCCEEEEEEcCCCCCHHHHHHHHHHHH-HHcCCeEEEEeccCCchhH
Q 011624          149 RGVRPDQQLVKIVRDELVKLMGGEVSELVFA-KSRPTVILLAGLQGVGKTTVSAKLANYL-KKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       149 ~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~-~~~~~VI~i~G~~GvGKTTta~~LA~~L-~~~G~kVlLId~D~~rp~a  226 (481)
                          ..+.+.+.+.+.|.+.+......+... ..++.+++++|++||||||++++||..+ ..+|++|.++++|+||+++
T Consensus       192 ----~~~~~~~~l~~~L~~~l~~~~~~~~~~g~~~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA  267 (432)
T PRK12724        192 ----RNHNVTERAVTYLEERVSVDSDLFSGTGKNQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAA  267 (432)
T ss_pred             ----chHHHHHHHHHHHHHhcccchhhhhhcccCCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhH
Confidence                123456677777777765322212211 1346899999999999999999999866 5789999999999999999


Q ss_pred             HHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhcc---CCceEEEEE
Q 011624          227 IDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL---NPTEVLLVV  303 (481)
Q Consensus       227 idql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~---~p~~vvLVv  303 (481)
                      .+|+..|++..|+|++...   .    +......+...++|+|||||||+.+.+...+.++.++....   .|.+++||+
T Consensus       268 ~eQLk~yAe~lgvp~~~~~---~----~~~l~~~l~~~~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVL  340 (432)
T PRK12724        268 IEQLKRYADTMGMPFYPVK---D----IKKFKETLARDGSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVL  340 (432)
T ss_pred             HHHHHHHHHhcCCCeeehH---H----HHHHHHHHHhCCCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEE
Confidence            9999999999999886432   1    22333344346899999999999988889999999888765   356899999


Q ss_pred             eCcchH-HHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCC-CCCCCcChhhHhhhhc
Q 011624          304 DAMTGQ-EAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM-EDLEPFYPDRMAGRIL  377 (481)
Q Consensus       304 da~~~~-~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v-~dl~~f~~~~~~~r~l  377 (481)
                      |+++++ +..+.++.| ..+++.|+|+||+|++..+|.++++...+++||.|+++||++ +|++.++++.++..++
T Consensus       341 sAt~~~~~~~~~~~~f-~~~~~~glIlTKLDEt~~~G~il~i~~~~~lPI~ylt~GQ~VPeDi~~A~~~~l~~~i~  415 (432)
T PRK12724        341 SSTSSYHHTLTVLKAY-ESLNYRRILLTKLDEADFLGSFLELADTYSKSFTYLSVGQEVPFDILNATKNLMAECVV  415 (432)
T ss_pred             eCCCCHHHHHHHHHHh-cCCCCCEEEEEcccCCCCccHHHHHHHHHCCCEEEEecCCCCCCCHHHhhHHHHHHHhc
Confidence            998887 445555666 579999999999999999999999999999999999999999 8999999998766544

>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=6.6e-35  Score=296.58  Aligned_cols=282  Identities=28%  Similarity=0.473  Sum_probs=250.3

Q ss_pred             HHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcC
Q 011624           92 LEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGG  171 (481)
Q Consensus        92 l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~  171 (481)
                      ....++.+.|.+.|+++++...|+.+++.|+...|..+.+++|++.+...+.|.++....+-.+.+.+.+++.|.++|.+
T Consensus       280 aFg~fkglvG~K~L~eeDL~pvL~kM~ehLitKNVA~eiA~~LcEsV~a~Legkkv~sfs~V~~Tvk~Al~daLvQILTP  359 (587)
T KOG0781|consen  280 AFGLFKGLVGSKSLSEEDLNPVLDKMTEHLITKNVAAEIAEKLCESVAASLEGKKVGSFSTVESTVKEALRDALVQILTP  359 (587)
T ss_pred             HHHHHHhhcccccccHhhhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhhhcccccchHHHHHHHHHHHHHHHHHcCC
Confidence            44667778899999999999999999999999999999999999999999999887655555777888999999999976


Q ss_pred             ccc-cc------cccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhc------C
Q 011624          172 EVS-EL------VFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQV------G  238 (481)
Q Consensus       172 ~~~-~~------~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~------g  238 (481)
                      ... ++      ....++|.+|.|+|.+||||||..+++|+||.+.+++|++..||+||.++++||++|.+.+      -
T Consensus       360 ~~sVDlLRdI~sar~~krPYVi~fvGVNGVGKSTNLAKIayWLlqNkfrVLIAACDTFRsGAvEQLrtHv~rl~~l~~~~  439 (587)
T KOG0781|consen  360 QRSVDLLRDIMSARRRKRPYVISFVGVNGVGKSTNLAKIAYWLLQNKFRVLIAACDTFRSGAVEQLRTHVERLSALHGTM  439 (587)
T ss_pred             CchhhHHHHHHHHHhcCCCeEEEEEeecCccccchHHHHHHHHHhCCceEEEEeccchhhhHHHHHHHHHHHHHHhccch
Confidence            432 11      1235689999999999999999999999999999999999999999999999999998876      5


Q ss_pred             CCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHh
Q 011624          239 VPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTF  318 (481)
Q Consensus       239 v~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f  318 (481)
                      ++++..+...+++.++++++++++..+||+|+|||+|+++.+..+|..|.++..+-.||-+++|-.|..|.+++++++.|
T Consensus       440 v~lfekGYgkd~a~vak~AI~~a~~~gfDVvLiDTAGR~~~~~~lm~~l~k~~~~~~pd~i~~vgealvg~dsv~q~~~f  519 (587)
T KOG0781|consen  440 VELFEKGYGKDAAGVAKEAIQEARNQGFDVVLIDTAGRMHNNAPLMTSLAKLIKVNKPDLILFVGEALVGNDSVDQLKKF  519 (587)
T ss_pred             hHHHhhhcCCChHHHHHHHHHHHHhcCCCEEEEeccccccCChhHHHHHHHHHhcCCCceEEEehhhhhCcHHHHHHHHH
Confidence            78888888889999999999999989999999999999999999999999999999999999999998899999999888


Q ss_pred             hhcC-------CeeEEEEcCCCC-CCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHh
Q 011624          319 NIEI-------GITGAILTKLDG-DSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMA  373 (481)
Q Consensus       319 ~~~~-------~i~GvIlnKvD~-~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~  373 (481)
                      +..+       .|.|+|+||+|- ....|.+.++.+.++.||.|+|+||...||.....+.++
T Consensus       520 n~al~~~~~~r~id~~~ltk~dtv~d~vg~~~~m~y~~~~pi~fvg~gqtysdlr~l~v~~vv  582 (587)
T KOG0781|consen  520 NRALADHSTPRLIDGILLTKFDTVDDKVGAAVSMVYITGKPILFVGVGQTYSDLRKLNVKAVV  582 (587)
T ss_pred             HHHHhcCCCccccceEEEEeccchhhHHHHHhhheeecCCceEEEecCcchhhhhhccHHHHH
Confidence            6533       389999999995 566899999999999999999999999998765554443

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=100.00  E-value=1.4e-33  Score=291.48  Aligned_cols=255  Identities=23%  Similarity=0.301  Sum_probs=207.2

Q ss_pred             HHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcC
Q 011624          112 EPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGL  191 (481)
Q Consensus       112 ~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~  191 (481)
                      ..++++++.|+++||++.++++|++.+++.......    ...+.+.+.+.+.+.+.+... .++ ....+|.+++++|+
T Consensus       109 ~~~~~l~~~L~~~dv~~~~~~~i~~~~~~~~~~~~~----~~~~~v~~~l~~~l~~~i~~~-~~~-~~~~~~~vi~lvGp  182 (388)
T PRK12723        109 PTILKIEDILRENDFSESYIKDINEFIKKEFSLSDL----DDYDKVRDSVIIYIAKTIKCS-GSI-IDNLKKRVFILVGP  182 (388)
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHhhhhhc----CCHHHHHHHHHHHHHHHhhcc-Ccc-ccCCCCeEEEEECC
Confidence            457889999999999999999999999877533221    223445556666666655321 112 12245789999999


Q ss_pred             CCCCHHHHHHHHHHHHHH----cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCc
Q 011624          192 QGVGKTTVSAKLANYLKK----QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVD  267 (481)
Q Consensus       192 ~GvGKTTta~~LA~~L~~----~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D  267 (481)
                      +|||||||+++||.++..    +|++|.+|++|+||+++.+|++.|++..|+|+....   .+.+ +...+..+  .++|
T Consensus       183 tGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~---~~~~-l~~~L~~~--~~~D  256 (388)
T PRK12723        183 TGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIE---SFKD-LKEEITQS--KDFD  256 (388)
T ss_pred             CCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeC---cHHH-HHHHHHHh--CCCC
Confidence            999999999999998873    589999999999999999999999999999987543   2222 34555554  6899


Q ss_pred             EEEEcCCCCccccHHHHHHHHhhhhccC-CceEEEEEeCcchH-HHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHH
Q 011624          268 VVIVDTAGRLQIDKAMMDELKDVKRVLN-PTEVLLVVDAMTGQ-EAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVK  345 (481)
Q Consensus       268 ~VIIDt~G~~~~d~~~~~el~~i~~~~~-p~~vvLVvda~~~~-~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~  345 (481)
                      +|||||+|+++.+...+.++.++..... +.+++||+|+++++ +..+.+..|. .+++.|+|+||+|++.++|.++++.
T Consensus       257 lVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~-~~~~~~~I~TKlDet~~~G~~l~~~  335 (388)
T PRK12723        257 LVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFS-PFSYKTVIFTKLDETTCVGNLISLI  335 (388)
T ss_pred             EEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhc-CCCCCEEEEEeccCCCcchHHHHHH
Confidence            9999999999888777888888887665 45899999997775 4445556676 5789999999999999999999999


Q ss_pred             HHhCCCeEEeecCCCC-CCCCCcChhhHhhhhcCC
Q 011624          346 EVSGKPIKLVGRGERM-EDLEPFYPDRMAGRILGM  379 (481)
Q Consensus       346 ~~~glPV~~ig~g~~v-~dl~~f~~~~~~~r~lGl  379 (481)
                      ..+++|+.|+++||++ +|+++|+|+.+++.++|+
T Consensus       336 ~~~~~Pi~yit~Gq~vPeDl~~~~~~~~~~~l~g~  370 (388)
T PRK12723        336 YEMRKEVSYVTDGQIVPHNISIAEPLTFIKKINGY  370 (388)
T ss_pred             HHHCCCEEEEeCCCCChhhhhhCCHHHHHHHhcCC
Confidence            9999999999999999 899999999999999998

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=100.00  E-value=1e-33  Score=287.53  Aligned_cols=255  Identities=23%  Similarity=0.326  Sum_probs=211.9

Q ss_pred             HHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCC
Q 011624          114 MRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQG  193 (481)
Q Consensus       114 l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~G  193 (481)
                      .+++++.|.+.||+..++.+|++.+.........   .+ .+.+...+.+.|...+.... .+  ...++++++++|++|
T Consensus       144 ~~~~~~~L~~~gV~~~~~~~l~~~~~~~~~~~~~---~~-~~~v~~~~~~~L~~~l~~~~-~~--~~~~~~ii~lvGptG  216 (407)
T PRK12726        144 NSDFVKFLKGRGISDTYVADFMQAGRKQFKQVET---AH-LDDITDWFVPYLSGKLAVED-SF--DLSNHRIISLIGQTG  216 (407)
T ss_pred             cHHHHHHHHHcCCCHHHHHHHHHHHHHhcccccc---cc-HHHHHHHHHHHhcCcEeeCC-Cc--eecCCeEEEEECCCC
Confidence            4588999999999999999999998766322111   12 24455566666665554321 12  234678999999999


Q ss_pred             CCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH-cCCCcEEEEc
Q 011624          194 VGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK-KKNVDVVIVD  272 (481)
Q Consensus       194 vGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~-~~~~D~VIID  272 (481)
                      |||||++++||.++.++|++|.+|++|+||+++.+||+.|++..++|++..   .+|.++ .+++..+. ..++|+||||
T Consensus       217 vGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~---~dp~dL-~~al~~l~~~~~~D~VLID  292 (407)
T PRK12726        217 VGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVA---TSPAEL-EEAVQYMTYVNCVDHILID  292 (407)
T ss_pred             CCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEec---CCHHHH-HHHHHHHHhcCCCCEEEEE
Confidence            999999999999998999999999999999999999999999999998754   355554 56677664 2579999999


Q ss_pred             CCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-chHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCC
Q 011624          273 TAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKP  351 (481)
Q Consensus       273 t~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glP  351 (481)
                      |||+.+.+...+.++..+.....|+.++||++++ ..++..+.++.|. .+++.|+|+||+|++.++|.++++...+|+|
T Consensus       293 TAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~~~d~~~i~~~f~-~l~i~glI~TKLDET~~~G~~Lsv~~~tglP  371 (407)
T PRK12726        293 TVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGMKSADVMTILPKLA-EIPIDGFIITKMDETTRIGDLYTVMQETNLP  371 (407)
T ss_pred             CCCCCccCHHHHHHHHHHhhccCCceEEEECCCcccHHHHHHHHHhcC-cCCCCEEEEEcccCCCCccHHHHHHHHHCCC
Confidence            9999999999999999999988899999999984 4467777777777 6899999999999999999999999999999


Q ss_pred             eEEeecCCCC-CCCCCcChhhHhhhhcCCc
Q 011624          352 IKLVGRGERM-EDLEPFYPDRMAGRILGMG  380 (481)
Q Consensus       352 V~~ig~g~~v-~dl~~f~~~~~~~r~lGlg  380 (481)
                      |.|+++||++ +|+..++++.++.+++|.+
T Consensus       372 Isylt~GQ~VpdDi~~a~~~~Lv~~ll~~~  401 (407)
T PRK12726        372 VLYMTDGQNITENIFRPKSRWLAERFVGTD  401 (407)
T ss_pred             EEEEecCCCCCcccCCCCHHHHHHHHhccc
Confidence            9999999999 6799999999999998863

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=100.00  E-value=1.2e-33  Score=309.50  Aligned_cols=251  Identities=26%  Similarity=0.350  Sum_probs=211.1

Q ss_pred             HHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCC
Q 011624          113 PMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQ  192 (481)
Q Consensus       113 ~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~  192 (481)
                      ...++++.|+++||+.+++++|++++.+.         .++ ..+.+.+.++|.+.+... ....+.-.++.|++++|++
T Consensus       126 ~~~~l~~~Ll~~dv~~~la~~l~~~l~~~---------~~~-~~~~~~l~~~L~~~l~il-~~~~~~~~~g~Vi~lVGpn  194 (767)
T PRK14723        126 LRASLFRWLLGAGFSGQLARALLERLPVG---------YDR-PAAMAWIRNELATHLPVL-RDEDALLAQGGVLALVGPT  194 (767)
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHhc---------CCH-HHHHHHHHHHHHHHhhhc-cCCCcccCCCeEEEEECCC
Confidence            34679999999999999999999998543         233 346778888888866421 1111111246899999999


Q ss_pred             CCCHHHHHHHHHHHHH-HcC-CeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEE
Q 011624          193 GVGKTTVSAKLANYLK-KQG-KSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVI  270 (481)
Q Consensus       193 GvGKTTta~~LA~~L~-~~G-~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VI  270 (481)
                      |||||||+++||..+. .+| ++|.++++|+||+++.+|++.|++..|++++...   ++.+ +.+.++.+  .++|+||
T Consensus       195 GvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~---~~~~-l~~al~~~--~~~D~VL  268 (767)
T PRK14723        195 GVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVK---DAAD-LRFALAAL--GDKHLVL  268 (767)
T ss_pred             CCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccC---CHHH-HHHHHHHh--cCCCEEE
Confidence            9999999999999885 566 6999999999999999999999999999987543   4555 56777765  5789999


Q ss_pred             EcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-HHHHHHHHhhhc--CCeeEEEEcCCCCCCchhHHHHHHHH
Q 011624          271 VDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-EAAALVTTFNIE--IGITGAILTKLDGDSRGGAALSVKEV  347 (481)
Q Consensus       271 IDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-~~~~~~~~f~~~--~~i~GvIlnKvD~~~~~g~~~~~~~~  347 (481)
                      |||+|+++.+..++.++..+.....|++++||+|+++.. +..+.++.|...  +++.|+|+||+|++.++|.++++...
T Consensus       269 IDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~~f~~~~~~~i~glIlTKLDEt~~~G~iL~i~~~  348 (767)
T PRK14723        269 IDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVHAYRHGAGEDVDGCIITKLDEATHLGPALDTVIR  348 (767)
T ss_pred             EeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHHHHHhhcccCCCCEEEEeccCCCCCccHHHHHHHH
Confidence            999999999999999999988888899999999997664 455677888753  37999999999999999999999999


Q ss_pred             hCCCeEEeecCCCC-CCCCCcChhhHhhhhcCCc
Q 011624          348 SGKPIKLVGRGERM-EDLEPFYPDRMAGRILGMG  380 (481)
Q Consensus       348 ~glPV~~ig~g~~v-~dl~~f~~~~~~~r~lGlg  380 (481)
                      +++||.|+++||++ +||++|+++.+++++++.+
T Consensus       349 ~~lPI~yit~GQ~VPdDL~~a~~~~lv~~ll~~~  382 (767)
T PRK14723        349 HRLPVHYVSTGQKVPEHLELAQADELVDRAFATP  382 (767)
T ss_pred             HCCCeEEEecCCCChhhcccCCHHHHHHHHhccc
Confidence            99999999999999 9999999999999999963

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=100.00  E-value=8.5e-32  Score=282.45  Aligned_cols=254  Identities=29%  Similarity=0.448  Sum_probs=210.8

Q ss_pred             hhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEE
Q 011624          108 ENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVIL  187 (481)
Q Consensus       108 ~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~  187 (481)
                      ...+..+.++++.|+++||+..++++|++.+.+......        ..+.+.+.+.|.+.+......+ .  .++.+++
T Consensus       157 ~~~~~~~~~~~~~L~~~gv~~~~~~~l~~~~~~~~~~~~--------~~~~~~~~~~L~~~l~~~~~~~-~--~~~~~i~  225 (424)
T PRK05703        157 ERIPPEFAELYKRLKRSGLSPEIAEKLLKLLLEHMPPRE--------RTAWRYLLELLANMIPVRVEDI-L--KQGGVVA  225 (424)
T ss_pred             ccchHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHhhhhH--------HHHHHHHHHHHHHHhCcccccc-c--cCCcEEE
Confidence            456678899999999999999999999999977642211        0356778888888886543333 1  2356999


Q ss_pred             EEcCCCCCHHHHHHHHHHHHH--HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCC
Q 011624          188 LAGLQGVGKTTVSAKLANYLK--KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKN  265 (481)
Q Consensus       188 i~G~~GvGKTTta~~LA~~L~--~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~  265 (481)
                      ++|++||||||++++||.++.  +.|++|++|++|+||.++.+|+..|++..|+|+.....   +.+ +...+..+  .+
T Consensus       226 ~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~---~~~-l~~~l~~~--~~  299 (424)
T PRK05703        226 LVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYD---PKE-LAKALEQL--RD  299 (424)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCC---HHh-HHHHHHHh--CC
Confidence            999999999999999999987  45899999999999999999999999999999876532   333 23445554  47


Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhh-ccCCceEEEEEeCcchH-HHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHH
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKR-VLNPTEVLLVVDAMTGQ-EAAALVTTFNIEIGITGAILTKLDGDSRGGAALS  343 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~-~~~p~~vvLVvda~~~~-~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~  343 (481)
                      +|+|||||||+.+.+...+.++..+.. ...+..++||++++.+. +..+.+..|. .+++.++|+||+|++..+|.+++
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~-~~~~~~vI~TKlDet~~~G~i~~  378 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFS-RLPLDGLIFTKLDETSSLGSILS  378 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhC-CCCCCEEEEecccccccccHHHH
Confidence            999999999999889889999988887 44578899999997664 5555567776 67889999999999999999999


Q ss_pred             HHHHhCCCeEEeecCCCC-CCCCCcChhhHhhhhcCC
Q 011624          344 VKEVSGKPIKLVGRGERM-EDLEPFYPDRMAGRILGM  379 (481)
Q Consensus       344 ~~~~~glPV~~ig~g~~v-~dl~~f~~~~~~~r~lGl  379 (481)
                      ++..+++||.|+++||++ +||++|+++.+++++||.
T Consensus       379 ~~~~~~lPv~yit~Gq~VpdDl~~a~~~~l~~~ll~~  415 (424)
T PRK05703        379 LLIESGLPISYLTNGQRVPDDIKVANPEELVRLLLGG  415 (424)
T ss_pred             HHHHHCCCEEEEeCCCCChhhhhhCCHHHHHHHHhcc
Confidence            999999999999999998 899999999999999886

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=100.00  E-value=1.8e-31  Score=281.32  Aligned_cols=252  Identities=29%  Similarity=0.365  Sum_probs=198.1

Q ss_pred             HHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEc
Q 011624          111 VEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAG  190 (481)
Q Consensus       111 ~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G  190 (481)
                      +....++++.|+++||+..++++|++++++...         . +.....+.+.+.+.+.... .......++.|++++|
T Consensus       195 ~p~~~~l~~~Ll~~dv~~~la~~l~~~l~~~~~---------~-~~~~~~l~~~l~~~l~~~~-~~~~~~~~g~Vi~LvG  263 (484)
T PRK06995        195 DPVRAALLKHLLAAGFSAQLVRMLVDNLPEGDD---------A-EAALDWVQSALAKNLPVLD-SEDALLDRGGVFALMG  263 (484)
T ss_pred             cHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhhc---------h-hHHHHHHHHHHHHHHhhcc-CccccccCCcEEEEEC
Confidence            345688999999999999999999999976532         1 1234455555555443211 1111123468999999


Q ss_pred             CCCCCHHHHHHHHHHHHH-HcC-CeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcE
Q 011624          191 LQGVGKTTVSAKLANYLK-KQG-KSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDV  268 (481)
Q Consensus       191 ~~GvGKTTta~~LA~~L~-~~G-~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~  268 (481)
                      ++|||||||+++||.++. ++| ++|.+|++|+||.++.+|+++|++..|+++......   .+... .+..  ..++|+
T Consensus       264 pnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~---~Dl~~-aL~~--L~d~d~  337 (484)
T PRK06995        264 PTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDA---ADLRL-ALSE--LRNKHI  337 (484)
T ss_pred             CCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCc---hhHHH-HHHh--ccCCCe
Confidence            999999999999999885 556 599999999999999999999999999988754432   22222 2333  357899


Q ss_pred             EEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH-HHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHH
Q 011624          269 VIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA-ALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEV  347 (481)
Q Consensus       269 VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~-~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~  347 (481)
                      ++|||+|+.+.+..+..++..+.....|...+||+|++++...+ +.++.|. ..++.|+|+||+|++.++|.++++...
T Consensus       338 VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~~~l~~i~~~f~-~~~~~g~IlTKlDet~~~G~~l~i~~~  416 (484)
T PRK06995        338 VLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHGDTLNEVVQAYR-GPGLAGCILTKLDEAASLGGALDVVIR  416 (484)
T ss_pred             EEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcHHHHHHHHHHhc-cCCCCEEEEeCCCCcccchHHHHHHHH
Confidence            99999999988776666666665555578899999997765544 4556665 588999999999999999999999999


Q ss_pred             hCCCeEEeecCCCC-CCCCCcChhhHhhhhcCCc
Q 011624          348 SGKPIKLVGRGERM-EDLEPFYPDRMAGRILGMG  380 (481)
Q Consensus       348 ~glPV~~ig~g~~v-~dl~~f~~~~~~~r~lGlg  380 (481)
                      +++||.|+|+||++ +||++|+++.|++++++.+
T Consensus       417 ~~lPI~yvt~GQ~VPeDL~~a~~~~lv~~ll~~~  450 (484)
T PRK06995        417 YKLPLHYVSNGQRVPEDLHLANKKFLLHRAFCAP  450 (484)
T ss_pred             HCCCeEEEecCCCChhhhccCCHHHHHHHHhcCc
Confidence            99999999999999 9999999999999999873

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=100.00  E-value=2.8e-31  Score=262.34  Aligned_cols=259  Identities=22%  Similarity=0.354  Sum_probs=209.3

Q ss_pred             hhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEE
Q 011624          107 KENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVI  186 (481)
Q Consensus       107 ~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI  186 (481)
                      .+.+++.++++++.|+++||+.+++.++.+..........    . ....+.+.+.+.+...+.+..  + + ..++.++
T Consensus         8 ~~~~~~~~~~~~~~l~~~dv~~~~~~~l~~~~~i~f~~~~----~-~~~~vl~~v~~~l~~~~~~~~--~-~-~~~~~~i   78 (270)
T PRK06731          8 QESVPFIIQKVIRMLEQNDVEQYFIHAYAEKLKVKFENAT----M-ITEEVIEYILEDMSSHFNTEN--V-F-EKEVQTI   78 (270)
T ss_pred             hhcccHHHHHHHHHHHHcCCCHHHHHHHhhcceEEecCCC----c-cccHHHHHHhcccEEeeCCcc--c-c-cCCCCEE
Confidence            3567788899999999999999999999986532221110    0 112222333333333222211  1 1 2245799


Q ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc-CC
Q 011624          187 LLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK-KN  265 (481)
Q Consensus       187 ~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~-~~  265 (481)
                      +++|++|+||||++..|+..+..+|.+|.++++|+||.++.+|++.+++..+++++...   ++.++ .+.+..+.. .+
T Consensus        79 ~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~---~~~~l-~~~l~~l~~~~~  154 (270)
T PRK06731         79 ALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVR---DEAAM-TRALTYFKEEAR  154 (270)
T ss_pred             EEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecC---CHHHH-HHHHHHHHhcCC
Confidence            99999999999999999999988899999999999999999999999999999887542   34443 456666532 47


Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-chHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHH
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSV  344 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~  344 (481)
                      +|+|||||||+.+.+...+.++.++.....|+.++||++++ .++++.++++.|+. +++.|+|+||+|++.++|.++++
T Consensus       155 ~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f~~-~~~~~~I~TKlDet~~~G~~l~~  233 (270)
T PRK06731        155 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKD-IHIDGIVFTKFDETASSGELLKI  233 (270)
T ss_pred             CCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHHHhCC-CCCCEEEEEeecCCCCccHHHHH
Confidence            99999999999998999999999999988999999999995 56788899999985 99999999999999999999999


Q ss_pred             HHHhCCCeEEeecCCCC-CCCCCcChhhHhhhhcCC
Q 011624          345 KEVSGKPIKLVGRGERM-EDLEPFYPDRMAGRILGM  379 (481)
Q Consensus       345 ~~~~glPV~~ig~g~~v-~dl~~f~~~~~~~r~lGl  379 (481)
                      ...+++||.|+++||++ +|++.+++++++.+++|-
T Consensus       234 ~~~~~~Pi~~it~Gq~vp~di~~a~~~~l~~~~~~~  269 (270)
T PRK06731        234 PAVSSAPIVLMTDGQDVKKNIHIATAEHLAKQMLQT  269 (270)
T ss_pred             HHHHCcCEEEEeCCCCCCcchhhCCHHHHHHHHhcC
Confidence            99999999999999999 799999999999988874

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=100.00  E-value=3.8e-31  Score=269.30  Aligned_cols=212  Identities=35%  Similarity=0.530  Sum_probs=180.7

Q ss_pred             HHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH--HcCCeEEEEeccCCchhHHHHHHHhhhh
Q 011624          159 KIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLK--KQGKSCMLVAGDVYRPAAIDQLVILGEQ  236 (481)
Q Consensus       159 ~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~--~~G~kVlLId~D~~rp~aidql~~~~~~  236 (481)
                      ....+.+..+++.....+.  ..+++|++++||+|||||||.++||+.+.  ...++|.+|+.|+||.++.+|+++|++.
T Consensus       181 ~~~~~~l~~~~~~~~~~~~--~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~i  258 (407)
T COG1419         181 RYFSEKLRKLLLSLIENLI--VEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADI  258 (407)
T ss_pred             hhHHHHHHHHHHhhccccc--cccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHH
Confidence            3444444444443332221  12478999999999999999999999888  4558999999999999999999999999


Q ss_pred             cCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch-HHHHHHH
Q 011624          237 VGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG-QEAAALV  315 (481)
Q Consensus       237 ~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~-~~~~~~~  315 (481)
                      +|+|+....   +|.+. .+++..+  .++|+|+|||+|+.+.|...+++|..+.....+..++||+++++. .+..+++
T Consensus       259 m~vp~~vv~---~~~el-~~ai~~l--~~~d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~  332 (407)
T COG1419         259 MGVPLEVVY---SPKEL-AEAIEAL--RDCDVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEII  332 (407)
T ss_pred             hCCceEEec---CHHHH-HHHHHHh--hcCCEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHH
Confidence            999998764   34443 3556665  588999999999999999999999999999988999999999655 6777888


Q ss_pred             HHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCC-CCCCCcChhhHhhhhcCC
Q 011624          316 TTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM-EDLEPFYPDRMAGRILGM  379 (481)
Q Consensus       316 ~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v-~dl~~f~~~~~~~r~lGl  379 (481)
                      ..|. .+++.|+|+||+|++...|.+.++..++++||.|+++||+| +|+..+.+..++++.+|.
T Consensus       333 ~~f~-~~~i~~~I~TKlDET~s~G~~~s~~~e~~~PV~YvT~GQ~VPeDI~va~~~~Lv~~~~g~  396 (407)
T COG1419         333 KQFS-LFPIDGLIFTKLDETTSLGNLFSLMYETRLPVSYVTNGQRVPEDIVVANPDYLVRRILGT  396 (407)
T ss_pred             HHhc-cCCcceeEEEcccccCchhHHHHHHHHhCCCeEEEeCCCCCCchhhhcChHHHHHHHhcc
Confidence            9997 58999999999999999999999999999999999999999 899999999999999997

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=99.97  E-value=1.2e-29  Score=260.19  Aligned_cols=251  Identities=26%  Similarity=0.316  Sum_probs=196.8

Q ss_pred             HHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCC
Q 011624          115 RDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGV  194 (481)
Q Consensus       115 ~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~Gv  194 (481)
                      ..+++.|+++||+..++++|++.+.....      ..+. +.....+.+.+...+..- ......-.++.+++++|++||
T Consensus        77 ~~l~~~L~~~g~~~~l~~~l~~~~~~~~~------~~~~-~~~~~~~~~~l~~~l~~~-~~~~~~~~~g~ii~lvGptGv  148 (374)
T PRK14722         77 GALTKYLFAAGFSAQLVRMIVDNLPEGEG------YDTL-DAAADWAQSVLAANLPVL-DSEDALMERGGVFALMGPTGV  148 (374)
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHhhhhhcc------cCCH-HHHHHHHHHHHHhcchhh-cCCCccccCCcEEEEECCCCC
Confidence            56889999999999999999998865311      0111 222333444443333211 011111234579999999999


Q ss_pred             CHHHHHHHHHHHHH-HcC-CeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEc
Q 011624          195 GKTTVSAKLANYLK-KQG-KSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVD  272 (481)
Q Consensus       195 GKTTta~~LA~~L~-~~G-~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIID  272 (481)
                      ||||++++||..+. +.| .+|.+|++|+||+++.+|++.|++..|+++.......+.    ...+.++  .++|+||||
T Consensus       149 GKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l----~~~l~~l--~~~DlVLID  222 (374)
T PRK14722        149 GKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDL----QLALAEL--RNKHMVLID  222 (374)
T ss_pred             CHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccH----HHHHHHh--cCCCEEEEc
Confidence            99999999998876 457 699999999999999999999999999999866544333    2344444  578999999


Q ss_pred             CCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH-HHHHHHhhhcC--------CeeEEEEcCCCCCCchhHHHH
Q 011624          273 TAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA-AALVTTFNIEI--------GITGAILTKLDGDSRGGAALS  343 (481)
Q Consensus       273 t~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~-~~~~~~f~~~~--------~i~GvIlnKvD~~~~~g~~~~  343 (481)
                      |+|+.+.+..+..++..+.....+..++||++++++.+. .+.++.|....        ++.|+|+||+|++.++|.+++
T Consensus       223 TaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt~~~G~~l~  302 (374)
T PRK14722        223 TIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEASNLGGVLD  302 (374)
T ss_pred             CCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccCCCccHHHH
Confidence            999998888888998888776677899999999777554 45668886542        589999999999999999999


Q ss_pred             HHHHhCCCeEEeecCCCC-CCCCCcChhhHhhhhcCC
Q 011624          344 VKEVSGKPIKLVGRGERM-EDLEPFYPDRMAGRILGM  379 (481)
Q Consensus       344 ~~~~~glPV~~ig~g~~v-~dl~~f~~~~~~~r~lGl  379 (481)
                      +...+++||.|+++||++ +||+.+.++.++++.++.
T Consensus       303 ~~~~~~lPi~yvt~Gq~VPedl~~a~~~~l~~~~~~~  339 (374)
T PRK14722        303 TVIRYKLPVHYVSTGQKVPENLYVATKKFLLKSAFCA  339 (374)
T ss_pred             HHHHHCcCeEEEecCCCCCcccccCCHHHHHHHHhcc
Confidence            999999999999999999 889999999999888875

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=99.97  E-value=7.2e-29  Score=258.02  Aligned_cols=247  Identities=25%  Similarity=0.368  Sum_probs=197.3

Q ss_pred             HHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCC
Q 011624          115 RDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGV  194 (481)
Q Consensus       115 ~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~Gv  194 (481)
                      ..+++.|+++||+..++++|++.+.......      ...+.+.+.+.+.|... ...  ++   ..++.+++++|++|+
T Consensus       135 ~~~~~~L~~~~v~~~la~~l~~~~~~~~~~~------~~~~~~~~~l~~~l~~~-~~~--~~---~~~g~vi~lvGpnG~  202 (420)
T PRK14721        135 MKVLRTLLSAGFSPLLSRHLLEKLPADRDFE------QSLKKTISLLTLNLRTI-GGD--EI---IEQGGVYALIGPTGV  202 (420)
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHhhhh------hHHHHHHHHHHHHHHhc-CCc--cc---cCCCcEEEEECCCCC
Confidence            6688999999999999999999987653211      11122333333333321 111  11   124679999999999


Q ss_pred             CHHHHHHHHHHHHH-Hc-CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEc
Q 011624          195 GKTTVSAKLANYLK-KQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVD  272 (481)
Q Consensus       195 GKTTta~~LA~~L~-~~-G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIID  272 (481)
                      ||||++++||..+. .. +.+|.++.+|+||.++.+|+..+++..|+++.....   +.+. ...+..+  .++|+|+||
T Consensus       203 GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~---~~dl-~~al~~l--~~~d~VLID  276 (420)
T PRK14721        203 GKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKD---IADL-QLMLHEL--RGKHMVLID  276 (420)
T ss_pred             CHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCC---HHHH-HHHHHHh--cCCCEEEec
Confidence            99999999998654 33 479999999999999999999999999999986543   3333 2444444  689999999


Q ss_pred             CCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch-HHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCC
Q 011624          273 TAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG-QEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKP  351 (481)
Q Consensus       273 t~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~-~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glP  351 (481)
                      |+|+.+.+..++.++..+.....+..++||++++++ ++..+.+..|. .+++.|+|+||+|++.++|.+++++..+++|
T Consensus       277 TaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~-~~~~~~~I~TKlDEt~~~G~~l~~~~~~~lP  355 (420)
T PRK14721        277 TVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQ-GHGIHGCIITKVDEAASLGIALDAVIRRKLV  355 (420)
T ss_pred             CCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhc-CCCCCEEEEEeeeCCCCccHHHHHHHHhCCC
Confidence            999998888899999988776678899999999765 45555666776 5899999999999999999999999999999


Q ss_pred             eEEeecCCCC-CCCCCcChhhHhhhhcCCc
Q 011624          352 IKLVGRGERM-EDLEPFYPDRMAGRILGMG  380 (481)
Q Consensus       352 V~~ig~g~~v-~dl~~f~~~~~~~r~lGlg  380 (481)
                      +.|+++||++ +|+++++++.+++++++.+
T Consensus       356 i~yvt~Gq~VP~Dl~~a~~~~lv~~ll~~~  385 (420)
T PRK14721        356 LHYVTNGQKVPEDLHEANSRYLLHRIFKPS  385 (420)
T ss_pred             EEEEECCCCchhhhhhCCHHHHHHHHhcCc
Confidence            9999999999 8999999999999999863

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=99.96  E-value=4.2e-27  Score=248.03  Aligned_cols=244  Identities=27%  Similarity=0.305  Sum_probs=193.0

Q ss_pred             HHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCC
Q 011624          115 RDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGV  194 (481)
Q Consensus       115 ~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~Gv  194 (481)
                      ..+.+.|++.||+..++++|++++....         .. ......+.+.|.+.+....  ..+- .++.+++|+|++|+
T Consensus       295 ~~l~~~L~~~Gvs~~la~~L~~~l~~~~---------~~-~~~~~~l~~~L~~~l~v~~--~~~l-~~G~vIaLVGPtGv  361 (559)
T PRK12727        295 AQALELMDDYGFDAGLTRDVAMQIPADT---------EL-HRGRGLMLGLLSKRLPVAP--VDPL-ERGGVIALVGPTGA  361 (559)
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHhhhccc---------ch-hhHHHHHHHHHHHhcCcCc--cccc-cCCCEEEEECCCCC
Confidence            4467899999999999999999886542         11 2223456666666553221  2211 23579999999999


Q ss_pred             CHHHHHHHHHHHHHHc--CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEc
Q 011624          195 GKTTVSAKLANYLKKQ--GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVD  272 (481)
Q Consensus       195 GKTTta~~LA~~L~~~--G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIID  272 (481)
                      ||||++.+||..+..+  |++|.++++|+||.++.+|+..+++..|+++....   + ...+...+..+  .++|+||||
T Consensus       362 GKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~---d-~~~L~~aL~~l--~~~DLVLID  435 (559)
T PRK12727        362 GKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEAD---S-AESLLDLLERL--RDYKLVLID  435 (559)
T ss_pred             CHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecC---c-HHHHHHHHHHh--ccCCEEEec
Confidence            9999999999988765  58999999999999999999999999998887543   2 22344556554  579999999


Q ss_pred             CCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch-HHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCC
Q 011624          273 TAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG-QEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKP  351 (481)
Q Consensus       273 t~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~-~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glP  351 (481)
                      |+|+.+.+...+.++..+.... ....+||+++..+ .+..+.++.|.. .++.|+|+||+|++.++|.++++...+++|
T Consensus       436 TaG~s~~D~~l~eeL~~L~aa~-~~a~lLVLpAtss~~Dl~eii~~f~~-~~~~gvILTKlDEt~~lG~aLsv~~~~~LP  513 (559)
T PRK12727        436 TAGMGQRDRALAAQLNWLRAAR-QVTSLLVLPANAHFSDLDEVVRRFAH-AKPQGVVLTKLDETGRFGSALSVVVDHQMP  513 (559)
T ss_pred             CCCcchhhHHHHHHHHHHHHhh-cCCcEEEEECCCChhHHHHHHHHHHh-hCCeEEEEecCcCccchhHHHHHHHHhCCC
Confidence            9999888888787776654432 4677999999554 666777788874 688999999999999999999999999999


Q ss_pred             eEEeecCCCC-CCCCCcChhhHhhhhcCC
Q 011624          352 IKLVGRGERM-EDLEPFYPDRMAGRILGM  379 (481)
Q Consensus       352 V~~ig~g~~v-~dl~~f~~~~~~~r~lGl  379 (481)
                      |.|+++||++ +||+.+++..++++...+
T Consensus       514 I~yvt~GQ~VPeDL~~A~~~~Lv~r~~~l  542 (559)
T PRK12727        514 ITWVTDGQRVPDDLHRANAASLVLRLEDL  542 (559)
T ss_pred             EEEEeCCCCchhhhhcCCHHHHHHHHHHH
Confidence            9999999999 899999999988876655

>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional

Probab=99.94  E-value=1.2e-25  Score=235.37  Aligned_cols=252  Identities=21%  Similarity=0.238  Sum_probs=189.0

Q ss_pred             EEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc--hhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          186 ILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR--PAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       186 I~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r--p~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ++++|. +|+||||+++.|+.+|.++|.+|.     +|+  |+++|+. .|....|.++.+++.++...+.+++.+..  
T Consensus         4 ~~i~~~~s~~GKT~vt~gl~~~l~~~g~~v~-----~~K~Gpd~iD~~-~~~~~~g~~~~nld~~~~~~~~i~~~~~~--   75 (433)
T PRK13896          4 FVLGGTSSGVGKTVATLATIRALEDAGYAVQ-----PAKAGPDFIDPS-HHEAVAGRPSRTLDPWLSGEDGMRRNYYR--   75 (433)
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHHCCCeeE-----EEeeCCCCCCHH-HHHHHhCCCcccCChhhCCHHHHHHHHHh--
Confidence            455555 999999999999999999999998     777  6677775 77888999999988887777766665543  


Q ss_pred             cCCCcEEEEcCCCCcccc-HHHHHHHHhhhhccCCceEEEEEeCcch-HHHHHHH---HHhhh----cCCeeEEEEcCCC
Q 011624          263 KKNVDVVIVDTAGRLQID-KAMMDELKDVKRVLNPTEVLLVVDAMTG-QEAAALV---TTFNI----EIGITGAILTKLD  333 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d-~~~~~el~~i~~~~~p~~vvLVvda~~~-~~~~~~~---~~f~~----~~~i~GvIlnKvD  333 (481)
                       ..+|++||+++|.+-.. ..++.++++.+.    .+++||+|+..+ .+....+   ..|..    ++++.|||+|++.
T Consensus        76 -~~~d~~vIEG~gGl~dg~~~s~adla~~l~----~PviLVv~~~~g~~s~aa~l~g~~~~~~~~~~~~~i~GvIlN~~~  150 (433)
T PRK13896         76 -GEGDICVVEGVMGLYDGDVSSTAMVAEALD----LPVVLVVDAKAGMESVAATALGFRAYADRIGRDIDVAGVIAQRAH  150 (433)
T ss_pred             -hcCCEEEEECCCccccCCCCCHHHHHHHHC----CCEEEEEcCcccHHHHHHHHHHHHHHHHhccCCCcEEEEEEECCC
Confidence             34899999999877543 256788877776    789999999544 4444444   34544    6899999999999


Q ss_pred             CCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhcccccHH
Q 011624          334 GDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFN  413 (481)
Q Consensus       334 ~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~~~~dl~  413 (481)
                      +..|...+....+. ++|+  +|..|+.+++.      +.+||||+      + ++.|..+.++   .+.+ ++.++|+|
T Consensus       151 ~~~h~~~l~~~~~~-~i~v--lG~lP~~~~~~------~~~RHLGL------v-~~~e~~~~~~---~~~~-~~~~~d~~  210 (433)
T PRK13896        151 GGRHADGIRDALPD-ELTY--FGRIPPRDDLE------IPDRHLGL------H-MGSEAPLDDD---ALDE-AAEHIDAE  210 (433)
T ss_pred             cHHHHHHHHHhhhh-cCce--eEecccCCCCC------CCCCCcCC------C-cchhhccHHH---HHHH-HHHhCCHH
Confidence            88887766655555 7999  99999999876      56669999      5 5555433332   3333 67899999


Q ss_pred             HHHHHHhhhhccCCccccccCCCCCCCccccccchhhhcc---hhHHHHHHccChhhhccCCcccc
Q 011624          414 DFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSL---KIMEAMIEAMTPGIFFFSIIIIG  476 (481)
Q Consensus       414 ~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~~d~a~~f---~~~~~li~sm~~e~~~~~~l~~~  476 (481)
                      .+++..+.. ++. .....  .+...+++||+|+|+||||   +|++.| +++ +|+++||||.+.
T Consensus       211 ~l~~~a~~~-~~~-~~~~~--~~~~~~~~iavA~D~AF~FyY~enl~~L-~~~-aelv~fSPl~~~  270 (433)
T PRK13896        211 RLAAVAREP-PRP-EPPEE--APATGDPTVAVARDAAFCFRYPATIERL-RER-ADVVTFSPVAGD  270 (433)
T ss_pred             HHHHHhhCC-CCc-ccccc--ccCCCCCeEEEEEcCccceeCHHHHHHH-Hhc-CcEEEEcCCCCC
Confidence            999987432 211 00110  0122347899999999999   999999 999 999999999765

>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=99.93  E-value=5.4e-25  Score=204.09  Aligned_cols=172  Identities=67%  Similarity=1.027  Sum_probs=152.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      +++++|++|+||||++.+++..++++|++|+++++|++|+...+++..+.+..+++++......++.+.+.+.+......
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHAREE   81 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHHHHHHHhC
Confidence            78899999999999999999999999999999999999999999998888888999887766667777777777766567


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHH
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSV  344 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~  344 (481)
                      ++|+|||||||..+.+...+.++..+.....++.+++|+++.++++..+.+..|....++.|+|+||+|...+.|.++++
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~~~~~~~~~~~~~~~~~viltk~D~~~~~g~~~~~  161 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAKAFNEALGITGVILTKLDGDARGGAALSI  161 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChHHHHHHHHHHhhCCCCEEEEECCcCCCCcchhhhh
Confidence            89999999999987777888888888777778999999999877777888888876778999999999999999999999


Q ss_pred             HHHhCCCeEEee
Q 011624          345 KEVSGKPIKLVG  356 (481)
Q Consensus       345 ~~~~glPV~~ig  356 (481)
                      +..+++|+.|+|
T Consensus       162 ~~~~~~p~~~~~  173 (173)
T cd03115         162 RAVTGKPIKFIG  173 (173)
T ss_pred             HHHHCcCeEeeC
Confidence            999999998876

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.

>TIGR00379 cobB cobyrinic acid a,c-diamide synthase

Probab=99.90  E-value=1.1e-22  Score=215.67  Aligned_cols=264  Identities=19%  Similarity=0.272  Sum_probs=187.6

Q ss_pred             EEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh--HHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          186 ILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA--AIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       186 I~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~--aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ++++|. +||||||+++.|+++|+++|++|.     +|+|+  ++|.. .+....|.+..+.+.+....+.+++.+.++ 
T Consensus         2 ~~I~gT~t~vGKT~vt~~L~~~L~~~G~~V~-----~fK~g~d~~D~~-~~~~~~g~~~~~ld~~~~~~~~i~~~~~~~-   74 (449)
T TIGR00379         2 VVIAGTSSGVGKTTISTGIMKALSRRKLRVQ-----PFKVGPDYIDPM-FHTQATGRPSRNLDSFFMSEAQIQECFHRH-   74 (449)
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHHHCCCcee-----EEccCCCCCCHH-HHHHHhCCchhhCCcccCCHHHHHHHHHHh-
Confidence            455555 999999999999999999999999     77754  44543 455566777666665555566677777776 


Q ss_pred             cCCCcEEEEcCCCCccc------cHHHHHHHHhhhhccCCceEEEEEeCcc-hHHHHHHH---HHhhhcCCeeEEEEcCC
Q 011624          263 KKNVDVVIVDTAGRLQI------DKAMMDELKDVKRVLNPTEVLLVVDAMT-GQEAAALV---TTFNIEIGITGAILTKL  332 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~------d~~~~~el~~i~~~~~p~~vvLVvda~~-~~~~~~~~---~~f~~~~~i~GvIlnKv  332 (481)
                      ..++|++||+++|.+..      +..+..++++.+.    .++++|+++.+ ...+.++.   ..+...+.+.|+|+|++
T Consensus        75 ~~~~D~viVEGagGl~~g~~p~~~~~s~adlAk~l~----~pVILV~~~~~~~~t~~al~~~~~~~~~~i~i~GvIlN~v  150 (449)
T TIGR00379        75 SKGTDYSIIEGVRGLYDGISAITDYGSTASVAKALD----APIVLVMNCQRLSRSAAAIVLGYRSFDPGVKLKGVILNRV  150 (449)
T ss_pred             cccCCEEEEecCCccccCCCCCCCCccHHHHHHHhC----CCEEEEECCchHHHHHHHHHHHHHhhCCCCCEEEEEEECC
Confidence            36899999999965531      2346777777666    78999999854 33444433   34556788999999999


Q ss_pred             CCCCchhHHHHH-HHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhccccc
Q 011624          333 DGDSRGGAALSV-KEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFD  411 (481)
Q Consensus       333 D~~~~~g~~~~~-~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~~~~d  411 (481)
                      +...+....... ...+++|+  +|..|+.+++.      +.+||||+      + ++.|..+.++..+.+.+.++.++|
T Consensus       151 ~~~~~~~~~~~~i~~~~gipv--LG~IP~~~~l~------~p~rhLgL------v-~~~e~~~~~~~~~~~~~~~~~~~d  215 (449)
T TIGR00379       151 GSERHLEKLKIAVEPLRGIPI--LGVIPRQQDLK------VPDRHLGL------V-PAGEREIIQQIFDWLAEVVEKYLD  215 (449)
T ss_pred             CCHHHHHHHHHHHHHhCCCCE--EEEecCccccC------CCCcccCC------C-ChhhhhhHHHHHHHHHHHHHhhCC
Confidence            876555444333 34479998  89998888765      44569999      5 555654555555677788889999


Q ss_pred             HHHHHHHHhhhhccCCccccccCCCCCCCccccccchhhhcc---hhHHHHHHccChhhhccCCcccc
Q 011624          412 FNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSL---KIMEAMIEAMTPGIFFFSIIIIG  476 (481)
Q Consensus       412 l~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~~d~a~~f---~~~~~li~sm~~e~~~~~~l~~~  476 (481)
                      ++.+++.+.+..+...........+...++++|+++|++|||   +|++.| +++|+++++|+|+.+.
T Consensus       216 ~~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~Iava~d~afnFy~~~~~~~L-~~~g~~~~~~~~~~d~  282 (449)
T TIGR00379       216 LDKLLEIAETARNLPSPMSLLWEPQNSKYVRIAVAQDQAFNFYYQDNLDAL-THNAAELVPFSPLEDT  282 (449)
T ss_pred             HHHHHHHhhcCCCccccccccccccCCCCcEEEEEechhhceeHHHHHHHH-HHCCCEEEEECCccCC
Confidence            999998875532211000000000111247899999999999   999999 9999999999998543

This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.

>PRK01077 cobyrinic acid a,c-diamide synthase; Validated

Probab=99.89  E-value=4.5e-22  Score=211.36  Aligned_cols=265  Identities=23%  Similarity=0.300  Sum_probs=189.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ++++....+||||||+++.|+++|+++|++|..+.+.   |+++|.. .+....|.+..+.+.+....+.+++.+..+. 
T Consensus         5 ~i~I~gt~s~~GKT~it~~L~~~L~~~G~~V~~fK~G---pd~~d~~-~~~~~~g~~~~~ld~~~~~~~~v~~~~~~~~-   79 (451)
T PRK01077          5 ALVIAAPASGSGKTTVTLGLMRALRRRGLRVQPFKVG---PDYIDPA-YHTAATGRPSRNLDSWMMGEELVRALFARAA-   79 (451)
T ss_pred             EEEEEeCCCCCcHHHHHHHHHHHHHhCCCCcceeecC---CCcccHH-HHHHHhCCCcccCCceeCCHHHHHHHHHHhc-
Confidence            3444445599999999999999999999999965553   3345543 4555677787777665555566677777763 


Q ss_pred             CCCcEEEEcCCCCccc------cHHHHHHHHhhhhccCCceEEEEEeCcc-hHHHHHHH---HHhhhcCCeeEEEEcCCC
Q 011624          264 KNVDVVIVDTAGRLQI------DKAMMDELKDVKRVLNPTEVLLVVDAMT-GQEAAALV---TTFNIEIGITGAILTKLD  333 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~------d~~~~~el~~i~~~~~p~~vvLVvda~~-~~~~~~~~---~~f~~~~~i~GvIlnKvD  333 (481)
                      .++|++||+++|.+..      +..+..++++.+.    .+++||+|+.. +......+   ..+...+++.|+|+||+.
T Consensus        80 ~~~D~vlVEGagGl~~g~~~~~~~~s~adiA~~l~----~pviLV~~~~~~~~~~a~l~~~~~~~~~~i~i~GvI~N~v~  155 (451)
T PRK01077         80 QGADIAVIEGVMGLFDGAGSDPDEGSTADIAKLLG----APVVLVVDASGMAQSAAALVLGFATFDPDVRIAGVILNRVG  155 (451)
T ss_pred             ccCCEEEEECCCccccCCccCCCCCCHHHHHHHhC----CCEEEEECCchHHHHHHHHHHHHHHhCCCCCEEEEEEECCC
Confidence            6899999999866532      2345677777766    78999999843 33333333   345557889999999997


Q ss_pred             CCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhcccccHH
Q 011624          334 GDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFN  413 (481)
Q Consensus       334 ~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~~~~dl~  413 (481)
                      ...+...+...++.+|+|+  +|..|+.+++.      +.+||||+      + ++.|..+.++..+.+.+.+++++|++
T Consensus       156 ~~~~~~~l~~~l~~~gipv--LG~IP~~~~l~------~p~r~lgl------~-~~~e~~~~~~~~~~~~~~~~~~~~~~  220 (451)
T PRK01077        156 SERHYQLLREALERCGIPV--LGALPRDAALA------LPERHLGL------V-QASEHGDLEARLDALADLVEEHVDLD  220 (451)
T ss_pred             ChhHHHHHHHHHHhcCCCE--EEEeeCCcccC------CCccccCC------C-CccccccHHHHHHHHHHHHHHcCCHH
Confidence            6656555566666789999  89998888765      45559999      5 55565556667788888999999999


Q ss_pred             HHHHHHhhhhccCCccccccCCCCCCCccccccchhhhcc---hhHHHHHHccChhhhccCCccc
Q 011624          414 DFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSL---KIMEAMIEAMTPGIFFFSIIII  475 (481)
Q Consensus       414 ~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~~d~a~~f---~~~~~li~sm~~e~~~~~~l~~  475 (481)
                      .+++..+..... ..........+ .++++|+++|.+|||   ++++.| +++|+++++|+|+-+
T Consensus       221 ~~~~~~~~~~~~-~~~~~~~~~~~-~~~~iava~d~af~f~y~e~~~~L-~~~g~~~~~~~~~~~  282 (451)
T PRK01077        221 ALLALARAAPPP-PPAAAPPPPAP-PGVRIAVARDAAFNFYYPENLELL-RAAGAELVFFSPLAD  282 (451)
T ss_pred             HHHHHHhCCCcc-cccccccccCC-CCceEEEEecCcccccHHHHHHHH-HHCCCEEEEeCCcCC
Confidence            988766432100 00000000011 247899999999999   699999 899999999999744

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=99.81  E-value=2.4e-18  Score=172.24  Aligned_cols=149  Identities=31%  Similarity=0.446  Sum_probs=119.2

Q ss_pred             hHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEE
Q 011624          110 IVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLA  189 (481)
Q Consensus       110 i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~  189 (481)
                      .+..+.++++.|+++||+.+++++|++.+.+.          .+.+.+.+.+.+.|.+.+........+ ..++++++|+
T Consensus       132 ~~~~l~~l~~~L~~~gv~~~la~~L~~~l~~~----------~~~~~~~~~~~~~l~~~l~~~~~~~~~-~~~~~vi~~v  200 (282)
T TIGR03499       132 RDPEGAKLLERLLRAGVSPELARELLEKLPER----------ADAEDAWRWLREALEKMLPVKPEEDEI-LEQGGVIALV  200 (282)
T ss_pred             cCHHHHHHHHHHHHCCCCHHHHHHHHHHhhcc----------CCHHHHHHHHHHHHHHHhccCCccccc-cCCCeEEEEE
Confidence            34567899999999999999999999998642          233456778888998888632222222 2357899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHc-C-CeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCc
Q 011624          190 GLQGVGKTTVSAKLANYLKKQ-G-KSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVD  267 (481)
Q Consensus       190 G~~GvGKTTta~~LA~~L~~~-G-~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D  267 (481)
                      |++||||||++++||.++..+ | ++|.+|++|+||.++.+++..|++..|+++....   ++.+ +.+.+..+  .++|
T Consensus       201 GptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~---~~~~-l~~~l~~~--~~~d  274 (282)
T TIGR03499       201 GPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVAR---DPKE-LRKALDRL--RDKD  274 (282)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccC---CHHH-HHHHHHHc--cCCC
Confidence            999999999999999999876 5 9999999999999999999999999999986543   3333 35666665  5799


Q ss_pred             EEEEcCCC
Q 011624          268 VVIVDTAG  275 (481)
Q Consensus       268 ~VIIDt~G  275 (481)
                      +|||||+|
T Consensus       275 ~vliDt~G  282 (282)
T TIGR03499       275 LILIDTAG  282 (282)
T ss_pred             EEEEeCCC
Confidence            99999997

>PRK06278 cobyrinic acid a,c-diamide synthase; Validated

Probab=99.68  E-value=1.4e-15  Score=161.20  Aligned_cols=222  Identities=15%  Similarity=0.178  Sum_probs=147.5

Q ss_pred             HHHHHHHHHhcCccccccccCCCCEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc--hhHHH--HHHHhh
Q 011624          160 IVRDELVKLMGGEVSELVFAKSRPTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR--PAAID--QLVILG  234 (481)
Q Consensus       160 ~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r--p~aid--ql~~~~  234 (481)
                      .+++.+..-.|...........+|..++++|. +|+||||+++.|+++|+++   |.     +|+  |+++|  +. .|.
T Consensus       215 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~Iagt~Tg~GKT~vt~~L~~al~~~---v~-----~fK~GpD~id~~p~-~~~  285 (476)
T PRK06278        215 ILKEKLKSRSGISTNNKKEERNKPKGIILLATGSESGKTFLTTSIAGKLRGK---VF-----VAKIGPDVRDIVPS-LYL  285 (476)
T ss_pred             HHHHHHHHHhcccccccchhhcCCCeEEEEeCCCCCCHHHHHHHHHHHHHhC---eE-----EEcCCCChhhcCCc-cee
Confidence            34444444445332222222334556777777 9999999999999999976   77     555  56665  31 222


Q ss_pred             ---hhcCCCeec--CCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCcccc------HHHHHHHHhhhhccCCceEEEEE
Q 011624          235 ---EQVGVPVYT--AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQID------KAMMDELKDVKRVLNPTEVLLVV  303 (481)
Q Consensus       235 ---~~~gv~v~~--~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d------~~~~~el~~i~~~~~p~~vvLVv  303 (481)
                         ...+.++.+  .+.+++..+.+..    ++..++|++||+++|.+...      ..+..++++.+.    .+|+||+
T Consensus       286 ~~~~~sp~~a~n~~~d~~~~~~~~~~~----~~~~~~DivIIEGagGL~dg~~~~~~~~S~adlAk~l~----~PVILV~  357 (476)
T PRK06278        286 LREKMTKYNSIKIGDRGWSDVEEFLEF----VKNSDYDYYIIEGVMGAFTGALNKKNPYSGAEIAKALG----FPVYIVS  357 (476)
T ss_pred             cccccCChHHHhhcCCcccCHHHHHHH----HHhcCCCEEEEECCCCcccccCCCCccccHHHHHHHhC----CCEEEEE
Confidence               344555555  4445565555433    22247899999999766431      135667777776    7899999


Q ss_pred             eCcch--HHHHHHH---HHh--hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhh
Q 011624          304 DAMTG--QEAAALV---TTF--NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRI  376 (481)
Q Consensus       304 da~~~--~~~~~~~---~~f--~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~  376 (481)
                      |+..+  ..++..+   ..|  ++.+++.|||+|++.+..|...+..+.+.+|+||  +|+ ++   +.      +.+  
T Consensus       358 ~~~~g~i~~~~~~i~G~~~~l~~~~i~i~GVIlN~v~~~~~~~~~~~~le~~gvpV--LG~-~~---~~------~~~--  423 (476)
T PRK06278        358 SCSKSGIEGAFVESMAYYSLLKKMGVKVEGIILNKVYNMEIFEKVKKIAENSNINL--IGV-GK---LK------VEK--  423 (476)
T ss_pred             cCCCChHHHHHHHHHHHHHHHhcCCCcEEEEEEECCCcHHHHHHHHHHHHhcCCCE--EEe-cc---cc------ccc--
Confidence            99433  4444443   345  5578899999999998888888788888899999  888 55   11      112  


Q ss_pred             cCCchhHHHHHHHHHhhchhHHHHHHHhhhcccccHHHHHHHHhh
Q 011624          377 LGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRT  421 (481)
Q Consensus       377 lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~~~~dl~~l~~~~~~  421 (481)
                      ||+      + ++.|. +.++..+.+++ +++++|++.+++.++.
T Consensus       424 lGL------v-~~~e~-~~~~~~~~~~~-~~~~~d~~~i~~~a~~  459 (476)
T PRK06278        424 RGL------I-PEVEI-DYEEFCKAAME-VDENIDIPKIEINAKN  459 (476)
T ss_pred             cCC------C-Chhhh-hHHHHHHHHHH-HHhcCCHHHHHHHhcC
Confidence            677      5 55665 56666677788 8999999999876543

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=99.67  E-value=3e-15  Score=138.41  Aligned_cols=153  Identities=21%  Similarity=0.285  Sum_probs=97.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      |.+.+++||+||||++.+||.+++++|++|++||+|++++.....+   .            .......++..++.....
T Consensus         2 i~v~s~kgG~GKTt~a~~LA~~la~~g~~vllvD~D~q~~~~~~~~---~------------~~~~~~~l~~~~~~~~~~   66 (169)
T cd02037           2 IAVMSGKGGVGKSTVAVNLALALAKLGYKVGLLDADIYGPSIPKMW---R------------GPMKMGAIKQFLTDVDWG   66 (169)
T ss_pred             EEEecCCCcCChhHHHHHHHHHHHHcCCcEEEEeCCCCCCCchHHH---h------------CcchHHHHHHHHHHhhcC
Confidence            4455688999999999999999999999999999999987632111   0            001233445555554346


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-ch-HHHHHHHHHhh-hcCCeeEEEEcCCCCC----Cc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TG-QEAAALVTTFN-IEIGITGAILTKLDGD----SR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~-~~~~~~~~~f~-~~~~i~GvIlnKvD~~----~~  337 (481)
                      +||+|||||||.... .. . .   +......+.+++|+.+. .. .++.+..+.+. ...++.|+|+|+++..    .+
T Consensus        67 ~yD~VIiD~pp~~~~-~~-~-~---~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~~~~~~~gvv~N~~~~~~~~~~~  140 (169)
T cd02037          67 ELDYLVIDMPPGTGD-EH-L-T---LAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKKVNIPILGVVENMSYFVCPHCGK  140 (169)
T ss_pred             CCCEEEEeCCCCCcH-HH-H-H---HHhccCCCeEEEEECCchhhHHHHHHHHHHHHhcCCCeEEEEEcCCcccCCCCCC
Confidence            899999999998641 11 1 1   11112237788888763 22 23333333222 2456889999999752    11


Q ss_pred             ------hhHHHHHHHHhCCCeEEeecCCC
Q 011624          338 ------GGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       338 ------~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                            .+.+..+++..+.|+  ++..|.
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~--~~~ip~  167 (169)
T cd02037         141 KIYIFGKGGGEKLAEELGVPL--LGKIPL  167 (169)
T ss_pred             cccccCCccHHHHHHHcCCCE--EEeccC
Confidence                  124466777778877  776643

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>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=99.67  E-value=1.2e-15  Score=146.37  Aligned_cols=167  Identities=18%  Similarity=0.209  Sum_probs=102.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH------------HHHH-------------HhhhhcC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI------------DQLV-------------ILGEQVG  238 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai------------dql~-------------~~~~~~g  238 (481)
                      ++|.+.|||||||||++.+||.+|+++|+||++||+|++.....            +-+.             .+....|
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~la~~G~rvLliD~D~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAALAEMGKKVLQVGCDPKADSTRLLLGGKAPTTILELAAEDGHVEDLELEDVIFEGFGG   80 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHHHHHCCCcEEEEeCCCCCCccccccCCCCCCCHHHHHhhhCCcCCcChhHeeEeCCCC
Confidence            36788899999999999999999999999999999999863221            0010             0001135


Q ss_pred             CCeecCCCCCCHH-----------HHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc
Q 011624          239 VPVYTAGTEVKPS-----------QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT  307 (481)
Q Consensus       239 v~v~~~~~~~~~~-----------~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~  307 (481)
                      +.+++.+......           ..++ .+..+ .++||||||||+|...... ....+.    ....+.+++|+.+..
T Consensus        81 l~vlp~~~~~~~~~~~~~~~~~~~~~l~-~l~~~-~~~yD~ilID~~g~~~~~~-~~~~l~----~~~ad~vliv~~p~~  153 (212)
T cd02117          81 VKCVESGGPEPGVGCAGRGVITAVNLLE-KEGFA-EDDLDVVLYDVLGDVVCGG-FAMPIR----EGKADEIYIVTSGEF  153 (212)
T ss_pred             cEEEeCCCCCCCcccCCcchhhHHHHHH-hcccc-ccCCCEEEEecCCCceecc-cccccc----cccCcEEEEEecccH
Confidence            5555544322110           1122 33333 3689999999987653111 111111    012377888887632


Q ss_pred             -h----HHHHHHHHHhhh--cCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCC
Q 011624          308 -G----QEAAALVTTFNI--EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       308 -~----~~~~~~~~~f~~--~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~  359 (481)
                       +    ....+.++.+..  ...+.|+|+||++...+...+..+.+.++.|+  ++..|
T Consensus       154 ~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~~~~~~~~~~~~~~~~~v--l~~IP  210 (212)
T cd02117         154 MALYAANNICKGIRKYAKSGGVRLGGLICNSRNTDRETELIDAFAERLGTQV--IHFVP  210 (212)
T ss_pred             HHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCccHHHHHHHHHHHcCCCE--EEecC
Confidence             2    223334455533  45678999999997655555677788888888  65544

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK11670 antiporter inner membrane protein; Provisional

Probab=99.63  E-value=1.5e-14  Score=150.00  Aligned_cols=170  Identities=19%  Similarity=0.239  Sum_probs=101.6

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHH---hhh-----------hcCCCeecCC---
Q 011624          184 TVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVI---LGE-----------QVGVPVYTAG---  245 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~---~~~-----------~~gv~v~~~~---  245 (481)
                      ++|++ +|+|||||||++.+||.+|++.|+||+|||+|+|.|.....+..   +..           ..|+.....+   
T Consensus       108 ~vIaV~S~KGGVGKTT~avNLA~aLA~~G~rVlLID~D~qgps~~~~lg~~~~~~~~~~~~~i~p~~~~g~~~~~~~~l~  187 (369)
T PRK11670        108 NIIAVSSGKGGVGKSSTAVNLALALAAEGAKVGILDADIYGPSIPTMLGAEDQRPTSPDGTHMAPIMAHGLATNSIGYLV  187 (369)
T ss_pred             EEEEEeCCCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCCCCCcchhcCCcccCCcccCCceeeeeeccCcccccHHHhc
Confidence            56665 69999999999999999999999999999999999764322210   000           0011100000   


Q ss_pred             --------CCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc--chHHHHHHH
Q 011624          246 --------TEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM--TGQEAAALV  315 (481)
Q Consensus       246 --------~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~--~~~~~~~~~  315 (481)
                              ........+++.+....+++||||||||||... +..+.     +......+.+++|+...  ...++...+
T Consensus       188 ~~~~~~i~~g~~~~~~l~~~l~~~~~~~yDyvIID~PPg~g-d~~l~-----~~~l~aad~viiV~tp~~~s~~da~~~i  261 (369)
T PRK11670        188 TDDNAMVWRGPMASKALMQMLQETLWPDLDYLVLDMPPGTG-DIQLT-----LAQNIPVTGAVVVTTPQDIALIDAKKGI  261 (369)
T ss_pred             CcCcceeecCcchHHHHHHHHHHHhhccCCEEEEeCCCCCc-hHHHH-----HhhhccCCeEEEEecCchhHHHHHHHHH
Confidence                    000112344555543335789999999998764 22111     11112236777777552  223444444


Q ss_pred             HHh-hhcCCeeEEEEcCCCCCCc--------h--hHHHHHHHHhCCCeEEeecCCCC
Q 011624          316 TTF-NIEIGITGAILTKLDGDSR--------G--GAALSVKEVSGKPIKLVGRGERM  361 (481)
Q Consensus       316 ~~f-~~~~~i~GvIlnKvD~~~~--------~--g~~~~~~~~~glPV~~ig~g~~v  361 (481)
                      +.+ +.++++.|+|+|+.+....        .  +....+++.++.|+  ++..+..
T Consensus       262 ~~~~~~~~~ilGiV~Nm~~~~~~~~~~~~~if~~~~~~~lae~~~~~l--l~~IP~~  316 (369)
T PRK11670        262 VMFEKVEVPVLGIVENMSMHICSNCGHHEPIFGTGGAEKLAEKYHTQL--LGQMPLH  316 (369)
T ss_pred             HHHhccCCCeEEEEEcCCccccCCccchhhhcccchHHHHHHHcCCcE--EEEeCCC
Confidence            444 3467789999999874321        1  13456777888887  5655443

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=99.62  E-value=7.7e-15  Score=146.17  Aligned_cols=172  Identities=18%  Similarity=0.181  Sum_probs=94.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH------------HHHHH-----------HhhhhcCCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA------------IDQLV-----------ILGEQVGVP  240 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a------------idql~-----------~~~~~~gv~  240 (481)
                      ++|+++|||||||||++.+||..|+++|+||++||+|++-...            .+-+.           ......|+.
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~La~~G~rVLlID~Dpq~~~t~~l~~~~~~~~~~~~l~~~~~~~~~~~i~~~~~~~l~   81 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAGLAEMGKKVMVVGCDPKADSTRLLLGGLAQKTVLDTLREEGEDVELEDIRKEGYGGTR   81 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHHHHHCCCcEEEEecCCcccccccccCCCCCccHHHHHHhcCCCCCHHHHhhcCCCCCE
Confidence            3677779999999999999999999999999999999985221            11110           000012444


Q ss_pred             eecCCCC-----C-CHHHHHH-HHHHHHH----cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-ch
Q 011624          241 VYTAGTE-----V-KPSQIAK-QGLEEAK----KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TG  308 (481)
Q Consensus       241 v~~~~~~-----~-~~~~~l~-~~l~~~~----~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~  308 (481)
                      +++.+..     . .....++ ..++.+.    .++||||||||+|..... .+...    ......+.+++++.+. .+
T Consensus        82 ~ip~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~yD~ilID~~~~~~~~-~l~~~----~a~~aad~vlIp~~~e~~s  156 (274)
T PRK13235         82 CTESGGPEPGVGCAGRGIITSVNLLEQLGAYDDEWNLDYVFYDVLGDVVCG-GFAMP----IRDGKAEEIYIVCSGEMMA  156 (274)
T ss_pred             EEeCCCCCCCCCCCCCceeehhHHHHhhchhhccCCCCEEEEECCCCCccC-Ccccc----cccccccEEEEEecCchhH
Confidence            4443210     0 0111111 2333331    257999999998764211 11100    0001237778877662 12


Q ss_pred             -H---HHHHHHHHh--hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCC
Q 011624          309 -Q---EAAALVTTF--NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERME  362 (481)
Q Consensus       309 -~---~~~~~~~~f--~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~  362 (481)
                       .   ...+.++..  +.++.+.|+|+|+.....+......+.+.++.++  ++..+...
T Consensus       157 l~g~~~ll~~i~~~~~~~~l~i~giv~n~~~~~~~~e~~~~l~~~~~~~l--l~~Ip~~~  214 (274)
T PRK13235        157 MYAANNICKGILKYADAGGVRLGGLICNSRKVDNEREMIEELARKIGTQM--IHFVPRDN  214 (274)
T ss_pred             HHHHHHHHHHHHHHhhcCCCceeEEEEecCCCCchHHHHHHHHHHcCCce--EEeCCCCH
Confidence             2   222333333  3467788999997643233333455566677666  45554443

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=99.61  E-value=5.2e-15  Score=147.31  Aligned_cols=170  Identities=18%  Similarity=0.163  Sum_probs=97.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH------------HHHHHh------------hhhcCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI------------DQLVIL------------GEQVGV  239 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai------------dql~~~------------~~~~gv  239 (481)
                      ++|.++|||||||||++.+||..|+++|+||++||+|++.+...            +-+...            ....|+
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~La~~G~rVllvD~Dpq~~~~~~l~g~~~~~~~~d~l~~~~~~~~~~~~~i~~~~~~i   81 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAALSTMGNKILLVGCDPKADSTRMLLGGLNQKTVLDTLRSEGDEGVDLDVVMQPGFGDI   81 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHhhCCCeEEEecccccccchhhcCCCCCCcHHHHHHhcCCCCCCHHHEEEeCCCCe
Confidence            36666799999999999999999999999999999999854321            111000            000134


Q ss_pred             CeecCCCCC------CH----HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-ch
Q 011624          240 PVYTAGTEV------KP----SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TG  308 (481)
Q Consensus       240 ~v~~~~~~~------~~----~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~  308 (481)
                      .+++.+...      ..    ...+.+.+..+ +++||||||||+|....+ .+...+    .....+.+++|+.+. ..
T Consensus        82 ~~i~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~~~yD~vlID~~~~~~~~-~~~~~~----al~aad~vlip~~p~~~s  155 (273)
T PRK13232         82 KCVESGGPEPGVGCAGRGIITSIGLLENLGAY-TDDLDYVFYDVLGDVVCG-GFAMPI----REGKAKEIYIVASGELMA  155 (273)
T ss_pred             EEEeCCCCCCCCCCCCCchhHHHHHHHHcccc-cccCCEEEEecCCCeeEC-CEeccc----cccccceEEEecCchHHH
Confidence            444432110      00    01234555544 368999999998765311 011000    001237778887662 11


Q ss_pred             -HH---HHHHHHHh-hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCC
Q 011624          309 -QE---AAALVTTF-NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM  361 (481)
Q Consensus       309 -~~---~~~~~~~f-~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v  361 (481)
                       ..   ..+.+..+ +..+.+.|+|+|+.+...+......+.+.++.++  ++..+..
T Consensus       156 l~~~~~~~k~l~~~~~~~l~~~GiV~n~~~~~~~~~~~e~l~~~~~~~v--l~~Ip~~  211 (273)
T PRK13232        156 IYAANNICKGLAKFAKGGARLGGIICNSRNVDGERELLEAFAKKLGSQL--IHFVPRD  211 (273)
T ss_pred             HHHHHHHHHHHHHHhCCCCceeEEEEeCCCCCccHHHHHHHHHHhCCCe--EEECCCC
Confidence             22   22333332 3456788999998764333333455666777766  5544433

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=99.59  E-value=1.8e-14  Score=142.55  Aligned_cols=169  Identities=20%  Similarity=0.241  Sum_probs=96.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH------------HHHHHhhh------------hcCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI------------DQLVILGE------------QVGV  239 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai------------dql~~~~~------------~~gv  239 (481)
                      ++|+++|||||||||++.+||.+|+++|+||++||+|++.....            +.+.....            ..|+
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~La~~G~kVlliD~Dpq~n~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l   81 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAALAEMGKKVMIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVELELEDVIFEGFGGI   81 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHHHhCCCeEEEEEcCCCCCchhhhcCCCCCCcHHHHHHhhcccccchhhheeecCCCe
Confidence            36667799999999999999999999999999999999853221            11110000            1244


Q ss_pred             CeecCCCCCC-----------HHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-
Q 011624          240 PVYTAGTEVK-----------PSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-  307 (481)
Q Consensus       240 ~v~~~~~~~~-----------~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-  307 (481)
                      .+++.+....           ....+ +.+..+ ..+||||||||+|..... .+...+    .....+.+++|+.+.. 
T Consensus        82 ~~ip~~~~~~~~~~~~~~~~~~~~~l-~~l~~~-~~~yD~viID~~g~~~~~-~~~~~~----~~~aaD~vlip~~p~~~  154 (270)
T cd02040          82 KCVESGGPEPGVGCAGRGVITAINLL-EELGAY-EDDLDFVIYDVLGDVVCG-GFAMPI----REGKAQEIYIVTSGEMM  154 (270)
T ss_pred             EEEeCCCCCCCCCCcCcchhhHHHHH-HhcCcc-ccCCCEEEEecccCcccC-Cccccc----ccccccEEEEEecCchH
Confidence            5554432110           01111 222222 257999999998764211 111000    0011377888877632 


Q ss_pred             h-H---HHHHHHHHhh--hcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCC
Q 011624          308 G-Q---EAAALVTTFN--IEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM  361 (481)
Q Consensus       308 ~-~---~~~~~~~~f~--~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v  361 (481)
                      + .   ...+.+..+.  .+.++.|||+|+.....+...+..+.+.++.++  ++..+..
T Consensus       155 sl~~~~~l~~~i~~~~~~~~~~l~gVv~n~~~~~~~~~~~~~l~~~~g~~v--l~~Ip~~  212 (270)
T cd02040         155 ALYAANNICKGILKYAKSGGVRLGGLICNSRNTDREDELIDAFAKRLGTQM--IHFVPRD  212 (270)
T ss_pred             HHHHHHHHHHHHHHhCccCCCceEEEEEecCCChhHHHHHHHHHHHcCCCe--EeecCCc
Confidence            2 1   2223333443  246788899998643333444566777788887  5555433

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.

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=99.59  E-value=3.7e-14  Score=138.50  Aligned_cols=164  Identities=24%  Similarity=0.362  Sum_probs=97.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-------------HHHHH--------HhhhhcCCCeec
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-------------IDQLV--------ILGEQVGVPVYT  243 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-------------idql~--------~~~~~~gv~v~~  243 (481)
                      |.+++++|||||||++.+||.+|+++|++|++||+|++.+..             .+.+.        .+....|+.+++
T Consensus         3 i~v~~~KGGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lp   82 (251)
T TIGR01969         3 ITIASGKGGTGKTTITANLGVALAKLGKKVLALDADITMANLELILGMEDKPVTLHDVLAGEADIKDAIYEGPFGVKVIP   82 (251)
T ss_pred             EEEEcCCCCCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCccceeEeCCCCCCCCHHHHhcCCCCHHHheEeCCCCEEEEe
Confidence            444568899999999999999999999999999999964321             11110        000112444554


Q ss_pred             CCCCCC-----HHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-ch-HHHHHHHH
Q 011624          244 AGTEVK-----PSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TG-QEAAALVT  316 (481)
Q Consensus       244 ~~~~~~-----~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~-~~~~~~~~  316 (481)
                      .+....     ..+.+.+.+..+. ++||+|||||||....  .....+    .  ..+.+++|+++. .+ .++.....
T Consensus        83 ~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~VIiD~p~~~~~--~~~~~l----~--~ad~vliv~~~~~~s~~~~~~~~~  153 (251)
T TIGR01969        83 AGVSLEGLRKADPDKLEDVLKEII-DDTDFLLIDAPAGLER--DAVTAL----A--AADELLLVVNPEISSITDALKTKI  153 (251)
T ss_pred             CCCCHHHHhhcCHHHHHHHHHHHH-hhCCEEEEeCCCccCH--HHHHHH----H--hCCeEEEEECCCCchHHHHHHHHH
Confidence            432211     1234566666664 6899999999988642  122221    1  237788888873 22 22222222


Q ss_pred             Hh-hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCC
Q 011624          317 TF-NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       317 ~f-~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~  359 (481)
                      .. .....+.|+|+|+++.....-....+.+.++.|+  ++..+
T Consensus       154 ~~~~~~~~~~~vv~N~~~~~~~~~~~~~l~~~~~~~~--l~~Ip  195 (251)
T TIGR01969       154 VAEKLGTAILGVVLNRVTRDKTELGREEIETILEVPV--LGVVP  195 (251)
T ss_pred             HHHhcCCceEEEEEECCCchhhhhHHHHHHHhhCCcE--EEEec
Confidence            11 2245678999999986432212233445567777  45443

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=99.59  E-value=5.2e-14  Score=133.95  Aligned_cols=144  Identities=24%  Similarity=0.315  Sum_probs=91.7

Q ss_pred             CEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH---------Hh-------------hhhcCC
Q 011624          183 PTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV---------IL-------------GEQVGV  239 (481)
Q Consensus       183 ~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~---------~~-------------~~~~gv  239 (481)
                      +++|+++ +++|+||||++.+||.+|+++|++|++||+|++.|.....+.         .+             ....++
T Consensus        17 ~kvI~v~s~kgG~GKTt~a~~LA~~la~~G~rVllID~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~l~~~i~~~~~~~l   96 (204)
T TIGR01007        17 IKVLLITSVKPGEGKSTTSANIAVAFAQAGYKTLLIDGDMRNSVMSGTFKSQNKITGLTNFLSGTTDLSDAICDTNIENL   96 (204)
T ss_pred             CcEEEEecCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCChhHHHHhCCCCCCCCHHHHhcCCCCHHHhcccCCCCCE
Confidence            5667665 679999999999999999999999999999998765321110         00             011244


Q ss_pred             CeecCCCC-CCHH-----HHHHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeC-cchH-H
Q 011624          240 PVYTAGTE-VKPS-----QIAKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDA-MTGQ-E  310 (481)
Q Consensus       240 ~v~~~~~~-~~~~-----~~l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda-~~~~-~  310 (481)
                      .+++.+.. ..+.     +.+++.++.++ .+||+||||||+.... +...      +..  ..+.+++|+++ .+.. .
T Consensus        97 ~~l~~g~~~~~~~~~l~~~~l~~~l~~l~-~~yD~ViiD~pp~~~~~~~~~------~~~--~~D~vilV~~~~~~~~~~  167 (204)
T TIGR01007        97 FVITSGPVPPNPTELLQSSNFKTLIETLR-KYFDYIIIDTPPIGTVTDAAI------IAR--ACDASILVTDAGEIKKRD  167 (204)
T ss_pred             EEEeCCCCCCCHHHHhCcHHHHHHHHHHH-hcCCEEEEeCCCccccchHHH------HHH--hCCeEEEEEECCCCCHHH
Confidence            45544332 2222     23456777774 7899999999985322 2221      111  13889999988 3333 3


Q ss_pred             HHHHHHHhh-hcCCeeEEEEcCCCCC
Q 011624          311 AAALVTTFN-IEIGITGAILTKLDGD  335 (481)
Q Consensus       311 ~~~~~~~f~-~~~~i~GvIlnKvD~~  335 (481)
                      +...++.+. .+..+.|+|+||++..
T Consensus       168 ~~~~~~~l~~~~~~~~gvVlN~~~~~  193 (204)
T TIGR01007       168 VQKAKEQLEQTGSNFLGVVLNKVDIS  193 (204)
T ss_pred             HHHHHHHHHhCCCCEEEEEEeCcccc
Confidence            333323232 2347899999999854

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.

>PRK13233 nifH nitrogenase reductase; Reviewed

Probab=99.58  E-value=2.7e-14  Score=142.17  Aligned_cols=169  Identities=17%  Similarity=0.180  Sum_probs=95.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHH------------HHHHHh------------hhhcC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAI------------DQLVIL------------GEQVG  238 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~ai------------dql~~~------------~~~~g  238 (481)
                      ++|+|+|||||||||++.+||.+|++ +|+||++||+|++.....            +-+...            ....|
T Consensus         3 ~vIav~~KGGVGKTT~a~nLA~~La~~~G~rvLliD~Dpq~~~t~~~~g~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~   82 (275)
T PRK13233          3 RKIAIYGKGGIGKSTTTQNTAAAMAYFHDKKVFIHGCDPKADSTRLILGGKPQTTMMDTLRELGEEKVTPDKVIKTGFKD   82 (275)
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHHHHhcCCeEEEeccCcCcChHHHHhCCCCCCcHHHHHHHhCCCCCCHHHHeeeCCCC
Confidence            57777799999999999999999997 599999999999863221            111000            00124


Q ss_pred             CCeecCCCCCC------HHHH----HHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-c
Q 011624          239 VPVYTAGTEVK------PSQI----AKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-T  307 (481)
Q Consensus       239 v~v~~~~~~~~------~~~~----l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~  307 (481)
                      +.+++.+....      ....    +++.++.+ .++||||||||+|....+ .+..-+..    ...+.+++|+.+. .
T Consensus        83 l~~ipa~~~~~~~~~~~~~~~~~~~l~~~l~~~-~~~yD~iliD~~~~~~~~-al~~~~~~----~aad~viIp~~p~~~  156 (275)
T PRK13233         83 IRCVESGGPEPGVGCAGRGVITAIDLMEENGAY-TDDLDFVFFDVLGDVVCG-GFAMPIRD----GKAQEVYIVASGEMM  156 (275)
T ss_pred             cEEEECCCCCCCCCCCCcchhHHHHHHHHcCCc-cCCCCEEEEecCCceeec-cccccchh----ccCceEEEeccccHH
Confidence            55555443221      1112    22333334 367999999997754211 11100000    1237788887763 2


Q ss_pred             h-HHH---HHHHHHh--hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCC
Q 011624          308 G-QEA---AALVTTF--NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       308 ~-~~~---~~~~~~f--~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                      + ..+   .+.+...  +.++.+.|+|+|+.....+......+.+.++.++  ++..+.
T Consensus       157 sl~g~~~l~~~i~~~~~~~~l~~~Giv~n~~~~~~~~~~~e~l~~~~~~~~--l~~Ip~  213 (275)
T PRK13233        157 AIYAANNICKGLVKYAEQSGVRLGGIICNSRNVDGELELLEEFTDAIGTQM--IHFVPR  213 (275)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCceeEEEeeCCCCCcHHHHHHHHHHHcCCce--eeecCc
Confidence            2 222   2222222  4467789999998642222333455666677766  454433

>PRK13236 nitrogenase reductase; Reviewed

Probab=99.58  E-value=4.6e-14  Score=142.33  Aligned_cols=227  Identities=12%  Similarity=0.104  Sum_probs=120.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH------------HHHHHH-------------hhhhc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA------------IDQLVI-------------LGEQV  237 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a------------idql~~-------------~~~~~  237 (481)
                      -+++.+.|||||||||++.+||..|+++|+||++||+|++-+..            .+-+..             .....
T Consensus         6 ~~~~~~~GKGGVGKTt~a~NLA~~La~~G~rVLliD~D~q~~~~~~l~~~~~~~tl~d~~~~~~~~~~~~l~~~i~~~~~   85 (296)
T PRK13236          6 IRQIAFYGKGGIGKSTTSQNTLAAMAEMGQRILIVGCDPKADSTRLMLHSKAQTTVLHLAAERGAVEDLELHEVMLTGFR   85 (296)
T ss_pred             ceEEEEECCCcCCHHHHHHHHHHHHHHCCCcEEEEEccCCCCccchhccCCCCCCHHHHHHhcCCccCCCHHHhheeCCC
Confidence            37899999999999999999999999999999999999874221            111110             01123


Q ss_pred             CCCeecCCCC------CCHHHHHHHHHHHHH----cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-
Q 011624          238 GVPVYTAGTE------VKPSQIAKQGLEEAK----KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-  306 (481)
Q Consensus       238 gv~v~~~~~~------~~~~~~l~~~l~~~~----~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-  306 (481)
                      |+.+++.+..      .......  .++.+.    +++||||+|||++..... .+...+.    ....+.+++|+.+. 
T Consensus        86 gv~llpa~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~yD~vliD~~~~~~~~-~~~~~~~----l~aAD~vIIvttpe~  158 (296)
T PRK13236         86 GVKCVESGGPEPGVGCAGRGIIT--AINFLEENGAYQDLDFVSYDVLGDVVCG-GFAMPIR----EGKAQEIYIVTSGEM  158 (296)
T ss_pred             CeEEEECCCCCCCCCCcceeehh--hhHHHHhcCccccCCEEEEeccccceec-cccccch----hccCCEEEEecCcch
Confidence            5556654311      1111111  223332    368999999997543211 1111110    11237788887662 


Q ss_pred             ch-HHHH---HHH-HHh-hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcC--hhhHhhhhcC
Q 011624          307 TG-QEAA---ALV-TTF-NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFY--PDRMAGRILG  378 (481)
Q Consensus       307 ~~-~~~~---~~~-~~f-~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~--~~~~~~r~lG  378 (481)
                      .. .++.   ..+ +.. +..+++.|+|+|+.+.......+..+.+.++.++  ++..++...+....  ...+.....+
T Consensus       159 ~sl~g~~~~~~~l~k~~~~~~l~i~gIv~Nr~~~~~~~~ile~l~~~~g~~v--l~~Ip~~~~v~eA~~~~~Pv~~~~p~  236 (296)
T PRK13236        159 MAMYAANNIARGILKYAHTGGVRLGGLICNSRNVDREIELIETLAKRLNTQM--IHFVPRDNIVQHAELRRMTVNEYAPD  236 (296)
T ss_pred             HHHHHHHHHHHHHHHHhhCCCceeEEEEecCCCCcchHHHHHHHHHHhCccc--eeeCCCChHHHHHHHcCCChhhcCCC
Confidence            22 2222   112 222 4467788999999754433334456667777776  56555443322111  1111222222


Q ss_pred             CchhHHHHHHHHHhhchhHHHHHHHhhhcccccHHHHHHHHhhhhc
Q 011624          379 MGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVAR  424 (481)
Q Consensus       379 lgd~~~lve~a~e~~~~~~~~~~~~k~~~~~~dl~~l~~~~~~~~~  424 (481)
                      .....+|.+.+++....      .....-..+|.+.|.+.++....
T Consensus       237 s~~a~~y~~La~ell~~------~~~~~p~~~~~~~~~~~~~~~~~  276 (296)
T PRK13236        237 SNQGNEYRALAKKIINN------DNLTIPTPIEMEELEELLIEFGI  276 (296)
T ss_pred             CHHHHHHHHHHHHHHhc------CCCCCCCCCCHHHHHHHHHHhhh
Confidence            22223333223222111      11122346888888888776643

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=99.58  E-value=7.9e-14  Score=129.82  Aligned_cols=158  Identities=23%  Similarity=0.317  Sum_probs=90.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee--cCCCCCCH---------HH-
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY--TAGTEVKP---------SQ-  252 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~--~~~~~~~~---------~~-  252 (481)
                      |.+.+|+||+||||++.+||..|    ++|++||+|+++|.....+ ......+....  ......+.         .. 
T Consensus         2 I~v~s~kgG~GKSt~a~nLA~~l----~~vlliD~D~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (179)
T cd03110           2 IAVISGKGGTGKTTVTAALAALL----KNVVLADCDVDAPNLHLFL-KPEIEEEEDFIVGGKKAVIDPELCISCGLCGKL   76 (179)
T ss_pred             EEEEcCCCCCCHHHHHHHHHHHH----hCcEEEECCCCCCchhhhc-CCCccccccceecCCceEEchhhhccccchHHH
Confidence            56778999999999999999999    7999999999987753322 11111111111  00000000         11 


Q ss_pred             --HHHHHHHH-HHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-HHHHHHHHHhhh-cCCeeE
Q 011624          253 --IAKQGLEE-AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-QEAAALVTTFNI-EIGITG  326 (481)
Q Consensus       253 --~l~~~l~~-~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~~~~~~~~~f~~-~~~i~G  326 (481)
                        .+.+.+.. ...++||+|||||||....  ....    ...  ..+.+++|+.+.. . .++...++.+.. +.+ .+
T Consensus        77 ~~~~~~~~~~~~~~~~~d~viiDtpp~~~~--~~~~----~l~--~aD~vliv~~~~~~~~~~~~~~~~~l~~~~~~-~~  147 (179)
T cd03110          77 VTEVRKHAKEIAKAEGAELIIIDGPPGIGC--PVIA----SLT--GADAALLVTEPTPSGLHDLERAVELVRHFGIP-VG  147 (179)
T ss_pred             HHHHHHHHHHhhhhcCCCEEEEECcCCCcH--HHHH----HHH--cCCEEEEEecCCcccHHHHHHHHHHHHHcCCC-EE
Confidence              11111111 1126899999999987642  1111    112  2377888887732 2 233333332221 233 48


Q ss_pred             EEEcCCCCCCc-hhHHHHHHHHhCCCeEEeecC
Q 011624          327 AILTKLDGDSR-GGAALSVKEVSGKPIKLVGRG  358 (481)
Q Consensus       327 vIlnKvD~~~~-~g~~~~~~~~~glPV~~ig~g  358 (481)
                      +|+||+|.... ...+...++..|+|+  ++..
T Consensus       148 vV~N~~~~~~~~~~~~~~~~~~~~~~v--l~~i  178 (179)
T cd03110         148 VVINKYDLNDEIAEEIEDYCEEEGIPI--LGKI  178 (179)
T ss_pred             EEEeCCCCCcchHHHHHHHHHHcCCCe--EEeC
Confidence            99999997543 344566778889998  6654

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=99.57  E-value=8.1e-14  Score=138.36  Aligned_cols=165  Identities=22%  Similarity=0.254  Sum_probs=96.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-----------HHHHHH--------------hhhhcC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-----------IDQLVI--------------LGEQVG  238 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-----------idql~~--------------~~~~~g  238 (481)
                      +||+++|||||||||++.+||.+|+++|+||++||+|++....           .+-+..              +....|
T Consensus         3 ~iIav~~KGGVGKTT~~~nLA~~la~~G~kVLliD~Dpq~~~t~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~i~~~~~~   82 (270)
T PRK13185          3 LVLAVYGKGGIGKSTTSSNLSAAFAKLGKKVLQIGCDPKHDSTFTLTGKLVPTVIDILEEVDFHSEELRPEDFVYEGYNG   82 (270)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeccCCcchhhhhcCCCCCcHHHHHHhccccccCCCHHHheeeCCCC
Confidence            5788889999999999999999999999999999999874221           111100              000135


Q ss_pred             CCeecCCCCCCH-------HHHHHHHHHHH-HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-
Q 011624          239 VPVYTAGTEVKP-------SQIAKQGLEEA-KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-  308 (481)
Q Consensus       239 v~v~~~~~~~~~-------~~~l~~~l~~~-~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-  308 (481)
                      +.+++.+.....       .......+..+ ..++||+|||||+|...... +...+      ...+.+++++.+.. . 
T Consensus        83 l~~ip~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~yD~viIDt~g~~~~~~-~~~~l------~~AD~viip~~~~~~sl  155 (270)
T PRK13185         83 VDCVEAGGPPAGTGCGGYVVGETVKLLKEHHLLDDYDVILFDVLGDVVCGG-FAAPL------QYADYALIVTANDFDSI  155 (270)
T ss_pred             cEEEECCCCCCCCCccchhHHHHHHHHHhcCccccCCEEEEecCCCcccCc-ccchh------hhCcEEEEEecCchhhH
Confidence            566644332210       01111222221 12579999999988753221 11111      11377777776622 1 


Q ss_pred             ---HHHHHHHHH--hhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCC
Q 011624          309 ---QEAAALVTT--FNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       309 ---~~~~~~~~~--f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                         +...+.++.  .+..+.+.|+|+|+.+..   ..+..+.+..+.|+  ++..+.
T Consensus       156 ~~~~~~~~~i~~~~~~~~l~i~giv~N~~~~~---~~~~~~~~~~g~~v--l~~Ip~  207 (270)
T PRK13185        156 FAANRIAAAIQAKAKNYKVRLAGVIANRSAGT---DLIDKFNEAVGLKV--LAHVPD  207 (270)
T ss_pred             HHHHHHHHHHHhhhhccCCCceEEEEeccChH---HHHHHHHHHcCCCE--EEECCC
Confidence               122333322  244566789999998732   33456667778887  454433

>PHA02518 ParA-like protein; Provisional

Probab=99.57  E-value=9.5e-14  Score=132.08  Aligned_cols=153  Identities=22%  Similarity=0.208  Sum_probs=91.7

Q ss_pred             EEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          185 VILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       185 VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      +|.+ ..+|||||||++.+||.+|+++|++|++||+|+++..... ... .. .+.+.++....   ...+.+.+..+. 
T Consensus         2 ii~v~~~KGGvGKTT~a~~la~~la~~g~~vlliD~D~q~~~~~~-~~~-~~-~~~~~i~~~~~---~~~~~~~l~~~~-   74 (211)
T PHA02518          2 IIAVLNQKGGAGKTTVATNLASWLHADGHKVLLVDLDPQGSSTDW-AEA-RE-EGEPLIPVVRM---GKSIRADLPKVA-   74 (211)
T ss_pred             EEEEEcCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCCChHHH-HHh-cc-cCCCCCchhhc---cHHHHHHHHHHh-
Confidence            4555 5779999999999999999999999999999999865422 111 11 11112211111   122344555553 


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--H---HHHHHHH---HhhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--Q---EAAALVT---TFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~---~~~~~~~---~f~~~~~i~GvIlnKvD~~  335 (481)
                      ..||+|||||||....   .+..   ++.  ..+.+++++.+...  .   .....++   .++......++|+|+.+..
T Consensus        75 ~~~d~viiD~p~~~~~---~~~~---~l~--~aD~viip~~ps~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~n~~~~~  146 (211)
T PHA02518         75 SGYDYVVVDGAPQDSE---LARA---ALR--IADMVLIPVQPSPFDIWAAPDLVELIKARQEVTDGLPKFAFIISRAIKN  146 (211)
T ss_pred             ccCCEEEEeCCCCccH---HHHH---HHH--HCCEEEEEeCCChhhHHHHHHHHHHHHHHHhhCCCCceEEEEEeccCCc
Confidence            6899999999997531   1211   111  13777777776321  1   2222222   2344556778999998754


Q ss_pred             Cc-hhHHHHHHHHhCCCe
Q 011624          336 SR-GGAALSVKEVSGKPI  352 (481)
Q Consensus       336 ~~-~g~~~~~~~~~glPV  352 (481)
                      .. ...+.......+.|+
T Consensus       147 ~~~~~~~~~~l~~~~~~~  164 (211)
T PHA02518        147 TQLYREARKALAGYGLPI  164 (211)
T ss_pred             chHHHHHHHHHHHcCchh
Confidence            33 334555555567776

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=99.56  E-value=3.3e-14  Score=135.27  Aligned_cols=165  Identities=24%  Similarity=0.273  Sum_probs=104.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcC-CeEEEEeccCCchhHHHH----------------HHHh--------------
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQG-KSCMLVAGDVYRPAAIDQ----------------LVIL--------------  233 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G-~kVlLId~D~~rp~aidq----------------l~~~--------------  233 (481)
                      .|+++|+||+||||+++.|+..|.++| ++|++||+|+ -++..++                ++..              
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~VLvVDaDp-d~nL~~~LGve~~~~~lg~~~e~~~k~~~a~~~~~~~~~fk   80 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNVLVVDADP-DSNLPEALGVEEPMKYLGGKRELLKKRTGAEPGGPPGEMFK   80 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceEEEEeCCC-CCChHHhcCCCCCCcccccHHHHHHHHhccCCCCCcccccc
Confidence            689999999999999999888877665 9999999997 2221111                1110              


Q ss_pred             -------------hhhcCCCeecCCC-------CCCHH-HHHHHHHHHHHcCCCcEEEEcC-CCCccccHHHHHHHHhhh
Q 011624          234 -------------GEQVGVPVYTAGT-------EVKPS-QIAKQGLEEAKKKNVDVVIVDT-AGRLQIDKAMMDELKDVK  291 (481)
Q Consensus       234 -------------~~~~gv~v~~~~~-------~~~~~-~~l~~~l~~~~~~~~D~VIIDt-~G~~~~d~~~~~el~~i~  291 (481)
                                   .+..++.+...+.       ..+|. .++++.+.++....+|+||||| +|.-|.......      
T Consensus        81 ~~~~~~di~~e~~~e~~~~~LLvmGkie~~GeGC~Cp~~allR~~l~~l~~~~~e~VivDtEAGiEHfgRg~~~------  154 (255)
T COG3640          81 ENPLVSDLPDEYLVENGDIDLLVMGKIEEGGEGCACPMNALLRRLLRHLILNRYEVVIVDTEAGIEHFGRGTIE------  154 (255)
T ss_pred             cCcchhhhhHHHhhhcCCccEEEeccccCCCCcccchHHHHHHHHHHHHhcccCcEEEEecccchhhhcccccc------
Confidence                         0001122222211       22333 4668888888767799999999 554443322222      


Q ss_pred             hccCCceEEEEEeCcc-hHHHHHHHHHhhhcC--CeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          292 RVLNPTEVLLVVDAMT-GQEAAALVTTFNIEI--GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       292 ~~~~p~~vvLVvda~~-~~~~~~~~~~f~~~~--~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                         ..|-++.|+|++. +-..+..++.....+  +-.++|+||+|..  ...+.......+++|  +|..|..+.
T Consensus       155 ---~vD~vivVvDpS~~sl~taeri~~L~~elg~k~i~~V~NKv~e~--e~~~~~~~~~~~~~v--lg~iP~d~~  222 (255)
T COG3640         155 ---GVDLVIVVVDPSYKSLRTAERIKELAEELGIKRIFVVLNKVDEE--EELLRELAEELGLEV--LGVIPYDPE  222 (255)
T ss_pred             ---CCCEEEEEeCCcHHHHHHHHHHHHHHHHhCCceEEEEEeeccch--hHHHHhhhhccCCeE--EEEccCCHH
Confidence               2377899999853 223333334443333  4578999999976  455566777788888  777755443

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=99.55  E-value=8.1e-14  Score=138.21  Aligned_cols=163  Identities=23%  Similarity=0.251  Sum_probs=92.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-----------HHHHHH----hh----------hhcCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-----------IDQLVI----LG----------EQVGV  239 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-----------idql~~----~~----------~~~gv  239 (481)
                      +|++.|||||||||++.+||.+|+++|+||++||+|++-...           .+-+..    +.          ...|+
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~~La~~g~rVLliD~D~q~~~~~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~~~l   81 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSVAFAKLGKRVLQIGCDPKHDSTFTLTGRLIPTVIDVLQAVNYHYEDVRPEDVIYTGYGGV   81 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHHHHHhCCCeEEEEecCccccccceecCCCCCcHHHHHHhccccccCCCHHHeeEeCCCCe
Confidence            466679999999999999999999999999999999974211           111100    00          01355


Q ss_pred             CeecCCCCCCH-------HHHHHHHHHHH-HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-H
Q 011624          240 PVYTAGTEVKP-------SQIAKQGLEEA-KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-Q  309 (481)
Q Consensus       240 ~v~~~~~~~~~-------~~~l~~~l~~~-~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~  309 (481)
                      .+++.+.....       .......+... ...+||+|||||+|.+.... ....    +  ...+.+++++.+.. . .
T Consensus        82 ~~i~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~yD~ViID~~~~~~~~~-~~~~----l--~aAD~vlip~~~~~~sl~  154 (268)
T TIGR01281        82 DCVEAGGPPAGSGCGGYVVGETVKLLKEHHILDDYDVILFDVLGDVVCGG-FATP----L--QYADYALVVAANDFDALF  154 (268)
T ss_pred             EEEecCCCCCCCcccceehhhhHHHhhhccccccCCEEEEecCCccccCc-cccc----h--hhcCEEEEEecCchhHHH
Confidence            55544332110       00011122221 12579999999988653211 1001    1  12366777766522 1 1


Q ss_pred             ---HHHHHHHHh--hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCC
Q 011624          310 ---EAAALVTTF--NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       310 ---~~~~~~~~f--~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~  359 (481)
                         ...+.++..  +..+.+.|+|+|+++..   ..+..+.+..+.|+  ++..+
T Consensus       155 ~~~~l~~~i~~~~~~~~l~~~gIV~N~~~~~---~~~~~~~~~~~~~v--l~~I~  204 (268)
T TIGR01281       155 AANRIAASVQEKAKNYDVRLAGIIGNRSDAT---DLIERFNERVGMPV--LGVVP  204 (268)
T ss_pred             HHHHHHHHHHHHhhcCCCceEEEEEeCCChH---HHHHHHHHHcCCCE--EEEcC
Confidence               222222222  34566789999999865   23344556678887  55443

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.

>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.55  E-value=1.2e-13  Score=137.10  Aligned_cols=166  Identities=25%  Similarity=0.309  Sum_probs=100.9

Q ss_pred             CEEE-EEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhh--------------------hhcCCCe
Q 011624          183 PTVI-LLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILG--------------------EQVGVPV  241 (481)
Q Consensus       183 ~~VI-~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~--------------------~~~gv~v  241 (481)
                      .++| +.+|++|+||||++.+||..+++.|+||+++|+|.+.|....-+..-.                    ...++.+
T Consensus        57 ~~~I~V~S~kgGvGKStva~nLA~alA~~G~rVlliDaD~~gps~~~~l~~~~~~g~~~~~~g~~~~~~~~~~~~~~lsi  136 (265)
T COG0489          57 KNVIAVTSGKGGVGKSTVAVNLAAALAQLGKRVLLLDADLRGPSIPRMLGLENLPGLTELLAGEALEPVIQHDGIKVLSI  136 (265)
T ss_pred             ceEEEEEeCCCCCcHHHHHHHHHHHHHhcCCcEEEEeCcCCCCchHHHhCCCCCCCcccccCCCccccceecCccceEEE
Confidence            3445 457999999999999999999999999999999999877543332100                    0001111


Q ss_pred             ecCC-CCCCHH-----HHHHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeC-cch-HHHH
Q 011624          242 YTAG-TEVKPS-----QIAKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDA-MTG-QEAA  312 (481)
Q Consensus       242 ~~~~-~~~~~~-----~~l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda-~~~-~~~~  312 (481)
                      .... ....+.     ..+++.+..+++.+|||+|||+||.... +...+..        .++.+++|+.. .+. .++.
T Consensus       137 ~~~~~~p~~~r~~l~s~~~~qll~~~~~~~~D~vIID~PP~~g~~d~~i~~~--------~~~g~viVt~p~~~~~~~v~  208 (265)
T COG0489         137 LPLGPVPVIPRGLLGSKAMLQLLEDVLWGEYDYVIIDTPPGTGDADATVLQR--------IPDGVVIVTTPGKTALEDVK  208 (265)
T ss_pred             EecCCCCCCChHhhhhHHHHHHHHHHhccCCCEEEEeCCCCchHHHHHHHhc--------cCCeEEEEeCCccchHHHHH
Confidence            1111 122332     2457888888877799999999988653 2222221        23577888766 333 3333


Q ss_pred             HHHHHh-hhcCCeeEEEEcCCCCCC-ch--hHHHHHHHHhCCCeEEeecCC
Q 011624          313 ALVTTF-NIEIGITGAILTKLDGDS-RG--GAALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       313 ~~~~~f-~~~~~i~GvIlnKvD~~~-~~--g~~~~~~~~~glPV~~ig~g~  359 (481)
                      ..+..+ ..+.++.|||.|+.+-.. +.  |......+..+ |+  +|..+
T Consensus       209 ka~~~~~~~~~~vlGvv~Nm~~~~~~~~~~g~~~~~~~~~~-~~--~g~~p  256 (265)
T COG0489         209 KAIDMLEKAGIPVLGVVENMSYFICPRCGEGGGEKYAERYG-PY--LGSIP  256 (265)
T ss_pred             HHHHHHHhcCCceEEEEecCccCcccccCCCchhhHHHHhc-cc--cccCC
Confidence            333333 235679999999887432 22  33444444444 33  55443

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=99.55  E-value=1.8e-13  Score=135.71  Aligned_cols=166  Identities=24%  Similarity=0.257  Sum_probs=95.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh-----------HHHHHHH----hh----------hhcCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA-----------AIDQLVI----LG----------EQVGV  239 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~-----------aidql~~----~~----------~~~gv  239 (481)
                      +|+++|||||||||++.+||.+|+++|+||++||+|++-..           ..+-+..    ..          ...|+
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~~la~~G~rvlliD~Dpq~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l   81 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSVALAKRGKKVLQIGCDPKHDSTFTLTGFLIPTVIDILEEVDFHYEELWPEDVIYEGYGGV   81 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHHHCCCcEEEEecCCCCCcceeccCCCCCCHHHHHHhccccccCCChhheEEECCCCc
Confidence            57777999999999999999999999999999999987311           1111100    00          01255


Q ss_pred             CeecCCCCCCH-------HHHHHHHHHHH-HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-H
Q 011624          240 PVYTAGTEVKP-------SQIAKQGLEEA-KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-Q  309 (481)
Q Consensus       240 ~v~~~~~~~~~-------~~~l~~~l~~~-~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~  309 (481)
                      .+++.+.....       .......++.. ...+||+|||||+|..... .+...+      ...|.+++++.+.. . .
T Consensus        82 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yD~vIIDt~g~~~~~-~~~~al------~~aD~vlip~~p~~~~l~  154 (267)
T cd02032          82 DCVEAGGPPAGAGCGGYVVGETVKLLKELNLFEEYDVILFDVLGDVVCG-GFAAPL------NYADYALIVTDNDFDSIF  154 (267)
T ss_pred             EEEEcCCCCCCccccchHHHHHHHHHHHccccccCCEEEEeCCCCcccc-cchhhh------hhcCEEEEEecCCcccHH
Confidence            55544322111       00011122221 1247999999998875321 111111      11377788877632 1 1


Q ss_pred             ---HHHHHHHHh--hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCC
Q 011624          310 ---EAAALVTTF--NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERME  362 (481)
Q Consensus       310 ---~~~~~~~~f--~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~  362 (481)
                         ...+.++..  +..+.+.|+|+|+++..   ..+..+.+.++.|+  ++..+...
T Consensus       155 ~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~~---~~i~~~~~~~~~~v--l~~Ip~~~  207 (267)
T cd02032         155 AANRIAAAVREKAKTYKVRLAGLIANRTDKT---DLIDKFVEAVGMPV--LAVLPLIE  207 (267)
T ss_pred             HHHHHHHHHHHHhhccCCceEEEEEeCCCHH---HHHHHHHHhCCCCE--EEEecCCc
Confidence               222223222  34566789999999853   23445566678887  55544433

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.

>PRK13234 nifH nitrogenase reductase; Reviewed

Probab=99.55  E-value=8e-14  Score=140.49  Aligned_cols=172  Identities=18%  Similarity=0.174  Sum_probs=99.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH------------HHHHHH-------------hhhhc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA------------IDQLVI-------------LGEQV  237 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a------------idql~~-------------~~~~~  237 (481)
                      -++|.|+|+|||||||++.+||..|+++|+||++||+|++.+..            .+-+..             +....
T Consensus         4 ~~~iai~~KGGvGKTt~~~nLa~~la~~g~kVLliD~D~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~   83 (295)
T PRK13234          4 LRQIAFYGKGGIGKSTTSQNTLAALVEMGQKILIVGCDPKADSTRLILNAKAQDTVLSLAAEAGSVEDLELEDVMKIGYK   83 (295)
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEecccccccccccccCCCCCcHHHHHHhcCCcccccHHHHheecCC
Confidence            35787789999999999999999999999999999999975322            111100             01123


Q ss_pred             CCCeecCCCCCC------HHHHHH-HHHHHHH-cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-ch
Q 011624          238 GVPVYTAGTEVK------PSQIAK-QGLEEAK-KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TG  308 (481)
Q Consensus       238 gv~v~~~~~~~~------~~~~l~-~~l~~~~-~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~  308 (481)
                      |+.+++.+....      ....++ ..++.+. .++||||||||+|....+ .+...+.    ....+.+++++.+. .+
T Consensus        84 gl~lipa~~~~~~~~~~~~~~~l~~~~l~~~~~~~~yD~IlID~~~~~~~n-al~~~~~----~~aAD~vIIPv~pe~~S  158 (295)
T PRK13234         84 GIKCVESGGPEPGVGCAGRGVITSINFLEENGAYDDVDYVSYDVLGDVVCG-GFAMPIR----ENKAQEIYIVMSGEMMA  158 (295)
T ss_pred             CeEEEECCCCCCCCCCCcceeeeHHHHHHHcCCCccCCEEEEEcCCCceEC-CCccccc----cccCceEEEecCccHHH
Confidence            555655432111      112233 2454432 258999999997654211 1111100    00237788888762 22


Q ss_pred             -HH---HHHHHHHh--hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCC
Q 011624          309 -QE---AAALVTTF--NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM  361 (481)
Q Consensus       309 -~~---~~~~~~~f--~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v  361 (481)
                       ..   ..+.+...  +..+.+.|+|+|+.....+...+..+.+.++.++  ++..+..
T Consensus       159 l~gl~~l~~~i~~~~~~~~l~~~gIV~N~~rt~~~~~~~e~l~e~~g~~l--l~~Ip~d  215 (295)
T PRK13234        159 LYAANNIAKGILKYANSGGVRLGGLICNERQTDRELELAEALAARLGSKL--IHFVPRD  215 (295)
T ss_pred             HHHHHHHHHHHHHHhcCCCCeEEEEEecCCCCchHHHHHHHHHHHhCCce--EEECCCc
Confidence             12   22233333  2346688999997654433334455556677776  4544443

>PRK00784 cobyric acid synthase; Provisional

Probab=99.54  E-value=7e-14  Score=150.17  Aligned_cols=222  Identities=20%  Similarity=0.305  Sum_probs=133.5

Q ss_pred             EEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-------------HHHHHHhh-hhcCC-------Cee
Q 011624          185 VILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-------------IDQLVILG-EQVGV-------PVY  242 (481)
Q Consensus       185 VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-------------idql~~~~-~~~gv-------~v~  242 (481)
                      -++++|. +|||||++++.|+++|+++|++|.     +|+|-.             ......+. ...++       |++
T Consensus         4 ~ifItGT~T~vGKT~vt~~L~~~l~~~G~~v~-----~~Kpv~~~~~~~~~~dg~~~~Da~~l~~~~~~~~~~~~i~P~~   78 (488)
T PRK00784          4 ALMVQGTASDAGKSTLVAGLCRILARRGYRVA-----PFKAQNMSLNSAVTADGGEIGRAQALQAEAAGVEPSVDMNPVL   78 (488)
T ss_pred             eEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEe-----cccchhccccceECCCCCeeHHHHHHHHHhCCCCchhccCCEE
Confidence            3566666 999999999999999999999999     777620             00111111 10110       111


Q ss_pred             -------------------cCCC------CCCHHHHHHHHHHHHHcCCCcEEEEcCCCCcc-c----cHHHHHHHHhhhh
Q 011624          243 -------------------TAGT------EVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQ-I----DKAMMDELKDVKR  292 (481)
Q Consensus       243 -------------------~~~~------~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~-~----d~~~~~el~~i~~  292 (481)
                                         +.+.      .....+.+.+.+..+. .++|++||+++|... .    +..+..++++.++
T Consensus        79 ~~~~sp~~a~~~~~g~~~~~l~a~~~~~~~~~~~~~I~~~~~~l~-~~~D~vIVEGaGg~~~~~L~~~~~~~~dlak~l~  157 (488)
T PRK00784         79 LKPQSDRGSQVIVQGKPVGNMDARDYHDYKPRLLEAVLESLDRLA-AEYDVVVVEGAGSPAEINLRDRDIANMGFAEAAD  157 (488)
T ss_pred             ecCCCCCcceEEEcCccccccCHHHHhhcchhhHHHHHHHHHHHH-hcCCEEEEECCCCccccCcccCCchhHHHHHHcC
Confidence                               1100      1112233455666553 689999999986553 1    1234556666655


Q ss_pred             ccCCceEEEEEeCcch---HHHHHHHHHhhh--cCCeeEEEEcCCCCCCc-hh-HHHHHHHHhCCCeEEeecCCCCCCCC
Q 011624          293 VLNPTEVLLVVDAMTG---QEAAALVTTFNI--EIGITGAILTKLDGDSR-GG-AALSVKEVSGKPIKLVGRGERMEDLE  365 (481)
Q Consensus       293 ~~~p~~vvLVvda~~~---~~~~~~~~~f~~--~~~i~GvIlnKvD~~~~-~g-~~~~~~~~~glPV~~ig~g~~v~dl~  365 (481)
                          .++++|+++..+   ..+....+.+..  +.++.|+|+|+++.... .. ....+.+.+++|+  +|..|+.+++.
T Consensus       158 ----~PVILV~~~~~g~~~~~i~~~~~~l~~~~~~~i~GvI~N~v~~~~~~~~~~~~~l~~~~gipv--LG~iP~~~~L~  231 (488)
T PRK00784        158 ----APVILVADIDRGGVFASLVGTLALLPPEERARVKGFIINKFRGDISLLEPGLDWLEELTGVPV--LGVLPYLDDLR  231 (488)
T ss_pred             ----CCEEEEEeCCcCcHHHHHHHHHHhcChhhCCcEEEEEEECCCCCHHHHHHHHHHHHHhcCCCE--EEEcCCCcCCC
Confidence                789999998443   222222233332  35899999999986421 11 1223445679999  88888876654


Q ss_pred             CcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhcccccHHHHHHHHhhhhccCCccccccCCCCCCCccccc
Q 011624          366 PFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQ  445 (481)
Q Consensus       366 ~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~  445 (481)
                      . .++                                     ..+|+     ..+.  +  +        +..+++++++
T Consensus       232 ~-~~e-------------------------------------~~~~~-----~~~~--~--~--------~~~~~~~i~v  256 (488)
T PRK00784        232 L-PAE-------------------------------------DSLAL-----LERA--A--R--------AGGGALRIAV  256 (488)
T ss_pred             c-ChH-------------------------------------Hhccc-----hhcc--c--c--------CCCCceEEEE
Confidence            1 110                                     11221     0000  0  0        1112468999


Q ss_pred             cc-hhhhcchhHHHHHHc-cChhhhccCCcc
Q 011624          446 VR-EAEKSLKIMEAMIEA-MTPGIFFFSIII  474 (481)
Q Consensus       446 ~~-d~a~~f~~~~~li~s-m~~e~~~~~~l~  474 (481)
                      ++ |.+|+|+|++.| +. .|+++++|||+-
T Consensus       257 ~~~~~a~~f~nl~~l-~~~~g~~v~~~s~~~  286 (488)
T PRK00784        257 IRLPRISNFTDFDPL-RAEPGVDVRYVRPGE  286 (488)
T ss_pred             EeCCCcCCccChHHH-hhcCCCeEEEECCcc
Confidence            99 999999999999 65 999999999963

>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG

Probab=99.53  E-value=2.8e-13  Score=134.82  Aligned_cols=141  Identities=21%  Similarity=0.322  Sum_probs=92.2

Q ss_pred             CCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH---------------------HhhhhcCC
Q 011624          182 RPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV---------------------ILGEQVGV  239 (481)
Q Consensus       182 ~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~---------------------~~~~~~gv  239 (481)
                      ++++|+++ +++|+||||++.+||..|++.|++|++||+|+.+|.....+.                     ......++
T Consensus       102 ~~~vi~vts~~~g~Gktt~a~nLA~~la~~g~~VllID~D~~~~~~~~~~~~~~~~gl~~~l~~~~~~~~i~~~~~~~~l  181 (274)
T TIGR03029       102 GRKALAVVSAKSGEGCSYIAANLAIVFSQLGEKTLLIDANLRDPVQHRNFKLSEQRGLSDILAGRSDLEVITHIPALENL  181 (274)
T ss_pred             CCeEEEEECCCCCCCHHHHHHHHHHHHHhcCCeEEEEeCCCCCccHHHhcCCCCCCCHHHHhCCCCCHHHeeecCCCCCE
Confidence            46677775 669999999999999999999999999999988765321110                     00011245


Q ss_pred             CeecCCCC-CCHHH-----HHHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeC-cch-HH
Q 011624          240 PVYTAGTE-VKPSQ-----IAKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDA-MTG-QE  310 (481)
Q Consensus       240 ~v~~~~~~-~~~~~-----~l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda-~~~-~~  310 (481)
                      .+++.+.. .++.+     .+.+.+..++ +.|||||||||+.... +......        ..+.+++|+.+ .+. .+
T Consensus       182 ~~lp~g~~~~~~~~~~~~~~~~~~l~~l~-~~yD~ViiD~pp~~~~~d~~~~~~--------~~d~vilV~~~~~t~~~~  252 (274)
T TIGR03029       182 SVLPAGAIPPNPQELLARPAFTDLLNKVM-GDYDVVIVDTPSAEHSSDAQIVAT--------RARGTLIVSRVNETRLHE  252 (274)
T ss_pred             EEEeCcCCCCCHHHHhCcHHHHHHHHHHH-hcCCEEEEeCCCcccccHHHHHHH--------hCCeEEEEEECCCCCHHH
Confidence            55555432 22322     2456677774 7899999999987542 3332222        13788999987 333 34


Q ss_pred             HHHHHHHhh-hcCCeeEEEEcC
Q 011624          311 AAALVTTFN-IEIGITGAILTK  331 (481)
Q Consensus       311 ~~~~~~~f~-~~~~i~GvIlnK  331 (481)
                      +.+.++.+. .+.++.|+|+|+
T Consensus       253 ~~~~~~~l~~~~~~~~G~VlN~  274 (274)
T TIGR03029       253 LTSLKEHLSGVGVRVVGAVLNQ  274 (274)
T ss_pred             HHHHHHHHHhCCCCEEEEEeCC
Confidence            444444443 357789999996

The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=99.52  E-value=3.2e-13  Score=124.88  Aligned_cols=145  Identities=22%  Similarity=0.368  Sum_probs=88.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      |.+++++||+||||++.+||.+|+++|++|++||+|++.+.....+       +.....   .....+.    +     .
T Consensus         2 i~v~~~kgG~GKtt~a~~la~~l~~~g~~vllvD~D~~~~~~~~~~-------~~~~~~---~~~~~~~----~-----~   62 (179)
T cd02036           2 IVVTSGKGGVGKTTTTANLGTALAQLGYKVVLIDADLGLRNLDLIL-------GLENRV---VYTLHDV----L-----A   62 (179)
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCCCCchhhc-------cccccC---Ccchhhc----c-----c
Confidence            4556789999999999999999999999999999999865432111       111100   0010111    1     1


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-HHHHHHHHHhh-hcCCeeEEEEcCCCCCCch-hH
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-QEAAALVTTFN-IEIGITGAILTKLDGDSRG-GA  340 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~~~~~~~~~f~-~~~~i~GvIlnKvD~~~~~-g~  340 (481)
                      + |+|||||||....  .....+    .  ..+.+++|+++.. . ..+...++... .+....++|+|+++..... ..
T Consensus        63 ~-d~viiD~p~~~~~--~~~~~l----~--~ad~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~iv~N~~~~~~~~~~~  133 (179)
T cd02036          63 G-DYILIDSPAGIER--GFITAI----A--PADEALLVTTPEISSLRDADRVKGLLEALGIKVVGVIVNRVRPDMVEGGD  133 (179)
T ss_pred             C-CEEEEECCCCCcH--HHHHHH----H--hCCcEEEEeCCCcchHHHHHHHHHHHHHcCCceEEEEEeCCcccccchhh
Confidence            1 9999999987642  122211    1  2377888888732 2 23333333222 2356789999999876432 22


Q ss_pred             -HHHHHHHhCCCeEEeecCC
Q 011624          341 -ALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       341 -~~~~~~~~glPV~~ig~g~  359 (481)
                       ...+.+.++.|+  ++..+
T Consensus       134 ~~~~~~~~~~~~v--~~~Ip  151 (179)
T cd02036         134 MVEDIEEILGVPL--LGVIP  151 (179)
T ss_pred             HHHHHHHHhCCCE--EEEec
Confidence             244556678887  45443

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=99.52  E-value=1.3e-13  Score=138.57  Aligned_cols=163  Identities=18%  Similarity=0.193  Sum_probs=95.2

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-----------HHHHHH----hh----------hhcCCC
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-----------IDQLVI----LG----------EQVGVP  240 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-----------idql~~----~~----------~~~gv~  240 (481)
                      |+++|||||||||++.+||.+|+++|+||++||+|++....           .+-+..    ..          ...|+.
T Consensus         3 ia~~gKGGVGKTTta~nLA~~La~~G~rVLlID~DpQ~n~t~~l~g~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~~~l~   82 (290)
T CHL00072          3 LAVYGKGGIGKSTTSCNISIALARRGKKVLQIGCDPKHDSTFTLTGFLIPTIIDTLQSKDYHYEDVWPEDVIYKGYGGVD   82 (290)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeccCCCcccccccCcCCCCHHHHHhhcccccccCChhheEEeCCCCeE
Confidence            78899999999999999999999999999999999985321           010100    00          013455


Q ss_pred             eecCCCCCCHH-------HHHHHHHHHHH-cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-HH
Q 011624          241 VYTAGTEVKPS-------QIAKQGLEEAK-KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-QE  310 (481)
Q Consensus       241 v~~~~~~~~~~-------~~l~~~l~~~~-~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~~  310 (481)
                      +++.+......       ......++.+. .++||||||||+|.... ..+.+.+      ...+.+++++++.. . ..
T Consensus        83 lip~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~yD~IiIDt~~~l~~-~a~~aal------~~AD~viIp~~p~~~sl~~  155 (290)
T CHL00072         83 CVEAGGPPAGAGCGGYVVGETVKLLKELNAFYEYDIILFDVLGDVVC-GGFAAPL------NYADYCIIITDNGFDALFA  155 (290)
T ss_pred             EEeCCCCCCccchhhcccHHHHHHHHHhhccccCCEEEEecCCccee-chhhhhh------hcCCEEEEEecCCHHHHHH
Confidence            55444322111       00111222222 14799999999887531 1111111      12377888887732 2 22


Q ss_pred             ---HHHHHHHh--hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCC
Q 011624          311 ---AAALVTTF--NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       311 ---~~~~~~~f--~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                         ..+.++..  +..+.+.|+|+|+++..   ..+....+.++.|+  ++..+.
T Consensus       156 ~~~l~~~i~~~~~~~~l~~~gvv~n~~~~~---~~~~~~~~~~~~~v--l~~Ip~  205 (290)
T CHL00072        156 ANRIAASVREKARTHPLRLAGLVGNRTSKR---DLIDKYVEACPMPV--LEVLPL  205 (290)
T ss_pred             HHHHHHHHHHHhccCCCceEEEEEeCCCch---hHHHHHHHHcCCce--EEECCC
Confidence               22222333  23456789999999843   23445666788887  554443

>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]

Probab=99.52  E-value=1.3e-13  Score=129.52  Aligned_cols=171  Identities=21%  Similarity=0.346  Sum_probs=103.7

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC-ch-------------hH---------HHHH-HHhhhhcC
Q 011624          184 TVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY-RP-------------AA---------IDQL-VILGEQVG  238 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~-rp-------------~a---------idql-~~~~~~~g  238 (481)
                      ++|++ +|+|||||||++++|+.+|+++|+||.+||.|.- |.             +.         ..|. .......+
T Consensus         3 ~iIVvTSGKGGVGKTTttAnig~aLA~~GkKv~liD~DiGLRNLDlimGlE~RiVYd~vdVi~g~~~l~QALIkDKr~~n   82 (272)
T COG2894           3 RIIVVTSGKGGVGKTTTTANIGTALAQLGKKVVLIDFDIGLRNLDLIMGLENRIVYDLVDVIEGEATLNQALIKDKRLEN   82 (272)
T ss_pred             eEEEEecCCCCcCccchhHHHHHHHHHcCCeEEEEecCcCchhhhhhhcccceeeeeehhhhcCccchhhHhhccccCCc
Confidence            35555 6999999999999999999999999999999963 10             00         1111 01111112


Q ss_pred             CCeecCCC-----CCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC--cchHHH
Q 011624          239 VPVYTAGT-----EVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA--MTGQEA  311 (481)
Q Consensus       239 v~v~~~~~-----~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda--~~~~~~  311 (481)
                      +.+++...     ..+| +.....+++++..+|||||||+|.....  .....+      ...+..++|+.+  ++-.++
T Consensus        83 L~lLPAsQtrdKdalt~-E~v~~vv~eL~~~~fDyIi~DsPAGIE~--G~~~A~------~~Ad~AiVVtnPEvSsVRDs  153 (272)
T COG2894          83 LFLLPASQTRDKDALTP-EGVKKVVNELKAMDFDYIIIDSPAGIEQ--GFKNAV------YFADEAIVVTNPEVSSVRDS  153 (272)
T ss_pred             eEecccccccCcccCCH-HHHHHHHHHHHhcCCCEEEecCcchHHH--HHHhhh------hccceEEEEcCCCccccccc
Confidence            33333221     2233 3445677777768999999999977642  222221      234778888776  222333


Q ss_pred             HHHH---HHhh--hcCC---eeEEEEcCCCCC-CchhHH---HHHHHHhCCCeEEeecCCCCCCCC
Q 011624          312 AALV---TTFN--IEIG---ITGAILTKLDGD-SRGGAA---LSVKEVSGKPIKLVGRGERMEDLE  365 (481)
Q Consensus       312 ~~~~---~~f~--~~~~---i~GvIlnKvD~~-~~~g~~---~~~~~~~glPV~~ig~g~~v~dl~  365 (481)
                      -+++   ....  ...+   -..+|+|+++.. ...|..   ..+.+.+.+|+  +|..|..+++-
T Consensus       154 DRiiGlLesk~~rae~~~~~~~~llvnR~~p~~v~~GeMlsv~Dv~~iL~i~l--iGiiPed~~Vi  217 (272)
T COG2894         154 DRIIGLLESKSRRAEIGEEPKEHLLLNRYRPEMVKRGEMLSVEDVLEILSIPL--IGVIPEDQDVL  217 (272)
T ss_pred             hhheeehhcccchhhcCCcccceEEEEccCHHHhccCCcccHHHHHHHhCCce--EEeecCchhhh
Confidence            3332   2111  1122   256999999843 334444   45677788999  99888776643

>CHL00175 minD septum-site determining protein; Validated

Probab=99.52  E-value=3.2e-13  Score=134.91  Aligned_cols=169  Identities=17%  Similarity=0.263  Sum_probs=98.9

Q ss_pred             CEEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH-----------Hhh-------------hhc
Q 011624          183 PTVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV-----------ILG-------------EQV  237 (481)
Q Consensus       183 ~~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~-----------~~~-------------~~~  237 (481)
                      .++|++ +|+|||||||++++||.+|+++|++|++||+|++.++....+.           ...             ...
T Consensus        15 ~~vi~v~s~KGGvGKTt~a~nLA~~La~~g~~vlliD~D~~~~~l~~~lg~~~~~~~~~~d~l~~~~~l~~~~~~~~~~~   94 (281)
T CHL00175         15 SRIIVITSGKGGVGKTTTTANLGMSIARLGYRVALIDADIGLRNLDLLLGLENRVLYTAMDVLEGECRLDQALIRDKRWK   94 (281)
T ss_pred             ceEEEEEcCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCChhhhcCCCCCCCCCHHHHHcCCCChhhheeecCCCC
Confidence            456666 5789999999999999999999999999999997533211100           000             012


Q ss_pred             CCCeecCCCCCC----HHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-HHH
Q 011624          238 GVPVYTAGTEVK----PSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-QEA  311 (481)
Q Consensus       238 gv~v~~~~~~~~----~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~~~  311 (481)
                      ++.+++.+....    ..+.+.+.++.++...||+|||||||....  .....+    .  ..+.+++|+++.. . .++
T Consensus        95 ~l~~l~~~~~~~~~~~~~~~l~~~l~~l~~~~yD~VIiDtpp~~~~--~~~~~l----~--~aD~viiV~~p~~~si~~~  166 (281)
T CHL00175         95 NLSLLAISKNRQRYNVTRKNMNMLVDSLKNRGYDYILIDCPAGIDV--GFINAI----A--PAQEAIVVTTPEITAIRDA  166 (281)
T ss_pred             CeEEEeCCCchhhccCCHHHHHHHHHHHHhCCCCEEEEeCCCCCCH--HHHHHH----H--hcCeeEEEcCCChHHHHHH
Confidence            333333322111    122356667776533899999999987642  222221    1  1377888888732 2 233


Q ss_pred             HHHHHHhhh-cCCeeEEEEcCCCCCCc--h--hHHHHHHHHhCCCeEEeecCCCC
Q 011624          312 AALVTTFNI-EIGITGAILTKLDGDSR--G--GAALSVKEVSGKPIKLVGRGERM  361 (481)
Q Consensus       312 ~~~~~~f~~-~~~i~GvIlnKvD~~~~--~--g~~~~~~~~~glPV~~ig~g~~v  361 (481)
                      ....+.+.. .....++|+|+++....  .  -....+....+.|+  ++..+..
T Consensus       167 ~~~~~~l~~~~~~~~~lvvN~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~Ip~d  219 (281)
T CHL00175        167 DRVAGLLEANGIYNVKLLVNRVRPDMIQANDMMSVRDVQEMLGIPL--LGAIPED  219 (281)
T ss_pred             HHHHHHHHHcCCCceEEEEeccChhhhhhhccccHHHHHHHhCCCe--EEEccCC
Confidence            333332221 22346899999985421  1  12344666678887  5655433

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=99.52  E-value=6.4e-13  Score=129.28  Aligned_cols=92  Identities=21%  Similarity=0.171  Sum_probs=60.8

Q ss_pred             EEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcC-CCeecCCCCCCHHHHHHHHHHHHH
Q 011624          185 VILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVG-VPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       185 VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~g-v~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ||++ ..||||||||++.+||.+|+++|++|++||+|++++.... . ......+ .+.............++..++.+.
T Consensus         3 iI~v~n~KGGvGKTT~a~nLA~~la~~G~~VlliD~DpQ~s~~~w-~-~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~   80 (231)
T PRK13849          3 LLTFCSFKGGAGKTTALMGLCAALASDGKRVALFEADENRPLTRW-K-ENALRSNTWDPACEVYAADELPLLEAAYEDAE   80 (231)
T ss_pred             EEEEECCCCCccHHHHHHHHHHHHHhCCCcEEEEeCCCCCCHHHH-H-HhhccccCCCccceecCCCHHHHHHHHHHHHh
Confidence            4544 5889999999999999999999999999999999865321 1 1111111 111000011122344566666664


Q ss_pred             cCCCcEEEEcCCCCcc
Q 011624          263 KKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~  278 (481)
                      .++||||||||||...
T Consensus        81 ~~~yD~iiID~pp~~~   96 (231)
T PRK13849         81 LQGFDYALADTHGGSS   96 (231)
T ss_pred             hCCCCEEEEeCCCCcc
Confidence            4679999999999764

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=99.52  E-value=1.6e-13  Score=137.13  Aligned_cols=169  Identities=18%  Similarity=0.169  Sum_probs=92.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-----------HHHHHH------------hhhhcCCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-----------IDQLVI------------LGEQVGVP  240 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-----------idql~~------------~~~~~gv~  240 (481)
                      ++|+++|+|||||||++.+||.+|+++|+||++||+|++....           .+-+..            +....|+.
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~La~~G~rVLliD~Dpq~n~t~~l~~~~~~~l~d~~~~~~~~~~~~~~~i~~~~~~l~   81 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAALAESGKKVLVVGCDPKADCTRNLVGEKIPTVLDVLREKGIDNLGLEDIIYEGFNGIY   81 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHhCCCEEEEEeeCCcccccccccCccCCCHHHHHHhcCCCCCCHHHheeeCCCCcE
Confidence            4677779999999999999999999999999999999984211           111100            00112445


Q ss_pred             eecCCCCCC------HHHHH-HHHHH---HHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-
Q 011624          241 VYTAGTEVK------PSQIA-KQGLE---EAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-  308 (481)
Q Consensus       241 v~~~~~~~~------~~~~l-~~~l~---~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-  308 (481)
                      +++.+....      ..... ...++   .+...+||||||||+|...... +..    .......+.+++++.+.. + 
T Consensus        82 lipa~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~yD~viID~~~~~~~~~-l~~----~~~~~aAD~vlIp~~p~~~si  156 (279)
T PRK13230         82 CVESGGPEPGYGCAGRGVITAIDLLKKLGVFEELGPDVVIYDILGDVVCGG-FAM----PLQKGLADDVYIVTTCDPMAI  156 (279)
T ss_pred             EEECCCCCCCCCcCCcchhhHHHHHHHcCcccccCCCEEEEecCCccccCC-ccc----cccccccceEEEeccchHHHH
Confidence            554432210      11110 11121   2222379999999987642110 000    000111377888887632 2 


Q ss_pred             HH---HHHHHHHhh--hcCCeeEEEEcCCCCCCc-hhHHHHHHHHhCCCeEEeecCCC
Q 011624          309 QE---AAALVTTFN--IEIGITGAILTKLDGDSR-GGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       309 ~~---~~~~~~~f~--~~~~i~GvIlnKvD~~~~-~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                      ..   ..+.++.+.  .+..+.||+.|. ....+ ......+++.++.++  ++..+.
T Consensus       157 ~~~~~ll~~i~~~~~~~~~~i~gIv~n~-r~~~~~~~~~e~l~~~~g~~v--l~~Ip~  211 (279)
T PRK13230        157 YAANNICKGIKRFAKRGKSALGGIIYNG-RSVIDAPDIVEEFAKKIGTNV--IGKIPM  211 (279)
T ss_pred             HHHHHHHHHHHHHhhcCCCcceEEEEec-cCCCchhHHHHHHHHHhCCcE--EEECCC
Confidence            22   223333332  245677887553 22222 234456667788887  555543

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=99.52  E-value=1.3e-13  Score=129.04  Aligned_cols=160  Identities=22%  Similarity=0.318  Sum_probs=94.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHH---hhh--------hcCCCeecC--CCCCCHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVI---LGE--------QVGVPVYTA--GTEVKPS  251 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~---~~~--------~~gv~v~~~--~~~~~~~  251 (481)
                      |.+.+++||+||||++.+||.+|+++|++|+++|+|++.+...--...   ...        ...+.....  +......
T Consensus         1 I~v~~~kGG~GKTt~a~~la~~la~~g~~VlliD~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (195)
T PF01656_consen    1 IAVTSGKGGVGKTTIAANLAQALARKGKKVLLIDLDPQAPNLSILFGVYDILREGLENANAILKNFESQDIYQGEEYLDP   80 (195)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEESTTSHHHHHHTTCHHHHTTSSHGHHCHHESCCHHHHHHHCHCHHH
T ss_pred             CEEEcCCCCccHHHHHHHHHhccccccccccccccCcccccHHHHhcchhhccccceehhhhhhccchhhhhhhhhhhHH
Confidence            456779999999999999999999999999999999998664221100   000        000000000  0000123


Q ss_pred             HHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--H---HHHHHHHHhhhcCCeeE
Q 011624          252 QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--Q---EAAALVTTFNIEIGITG  326 (481)
Q Consensus       252 ~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~---~~~~~~~~f~~~~~i~G  326 (481)
                      ..+++.++.+....||+||||||+.....      +..+..  .++.+++++++...  .   .....++.+....++.|
T Consensus        81 ~~l~~~l~~l~~~~yD~iiiD~~~~~~~~------~~~~l~--~ad~viv~~~~~~~~i~~~~~~~~~l~~~~~~~~~~~  152 (195)
T PF01656_consen   81 ELLREILESLIKSDYDYIIIDTPPGLSDP------VRNALA--AADYVIVPIEPDPSSIEGAERLIELLKRLGKKLKIIG  152 (195)
T ss_dssp             HHHHHHHHHHHHTTSSEEEEEECSSSSHH------HHHHHH--TSSEEEEEEESSHHHHHHHHHHHHHHHHHTHTEEEEE
T ss_pred             HHHHHHHHHhhhccccceeecccccccHH------HHHHHH--hCceeeeecCCcHHHHHHHHHHHHHHHHhccccceEE
Confidence            44667777755445999999999876532      111222  24778888887332  2   22333344443355789


Q ss_pred             EEEcCCCCC--CchhH-HHHHHHHhCCCe
Q 011624          327 AILTKLDGD--SRGGA-ALSVKEVSGKPI  352 (481)
Q Consensus       327 vIlnKvD~~--~~~g~-~~~~~~~~glPV  352 (481)
                      +|+||++..  .+... ........+.|.
T Consensus       153 vv~N~v~~~~~~~~~~~~~~~~~~~~~~~  181 (195)
T PF01656_consen  153 VVINRVDPGNESKLQEEIEEIERELYVPV  181 (195)
T ss_dssp             EEEEEETSCCHHHHHHHHHHHHHHCECCC
T ss_pred             EEEeeeCCCccchHHHHHHHHHHHhCCCc
Confidence            999999765  33332 234444444443

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>TIGR01287 nifH nitrogenase iron protein

Probab=99.51  E-value=1.6e-13  Score=136.58  Aligned_cols=171  Identities=18%  Similarity=0.205  Sum_probs=95.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH------------HHHHHHh------------hhhcCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA------------IDQLVIL------------GEQVGV  239 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a------------idql~~~------------~~~~gv  239 (481)
                      ++|+++|||||||||++.+||.+|+++|++|++||+|++-...            .+-+..-            ....|+
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~G~~VlliD~D~q~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~l   80 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEMGKKVMIVGCDPKADSTRLLLGGKAQPTVLDVLREKGAEDLELEDVIKEGFGGI   80 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCCccccccCCCCCCCHHHHHhhcCCCCCCHHHeeeeCCCCE
Confidence            3688889999999999999999999999999999999885322            1111000            001244


Q ss_pred             CeecCCCCC------CHHHH----HHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h
Q 011624          240 PVYTAGTEV------KPSQI----AKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G  308 (481)
Q Consensus       240 ~v~~~~~~~------~~~~~----l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~  308 (481)
                      .+++.+...      .....    +.+.+..+. ++||||||||+|..... .+...+.    ....+.+++++.+.. .
T Consensus        81 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~yD~iiIDt~~~~~~~-~~~~~~~----~~aAD~viip~~p~~~s  154 (275)
T TIGR01287        81 RCVESGGPEPGVGCAGRGVITAINLLEELGAYE-DDLDFVFYDVLGDVVCG-GFAMPIR----EGKAQEIYIVTSGEMMA  154 (275)
T ss_pred             EEEeCCCCCccCCCccchhhhHHHHHHHhhhhh-ccCCEEEEeccCcceec-ceeeccc----cccccEEEEEecchHHH
Confidence            444332211      11111    122233443 68999999998754211 1111000    012377788877622 2


Q ss_pred             -HH---HHHHHHHhh--hcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCC
Q 011624          309 -QE---AAALVTTFN--IEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERME  362 (481)
Q Consensus       309 -~~---~~~~~~~f~--~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~  362 (481)
                       ..   ..+.++.+.  ....+.|+|+|+.....+......+.+..+.++  ++..+...
T Consensus       155 l~~~~~l~~~i~~~~~~~~~~~~giv~n~~~~~~~~~~~e~l~~~~~~~v--l~~Ip~~~  212 (275)
T TIGR01287       155 LYAANNICKGILKYAKSGGVRLGGLICNSRNVDDEKELIDEFAKKLGTQL--IHFVPRSN  212 (275)
T ss_pred             HHHHHHHHHHHHHHHhcCCCeeeEEEEcCCCCchHHHHHHHHHHHhCCce--EEECCCCh
Confidence             22   222233332  245678899887533322333455666777776  55554433

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.

>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional

Probab=99.51  E-value=5.8e-13  Score=149.59  Aligned_cols=148  Identities=26%  Similarity=0.356  Sum_probs=100.9

Q ss_pred             CCCEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH---------------------HhhhhcC
Q 011624          181 SRPTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV---------------------ILGEQVG  238 (481)
Q Consensus       181 ~~~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~---------------------~~~~~~g  238 (481)
                      .++++|++++. +|+||||++.+||.+|+..|+||++||+|+++|.....+.                     ......+
T Consensus       529 ~~~kvI~vtS~~~g~GKTtva~nLA~~la~~G~rVLlID~D~r~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~  608 (726)
T PRK09841        529 TENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADLRRGYSHNLFTVSNEHGLSEYLAGKDELNKVIQHFGKGG  608 (726)
T ss_pred             CCCeEEEEecCCCCCCHHHHHHHHHHHHHhCCCeEEEEeCCCCCCcHHHHcCCCCCCCHHHHhCCCCCHHHheeccCCCC
Confidence            35678888876 8999999999999999999999999999999876432210                     0001124


Q ss_pred             CCeecCCC-CCCHHHH-----HHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeC-cch-H
Q 011624          239 VPVYTAGT-EVKPSQI-----AKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDA-MTG-Q  309 (481)
Q Consensus       239 v~v~~~~~-~~~~~~~-----l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda-~~~-~  309 (481)
                      +.+++.+. ..+|.+.     +.+.+..++ ..||+|||||||.+.. |...++..        .+.+++|+.+ .+. .
T Consensus       609 l~vl~~g~~~~~p~ell~~~~~~~ll~~l~-~~yD~IIIDtPP~~~~~Da~~la~~--------ad~~llVvr~~~t~~~  679 (726)
T PRK09841        609 FDVITRGQVPPNPSELLMRDRMRQLLEWAN-DHYDLVIVDTPPMLAVSDAAVVGRS--------VGTSLLVARFGLNTAK  679 (726)
T ss_pred             EEEEeCCCCCCCHHHHhCcHHHHHHHHHHH-hcCCEEEEeCCCccccchHHHHHHh--------CCeEEEEEeCCCCCHH
Confidence            55555543 3344443     456677765 6899999999998764 44333322        3778899887 333 4


Q ss_pred             HHHHHHHHhh-hcCCeeEEEEcCCCCCCc
Q 011624          310 EAAALVTTFN-IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       310 ~~~~~~~~f~-~~~~i~GvIlnKvD~~~~  337 (481)
                      .+...++.+. .+..+.|+|+|+++....
T Consensus       680 ~~~~~~~~l~~~~~~~~G~VlN~~~~~~~  708 (726)
T PRK09841        680 EVSLSMQRLEQAGVNIKGAILNGVIKRAS  708 (726)
T ss_pred             HHHHHHHHHHhCCCceEEEEEeCcccCcc
Confidence            4444444442 356789999999986543

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=99.51  E-value=6.2e-13  Score=129.69  Aligned_cols=160  Identities=18%  Similarity=0.166  Sum_probs=90.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH-------------HHHH--------HhhhhcCCCeec
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI-------------DQLV--------ILGEQVGVPVYT  243 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai-------------dql~--------~~~~~~gv~v~~  243 (481)
                      |.+.+++||+||||++.+||.+|+++|+||++||+|++.+...             +.+.        .+....|+.+++
T Consensus         4 I~v~s~KGGvGKTt~a~nla~~la~~g~~VlliD~D~q~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ip   83 (246)
T TIGR03371         4 IAIVGVKGGVGKTTLTANLASALKLLGEPVLAIDLDPQNLLRLHFGMDWSVRDGWARALLNGEPWAAAAYRSSDGVLFLP   83 (246)
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEeCCCcchHHHHhCCCCccCCcHHHHHhcCCChHHhHhhcCCCeEEec
Confidence            4444678999999999999999999999999999999864210             0000        001123455554


Q ss_pred             CCCCCC---------HHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-hHHHHH
Q 011624          244 AGTEVK---------PSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-GQEAAA  313 (481)
Q Consensus       244 ~~~~~~---------~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~~~~~~  313 (481)
                      .+....         ....+++.+..+....+|+|||||||....   ....   ++.  ..+.+++|+.+.. ......
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~D~viiD~pp~~~~---~~~~---~l~--~ad~vii~~~~~~~s~~~~~  155 (246)
T TIGR03371        84 FGDLSADEREAYQAHDAGWLARLLQQLDLAARDWVLIDVPRGPSP---ITRQ---ALA--AADLVLVVVNADAACYATLH  155 (246)
T ss_pred             CCCCcHHHHHHHhhcCHHHHHHHHHhcccCCCCEEEEECCCCchH---HHHH---HHH--hCCeEEEEeCCCHHHHHHHH
Confidence            332111         123345566665433469999999996532   1111   111  2377888887732 212222


Q ss_pred             -HHHHhhh---cCCeeEEEEcCCCCCCc-hhHHHH-HHHHhCCCe
Q 011624          314 -LVTTFNI---EIGITGAILTKLDGDSR-GGAALS-VKEVSGKPI  352 (481)
Q Consensus       314 -~~~~f~~---~~~i~GvIlnKvD~~~~-~g~~~~-~~~~~glPV  352 (481)
                       .+..+..   .....++|+|+++.... ...+.. +.+.++.++
T Consensus       156 ~~~~~l~~~~~~~~~~~iv~n~~~~~~~~~~~~~~~~~~~~~~~~  200 (246)
T TIGR03371       156 QQALALFAGSGPRIGPHFLINQFDPARQLSRDVRAVLRQTLGSRL  200 (246)
T ss_pred             HHHHHHhhcccccccceEEeeccCcchhhHHHHHHHHHHHhcccc
Confidence             2222211   11226799999986543 222333 344556664

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=99.51  E-value=1.3e-12  Score=124.87  Aligned_cols=140  Identities=24%  Similarity=0.362  Sum_probs=88.2

Q ss_pred             CCEEEEEE-cCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHHHH------------HHH----hh------hhc
Q 011624          182 RPTVILLA-GLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAIDQ------------LVI----LG------EQV  237 (481)
Q Consensus       182 ~~~VI~i~-G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~aidq------------l~~----~~------~~~  237 (481)
                      ..++|+++ +++|+||||++.+||.+|++ .|++|++||+|++.+.....            +..    +.      ...
T Consensus        34 ~~~vi~v~s~kgG~GkSt~a~nLA~~la~~~g~~VLlvD~D~~~~~~~~~~~~~~~~~l~~~l~~~~~~l~~~i~~~~~~  113 (207)
T TIGR03018        34 NNNLIMVTSSLPGEGKSFTAINLAISLAQEYDKTVLLIDADLRRPSLHRTLGLEAEPGLSDCLLDPVLDLADVLVPTNIG  113 (207)
T ss_pred             CCeEEEEECCCCCCCHHHHHHHHHHHHHHhcCCeEEEEECCCCChhhhheeCCCCCCCHHHHHcCCCCCHHHHhccCCCC
Confidence            34567766 67999999999999999996 69999999999986543111            100    00      012


Q ss_pred             CCCeecCCCCCC-H-----HHHHHHHHHHHHcCCC--cEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC-cch
Q 011624          238 GVPVYTAGTEVK-P-----SQIAKQGLEEAKKKNV--DVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA-MTG  308 (481)
Q Consensus       238 gv~v~~~~~~~~-~-----~~~l~~~l~~~~~~~~--D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda-~~~  308 (481)
                      ++.+++.+.... +     .+.+.+.+..++ ..|  ||||||||+.....  ....   +..  ..+.+++|+.+ .+.
T Consensus       114 ~l~vl~~g~~~~~~~~~~~~~~l~~~l~~l~-~~y~~D~IiiD~pp~~~~~--~~~~---l~~--~aD~viiV~~~~~~~  185 (207)
T TIGR03018       114 RLSLLPAGRRHPNPTELLASQRMRSLLHELA-RRYPDRIIIIDTPPLLVFS--EARA---LAR--LVGQIVLVVEEGRTT  185 (207)
T ss_pred             CEEEEeCCCCCCCHHHHhCcHHHHHHHHHHH-hhCCCCEEEEECCCCcchh--HHHH---HHH--hCCEEEEEEECCCCC
Confidence            344554443221 1     123456677765 456  99999999887421  1111   111  13788999988 333


Q ss_pred             -HHHHHHHHHhhhcCCeeEEEEc
Q 011624          309 -QEAAALVTTFNIEIGITGAILT  330 (481)
Q Consensus       309 -~~~~~~~~~f~~~~~i~GvIln  330 (481)
                       ..+...+...+ ..++.|+|+|
T Consensus       186 ~~~~~~~~~~l~-~~~~~G~v~N  207 (207)
T TIGR03018       186 QEAVKEALSALE-SCKVLGVVLN  207 (207)
T ss_pred             HHHHHHHHHHhc-CCCeEEEEeC
Confidence             34444444444 6789999998

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.

>PRK13869 plasmid-partitioning protein RepA; Provisional

Probab=99.50  E-value=5.8e-13  Score=139.82  Aligned_cols=41  Identities=41%  Similarity=0.391  Sum_probs=37.0

Q ss_pred             CEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          183 PTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+||+++ .+|||||||++.+||.+|+.+|+||++||+|++.
T Consensus       121 ~~vIav~n~KGGvGKTTta~nLA~~LA~~G~rVLlIDlDpQ~  162 (405)
T PRK13869        121 LQVIAVTNFKGGSGKTTTSAHLAQYLALQGYRVLAVDLDPQA  162 (405)
T ss_pred             ceEEEEEcCCCCCCHHHHHHHHHHHHHhcCCceEEEcCCCCC
Confidence            3666665 7899999999999999999999999999999985

>TIGR00313 cobQ cobyric acid synthase CobQ

Probab=99.50  E-value=9.7e-13  Score=140.72  Aligned_cols=218  Identities=20%  Similarity=0.302  Sum_probs=129.4

Q ss_pred             EEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-------------H--HHHHHhhhhcCC-------Cee
Q 011624          186 ILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-------------I--DQLVILGEQVGV-------PVY  242 (481)
Q Consensus       186 I~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-------------i--dql~~~~~~~gv-------~v~  242 (481)
                      ++++|. ++||||++++.|++.|+++|++|.     +|+|..             +  .++.+ ....++       |+.
T Consensus         1 ~~I~GT~t~vGKT~v~~~L~~~l~~~G~~v~-----~fKp~~~~~~s~~~~~~~e~~~a~~~q-a~a~~~~~~~~~nPv~   74 (475)
T TIGR00313         1 IMVVGTTSSAGKSTLTAGLCRILARRGYRVA-----PFKSQNMSLNSFVTKEGGEIAIAQATQ-ALAAGIEPSVHMNPIL   74 (475)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHHhCCCeEE-----EECCcccccCccccCCCchhHHHHHHH-HHhCCCCchhccCCEE
Confidence            356666 999999999999999999999999     666530             1  12111 111111       111


Q ss_pred             c-C-----------CCCC---C-----------HHHHHHHHHHHHHcCCCcEEEEcCCCCccc-----cHHHHHHHHhhh
Q 011624          243 T-A-----------GTEV---K-----------PSQIAKQGLEEAKKKNVDVVIVDTAGRLQI-----DKAMMDELKDVK  291 (481)
Q Consensus       243 ~-~-----------~~~~---~-----------~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~-----d~~~~~el~~i~  291 (481)
                      - .           +...   .           ..+.+++.+.++. .+||+||||++|.+..     +.....++++..
T Consensus        75 lk~~~~~~s~~i~~g~~~~~~~a~~~~~~~~~~~~~~i~~~~~~l~-~~~D~vIIEGaGGl~~~~~~~~d~s~~~lA~~l  153 (475)
T TIGR00313        75 LKPKGNFTSQVIVHGRAVGDMNYQEYYKNKVDFFLKAIKESLEILA-REYDYVVIEGAGSPAEINLLKRDLANMRIAELA  153 (475)
T ss_pred             eCcCCCCcCcEEEcCcccCcCCHHHHhhhhhHHHHHHHHHHHHHHH-hcCCEEEEECCCCccccccCcCCchHHHHHHHh
Confidence            1 0           0000   0           1123455566653 6899999999986532     123345555555


Q ss_pred             hccCCceEEEEEeCcchH---HHHHHHHHhhh--cCCeeEEEEcCCCCCCch--hHHHHHHHHhCCCeEEeecCCCCCCC
Q 011624          292 RVLNPTEVLLVVDAMTGQ---EAAALVTTFNI--EIGITGAILTKLDGDSRG--GAALSVKEVSGKPIKLVGRGERMEDL  364 (481)
Q Consensus       292 ~~~~p~~vvLVvda~~~~---~~~~~~~~f~~--~~~i~GvIlnKvD~~~~~--g~~~~~~~~~glPV~~ig~g~~v~dl  364 (481)
                      .    .+++||+|...+.   .+...+..+..  .+.+.|+|+||++.....  ..+..+.+.+|+|+  +|..+...++
T Consensus       154 ~----apVILV~d~~~g~~~a~i~gt~~~l~~~~~~~i~GvIlNrv~~~~~~~~~~~~~l~e~~gipv--LG~ip~~~~l  227 (475)
T TIGR00313       154 N----ADAILVADIDRGGVFASIYGTLKLLPENWRKLIKGIVINKFRGNVDVLKSGIEKLEELTGIPV--LGVLPYDENL  227 (475)
T ss_pred             C----CCEEEEEeCCccHHHHHHHHHHHHhChhhcCceEEEEEeccCCcHHHHHHHHHHHHHhhCCCE--EEEecCCCcC
Confidence            4    7899999985442   22222222233  257899999999864321  22233455579999  8888777654


Q ss_pred             CCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhcccccHHHHHHHHhhhhccCCccccccCCCCCCCcccc
Q 011624          365 EPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA  444 (481)
Q Consensus       365 ~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~  444 (481)
                        + |+                   .|      ...+..+     ++              ++       .+  ..+++|
T Consensus       228 --l-~~-------------------~e------~~~~~~~-----~~--------------~~-------~~--~~~~Ia  251 (475)
T TIGR00313       228 --F-PE-------------------ED------SLVIQER-----RS--------------RG-------NA--KSIRIG  251 (475)
T ss_pred             --C-Ch-------------------HH------hhhHHhh-----hc--------------cC-------CC--CCcEEE
Confidence              1 11                   00      0000000     00              00       01  127899


Q ss_pred             ccc-hhhhcchhHHHHHHccChhhhccCCccc
Q 011624          445 QVR-EAEKSLKIMEAMIEAMTPGIFFFSIIII  475 (481)
Q Consensus       445 ~~~-d~a~~f~~~~~li~sm~~e~~~~~~l~~  475 (481)
                      +++ |.+|||.|++.| +..  ++++|+|+-+
T Consensus       252 v~~~~~~~nf~~~~~L-~~~--~~~~f~~~~~  280 (475)
T TIGR00313       252 VVRLPRISNFTDFEPL-RYE--AFVKFLDLDD  280 (475)
T ss_pred             EEcCCcccCccChHHH-hhC--CCeEEeCCcc
Confidence            999 999999999999 666  6999999865

>KOG3022 consensus Predicted ATPase, nucleotide-binding [Cell cycle control, cell division, chromosome partitioning]

Probab=99.49  E-value=3.4e-13  Score=130.83  Aligned_cols=169  Identities=23%  Similarity=0.316  Sum_probs=104.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhh-----h---------cCCCeecCCC--
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE-----Q---------VGVPVYTAGT--  246 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~-----~---------~gv~v~~~~~--  246 (481)
                      ..|++++|+|||||||++.+||.+|++.|++|.++|+|.+.|..-.-+-..++     .         .++.++..+.  
T Consensus        48 ~iI~VlSGKGGVGKSTvt~nla~~La~~g~~vglLD~Dl~GPSiP~m~g~e~~~~~~~~~g~~Pv~~~~~l~~mS~gfLl  127 (300)
T KOG3022|consen   48 HIILVLSGKGGVGKSTVTVNLALALASEGKKVGLLDADLCGPSIPRMMGLEGEVVHQSDNGWIPVVVNKNLKLMSMGFLL  127 (300)
T ss_pred             eEEEEEeCCCCCchhHHHHHHHHHHhcCCCcEEEEeecccCCCchhhcCCCCceeeecCCCceeeeecCCeEEEEeeeec
Confidence            35666689999999999999999999999999999999998764221110000     0         1111222111  


Q ss_pred             --------C--CCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCC-ceEEEEEeC--cchHHHHH
Q 011624          247 --------E--VKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNP-TEVLLVVDA--MTGQEAAA  313 (481)
Q Consensus       247 --------~--~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p-~~vvLVvda--~~~~~~~~  313 (481)
                              |  .....++++++....|++.||+||||||... |.    ++. +...... +..++|.-.  ..-+++..
T Consensus       128 ~~~~~~vIwRGpkk~~~I~qflk~vdwg~lDyLviDtPPGts-De----hls-~~~~~~~~~gAviVTTPQ~vAl~Dv~K  201 (300)
T KOG3022|consen  128 KPRDDSVIWRGPKKNSMIKQFLKDVDWGELDYLVIDTPPGTS-DE----HLS-LVQFLRESDGAVIVTTPQEVALQDVRK  201 (300)
T ss_pred             CCCCccceeechHHHHHHHHHHhcCCCCCcCEEEEeCCCCCC-hh----hhh-eeecccccCceEEEeCchhhhhHHHHh
Confidence                    1  1112466788888778999999999998864 21    121 2222222 555666322  11133333


Q ss_pred             HHHHh-hhcCCeeEEEEcCCCCC-------C---chhHHHHHHHHhCCCeEEeecCC
Q 011624          314 LVTTF-NIEIGITGAILTKLDGD-------S---RGGAALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       314 ~~~~f-~~~~~i~GvIlnKvD~~-------~---~~g~~~~~~~~~glPV~~ig~g~  359 (481)
                      .+.-+ ...++|.|+|-|+..-.       .   ..|....+++..|+|.  +|..|
T Consensus       202 ~i~fc~K~~I~ilGvVENMs~f~Cp~C~~~~~iF~~gGg~~l~~~~glp~--Lg~iP  256 (300)
T KOG3022|consen  202 EIDFCRKAGIPILGVVENMSGFVCPKCGHSTNIFGSGGGERLAEELGLPL--LGSLP  256 (300)
T ss_pred             hhhhhhhcCCceEEEEeccccccCCCCCCcceeccCccHHHHHHHcCCCe--EeecC
Confidence            33333 34678999999976421       1   1245577889999999  77764

>TIGR02016 BchX chlorophyllide reductase iron protein subunit X

Probab=99.49  E-value=3.3e-13  Score=136.10  Aligned_cols=170  Identities=21%  Similarity=0.294  Sum_probs=96.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH------------HHHHHHh---hh---hcCCCe----
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA------------IDQLVIL---GE---QVGVPV----  241 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a------------idql~~~---~~---~~gv~v----  241 (481)
                      ++|+|+||||+||||++.+||.+|+++|+||++||+|++.+..            .+-+...   ..   ..++..    
T Consensus         1 ~vIav~gKGGvGKTT~a~nLA~~La~~g~rVLlID~Dpq~~~~~~l~g~~~~~~l~dv~~~~~~~~~~~~~~~vi~~~~~   80 (296)
T TIGR02016         1 RIIAIYGKGGSGKSFTTTNLSHMMAEMGKRVLQLGCDPKHDSTSLLFGGISLPTIIEVATEKKLAGEEVKVGDVCFKTTI   80 (296)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEecCCCCccchhccCCCCCCHHHHHHhhccccCCCCHHHheeeccc
Confidence            3677779999999999999999999999999999999865321            1111000   00   000000    


Q ss_pred             ecCCC-----CC-CH--------HH--HHHHHHHHHH--cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEE
Q 011624          242 YTAGT-----EV-KP--------SQ--IAKQGLEEAK--KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVV  303 (481)
Q Consensus       242 ~~~~~-----~~-~~--------~~--~l~~~l~~~~--~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVv  303 (481)
                      .+...     .. .+        ..  ..+..++.+.  ..+||||||||+|..... .....+...    ..+.+++|+
T Consensus        81 ~~~~~~~~~~e~~~~~~~~gc~~~~~~~~~~~l~~l~~~~~~yD~IliD~~~~~~~~-g~~~~~a~~----~Ad~viVvt  155 (296)
T TIGR02016        81 MNGSGGVYGMELGGPEVGRGCGGRGIIHGFDLLEKLGFHDWDFDFVLMDFLGDVVCG-GFATPLARS----LAEEVIVIG  155 (296)
T ss_pred             cCcCCCcceeecCCCCcccccCcchhhHHHHHHHHhhhhcccCCEEEEecCCCcccc-ccccchhhh----hCCeEEEEe
Confidence            00000     00 00        01  1134444432  147999999997754100 000011101    137778887


Q ss_pred             eCc-ch----HHHHHHHHHhh---hcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          304 DAM-TG----QEAAALVTTFN---IEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       304 da~-~~----~~~~~~~~~f~---~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                      .+. ..    ......++.+.   ..+++.|+|+|+.+..   +....+++..++|+  ++..|....
T Consensus       156 ~~e~~sl~~a~~l~k~v~~~~~~~~~v~i~GVV~N~~~~~---~~~~~~~~~~~i~v--Lg~IP~d~~  218 (296)
T TIGR02016       156 SNDRQSLYVANNICNAVEYFRKLGGRVGLLGLVVNRDDGS---GEAQAFAREVGIPV--LAAIPADEE  218 (296)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHcCCCCcceEEEEeCCCCc---cHHHHHHHHcCCCe--EEECCCCHH
Confidence            762 22    22333333333   2467899999999763   24466788899999  777654433

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.

>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring

Probab=99.49  E-value=9e-14  Score=141.44  Aligned_cols=169  Identities=21%  Similarity=0.273  Sum_probs=100.7

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH-----------Hh----hh----------
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV-----------IL----GE----------  235 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~-----------~~----~~----------  235 (481)
                      ++.++|+++|++|+||||++++||.+|+++|++|++||+|++++.....+.           ..    .+          
T Consensus        29 ~~~~ii~v~gkgG~GKSt~a~nLa~~la~~g~rVllid~D~~~~~~~~~~g~~~~~~i~d~~~~~~l~~~~~~~~dv~~~  108 (329)
T cd02033          29 KKTQIIAIYGKGGIGKSFTLANLSYMMAQQGKRVLLIGCDPKSDTTSLLFGGKACPTIIETSAKKKLAGEEVQIGDVCFK  108 (329)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeeecccccchhccccCCCcccccccccccCcccceeeceEEE
Confidence            467899999999999999999999999999999999999998643211100           00    00          


Q ss_pred             hcCCCeecCCC---CCCH----HHHHHHHHHHH---HcCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEE
Q 011624          236 QVGVPVYTAGT---EVKP----SQIAKQGLEEA---KKKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLV  302 (481)
Q Consensus       236 ~~gv~v~~~~~---~~~~----~~~l~~~l~~~---~~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLV  302 (481)
                      ..|+.+...+.   +..+    .....+.++.+   .| +||||||||+|....   .......        ..+.+++|
T Consensus       109 ~~gv~~~~~g~p~~~~G~~~~~~i~~~~~l~~l~~~~w-~~DyVliD~~gdv~~ggf~l~i~~~--------~ad~VIVV  179 (329)
T cd02033         109 RDGVFAMELGGPEVGRGCGGRGIIHGFELLEKLGFHDW-DFDYVLLDFLGDVVCGGFGLPIARD--------MAQKVIVV  179 (329)
T ss_pred             eCCEEEecCCCCeecccccchHHHHHHHHHHHccCccc-cCCEEEEecCCcceeccccchhhhc--------CCceEEEe
Confidence            01222222221   1111    11122445543   33 799999999886531   1111111        12566666


Q ss_pred             EeCcc-h-HH---HH---HHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          303 VDAMT-G-QE---AA---ALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       303 vda~~-~-~~---~~---~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                      ..... . ..   +.   ..++.....+++.|+|+||.|+.   +.+..+++..++|+  ++..|..++
T Consensus       180 t~pe~~si~~A~~v~kai~~~~~lg~~~~i~GlViNr~d~~---~~ie~~ae~lgi~v--Lg~IP~D~~  243 (329)
T cd02033         180 GSNDLQSLYVANNVCNAVEYFRKLGGNVGVAGMVINKDDGT---GEAQAFAAHAGIPI--LAAIPADEE  243 (329)
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCcCCc---chHHHHHHHhCCCE--EEECCCCHH
Confidence            65421 1 11   12   22222233467899999999863   24667788899999  887765544

This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.

>PRK11519 tyrosine kinase; Provisional

Probab=99.49  E-value=1.2e-12  Score=147.01  Aligned_cols=146  Identities=23%  Similarity=0.326  Sum_probs=99.2

Q ss_pred             CCCEEEEEEc-CCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH---------------------HhhhhcC
Q 011624          181 SRPTVILLAG-LQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV---------------------ILGEQVG  238 (481)
Q Consensus       181 ~~~~VI~i~G-~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~---------------------~~~~~~g  238 (481)
                      .++++|++++ .+|+||||++.+||..|+..|+||++||+|+.+|.....+.                     ......+
T Consensus       524 ~~~kvi~vts~~~geGKTt~a~nLA~~la~~g~rvLlID~Dlr~~~~~~~~~~~~~~gl~~~l~~~~~l~~~i~~~~~~~  603 (719)
T PRK11519        524 AQNNVLMMTGVSPSIGKTFVCANLAAVISQTNKRVLLIDCDMRKGYTHELLGTNNVNGLSDILIGQGDITTAAKPTSIAN  603 (719)
T ss_pred             CCceEEEEECCCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCCCcHHHHhCCCCCCCHHHHhCCCCCHHHhecccCcCC
Confidence            3567888887 59999999999999999999999999999998875322110                     0111235


Q ss_pred             CCeecCCC-CCCHHHH-----HHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeC-cchHH
Q 011624          239 VPVYTAGT-EVKPSQI-----AKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDA-MTGQE  310 (481)
Q Consensus       239 v~v~~~~~-~~~~~~~-----l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda-~~~~~  310 (481)
                      +.+++.+. ..+|.+.     +.+.++.++ ..||+|||||||.+.. |...++..        .|.+++|+.+ .+..+
T Consensus       604 l~~lp~g~~~~~~~ell~s~~~~~ll~~l~-~~yD~ViiDtpP~~~v~Da~~l~~~--------~d~~l~Vvr~~~t~~~  674 (719)
T PRK11519        604 FDLIPRGQVPPNPSELLMSERFAELVNWAS-KNYDLVLIDTPPILAVTDAAIVGRH--------VGTTLMVARYAVNTLK  674 (719)
T ss_pred             EEEEeCCCCCCCHHHHhhHHHHHHHHHHHH-hcCCEEEEeCCCcccchHHHHHHHH--------CCeEEEEEeCCCCCHH
Confidence            55665543 3345443     356667765 7899999999998754 43333332        3788999887 44433


Q ss_pred             HH-HHHHHhh-hcCCeeEEEEcCCCCC
Q 011624          311 AA-ALVTTFN-IEIGITGAILTKLDGD  335 (481)
Q Consensus       311 ~~-~~~~~f~-~~~~i~GvIlnKvD~~  335 (481)
                      .+ ..++.+. ...++.|+|+|+++..
T Consensus       675 ~~~~~~~~l~~~~~~~~G~VlN~v~~~  701 (719)
T PRK11519        675 EVETSLSRFEQNGIPVKGVILNSIFRR  701 (719)
T ss_pred             HHHHHHHHHHhCCCCeEEEEEeCCccC
Confidence            33 3333332 3578899999999744

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=99.46  E-value=2.7e-12  Score=125.99  Aligned_cols=166  Identities=22%  Similarity=0.321  Sum_probs=97.5

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH--------------HHHHH---------H-hhhhcC
Q 011624          184 TVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA--------------IDQLV---------I-LGEQVG  238 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a--------------idql~---------~-~~~~~g  238 (481)
                      ++|++ +++||+||||++.+||.+|+++|++|++||+|++.+..              .+.+.         . .....+
T Consensus         2 ~ii~v~s~kGGvGKTt~a~~lA~~la~~g~~vlliD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~   81 (261)
T TIGR01968         2 RVIVITSGKGGVGKTTTTANLGTALARLGKKVVLIDADIGLRNLDLLLGLENRIVYTLVDVVEGECRLQQALIKDKRLKN   81 (261)
T ss_pred             eEEEEecCCCCccHHHHHHHHHHHHHHcCCeEEEEECCCCCCCeeEEeCCCCcCCCCHHHHhcCcCcHHHHhhcCCCCCC
Confidence            45655 57899999999999999999999999999999963211              11110         0 001124


Q ss_pred             CCeecCCCCCC----HHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHH
Q 011624          239 VPVYTAGTEVK----PSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAA  312 (481)
Q Consensus       239 v~v~~~~~~~~----~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~  312 (481)
                      +.+++.+....    ..+.+.+.+..+. +.||+|||||||....  .....+    .  ..+.+++|+.+...  ..+.
T Consensus        82 l~~l~~~~~~~~~~~~~~~l~~~l~~l~-~~~D~viiD~p~~~~~--~~~~~l----~--~aD~viiv~~~~~~s~~~~~  152 (261)
T TIGR01968        82 LYLLPASQTRDKDAVTPEQMKKLVNELK-EEFDYVIIDCPAGIES--GFRNAV----A--PADEAIVVTTPEVSAVRDAD  152 (261)
T ss_pred             eEEEeCCCchhhhhCCHHHHHHHHHHHH-HhCCEEEEeCCCCcCH--HHHHHH----H--hCCeEEEEcCCCcHHHHHHH
Confidence            44554432211    1234566777765 6899999999987642  122221    1  23778888877322  2222


Q ss_pred             HHHHHhhh-cCCeeEEEEcCCCCCCch-h---HHHHHHHHhCCCeEEeecCCC
Q 011624          313 ALVTTFNI-EIGITGAILTKLDGDSRG-G---AALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       313 ~~~~~f~~-~~~i~GvIlnKvD~~~~~-g---~~~~~~~~~glPV~~ig~g~~  360 (481)
                      ..++.+.. .....++++|+++..... .   .+..+.+..+.|+  ++..+.
T Consensus       153 ~~~~~l~~~~~~~~~iviN~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~Ip~  203 (261)
T TIGR01968       153 RVIGLLEAKGIEKIHLIVNRLRPEMVKKGDMLSVDDVLEILSIPL--IGVIPE  203 (261)
T ss_pred             HHHHHHHHcCCCceEEEEeCcCchhcccccccCHHHHHHHhCCce--eEEccC
Confidence            22222211 123468999999853211 1   2345666778887  555543

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=99.46  E-value=7.2e-13  Score=131.16  Aligned_cols=165  Identities=19%  Similarity=0.161  Sum_probs=92.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH-----------HHHHHh----------hhhcCCCee
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI-----------DQLVIL----------GEQVGVPVY  242 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai-----------dql~~~----------~~~~gv~v~  242 (481)
                      ++|+++|+|||||||++.+||.+|+++| +|++||+|++.....           +-+...          ....++.++
T Consensus         3 ~~iav~~KGGvGKTT~a~nLA~~La~~G-rVLliD~Dpq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i   81 (264)
T PRK13231          3 KKIAIYGKGGIGKSTTVSNMAAAYSNDH-RVLVIGCDPKADTTRTLCGKRIPTVLDTLKDNRKPELEDIIHEGFNGILCV   81 (264)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcccCCCC-EEEEEeEccCcccchhhhcCCccHHHHHHhhcCCCChhHhheeCCCCeEEE
Confidence            5677779999999999999999999999 999999999853221           111000          001133333


Q ss_pred             cCCCCC------CHHH----HHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-chH-H
Q 011624          243 TAGTEV------KPSQ----IAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TGQ-E  310 (481)
Q Consensus       243 ~~~~~~------~~~~----~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~~-~  310 (481)
                      +.+...      ....    .+.+.+..+ .++||||||||+|...... +...+.    ....+.+++++.+. ... .
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~l-~~~yD~ViIDt~~~~~~~~-~~~~~~----~~aaD~vlip~~p~~~si~~  155 (264)
T PRK13231         82 ESGGPEPGVGCAGRGVIVAMNLLENLGVF-DEDIDVVIYDVLGDVVCGG-FSVPLR----EDYADEVYIVTSGEYMSLYA  155 (264)
T ss_pred             EcCCCCCCCCCcCceeeehhhhHHhhccc-cCCCCEEEEecCCCceEcc-cccccc----ccccceeEEEecCchhHHHH
Confidence            332110      1110    122334444 3689999999987653211 110100    01237778887762 222 2


Q ss_pred             H---HHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCC
Q 011624          311 A---AALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       311 ~---~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~  359 (481)
                      +   .+.++.++  ..+.|+|.|+.+...+...+....+.++.++  ++..+
T Consensus       156 ~~~~~~~i~~~~--~~~~~vv~~~~~~~~~~~~~~~l~~~~~~~v--l~~I~  203 (264)
T PRK13231        156 ANNIARGIKKLK--GKLGGIICNCRGIDNEVEIVSEFASRIGSRI--IGVIP  203 (264)
T ss_pred             HHHHHHHHHHcC--CcceEEEEcCCCCccHHHHHHHHHHHhCCCe--EEeCC
Confidence            2   22233332  2357888888775444444566667778877  44443

>PRK10818 cell division inhibitor MinD; Provisional

Probab=99.45  E-value=2.6e-12  Score=127.53  Aligned_cols=168  Identities=17%  Similarity=0.232  Sum_probs=97.9

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH--------------HHHH--------Hh-h-hhcC
Q 011624          184 TVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI--------------DQLV--------IL-G-EQVG  238 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai--------------dql~--------~~-~-~~~g  238 (481)
                      ++|++ +++|||||||++++||.+|+++|++|++||+|++.++..              +.+.        .+ . ...+
T Consensus         3 kviav~s~KGGvGKTt~a~nlA~~la~~g~~vllvD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (270)
T PRK10818          3 RIIVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVIDFDIGLRNLDLIMGCERRVVYDFVNVIQGDATLNQALIKDKRTEN   82 (270)
T ss_pred             eEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEECCCCCCChhhhhCCCcccccCHHHHhcCCCcHHHhccccCCcCC
Confidence            45555 578999999999999999999999999999999743311              1000        00 0 1124


Q ss_pred             CCeecCCCCCCH----HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-HHH-
Q 011624          239 VPVYTAGTEVKP----SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-QEA-  311 (481)
Q Consensus       239 v~v~~~~~~~~~----~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~~~-  311 (481)
                      +.+++.+.....    .+...+.++.++...||+|||||||.+..  .....+    .  ..+.+++|+++.. . ..+ 
T Consensus        83 ~~~lp~~~~~~~~~~~~~~~~~~l~~l~~~~yd~viiD~p~~~~~--~~~~~l----~--~ad~vivv~~p~~~sl~~~~  154 (270)
T PRK10818         83 LYILPASQTRDKDALTREGVAKVLDDLKAMDFEFIVCDSPAGIET--GALMAL----Y--FADEAIITTNPEVSSVRDSD  154 (270)
T ss_pred             EEEecCCCCcchhhhCHHHHHHHHHHHhhcCCCEEEEeCCCCccH--HHHHHH----H--hCCeEEEEcCCCchHHHhHH
Confidence            444444322111    11234566666534799999999988742  122222    1  2378888888742 2 222 


Q ss_pred             --HHHHHHhh-----hcCCe-eEEEEcCCCCCCch----hHHHHHHHHhCCCeEEeecCCCC
Q 011624          312 --AALVTTFN-----IEIGI-TGAILTKLDGDSRG----GAALSVKEVSGKPIKLVGRGERM  361 (481)
Q Consensus       312 --~~~~~~f~-----~~~~i-~GvIlnKvD~~~~~----g~~~~~~~~~glPV~~ig~g~~v  361 (481)
                        .+.+..+.     ...++ .++|+|+++.....    .....+.+..|.++  ++..+..
T Consensus       155 ~~l~~i~~~~~~~~~~~~~~~~~vv~n~~~~~~~~~~~~~~~~~~~~~~g~~~--~~~Ip~~  214 (270)
T PRK10818        155 RILGILASKSRRAENGEEPIKEHLLLTRYNPGRVSRGDMLSMEDVLEILRIKL--VGVIPED  214 (270)
T ss_pred             HHHHHHHHhhccccccccccceEEEEeccCHhhhhhcccccHHHHHHHhCCcE--EEEecCC
Confidence              22222211     11222 48999999865321    12355666778886  5555443

>TIGR03453 partition_RepA plasmid partitioning protein RepA

Probab=99.44  E-value=4.2e-12  Score=132.76  Aligned_cols=43  Identities=33%  Similarity=0.359  Sum_probs=37.9

Q ss_pred             CCCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++++||+++ .+|||||||++.+||.+|+++|+||++||+|++.
T Consensus       102 ~~~~vI~v~n~KGGvGKTT~a~nLA~~La~~G~rVLlID~DpQ~  145 (387)
T TIGR03453       102 EHLQVIAVTNFKGGSGKTTTAAHLAQYLALRGYRVLAIDLDPQA  145 (387)
T ss_pred             CCceEEEEEccCCCcCHHHHHHHHHHHHHhcCCCEEEEecCCCC
Confidence            344677664 7899999999999999999999999999999985

Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.

>TIGR01005 eps_transp_fam exopolysaccharide transport protein family

Probab=99.43  E-value=2e-12  Score=146.20  Aligned_cols=148  Identities=21%  Similarity=0.234  Sum_probs=96.0

Q ss_pred             CCCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH---------------------HhhhhcC
Q 011624          181 SRPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV---------------------ILGEQVG  238 (481)
Q Consensus       181 ~~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~---------------------~~~~~~g  238 (481)
                      .++++|+|+ +++|+||||++.+||..|++.|++|+|||+|+++|.....+.                     ......+
T Consensus       544 ~~~kvi~vts~~~G~GKTt~a~nLA~~lA~~g~rvLlID~D~~~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~  623 (754)
T TIGR01005       544 AEPEVVETQRPRPVLGKSDIEANAAALIASGGKRALLIDADGRKAALSQILVAREVSGLLDLLAGLRSLLLDLTASGAAS  623 (754)
T ss_pred             CCceEEEeecCCCCCChhHHHHHHHHHHHhCCCeEEEEeCCCCchhHHHHhCCcccCChHHHHcCCccHHHHhccCCCCC
Confidence            356788876 559999999999999999999999999999999875432221                     0011234


Q ss_pred             CCeecCCCC-CCHHHH-----HHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeC-cch-H
Q 011624          239 VPVYTAGTE-VKPSQI-----AKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDA-MTG-Q  309 (481)
Q Consensus       239 v~v~~~~~~-~~~~~~-----l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda-~~~-~  309 (481)
                      +.+++.+.. ..+.+.     +.+.+..++ +.||+|||||||.... +...+      ..  ..|.+++|+.+ .+. .
T Consensus       624 l~~l~~g~~~~~~~~ll~~~~~~~~l~~l~-~~yD~IiID~pp~~~~~d~~~l------~~--~~D~vl~v~~~~~~~~~  694 (754)
T TIGR01005       624 LPMLDSGLFPHGITELLASPAMFSLVIHAR-LYSDCVVVDVGTADPVRDMRAA------AR--LAIIMLLVTAYDRVVVE  694 (754)
T ss_pred             eeEecCCCCCCCHHHHhccHHHHHHHHHHH-hhCCEEEEcCCCcchhHHHHHh------hh--hCCeEEEEEEeCceeHH
Confidence            556655532 233332     356677765 7899999999998752 22211      11  13778888876 233 2


Q ss_pred             HHHHHHHHhh-hcCCeeEEEEcCCCCCCc
Q 011624          310 EAAALVTTFN-IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       310 ~~~~~~~~f~-~~~~i~GvIlnKvD~~~~  337 (481)
                      ...+.++.+. .+.++.|+|+|++|...+
T Consensus       695 ~~~~~~~~l~~~~~~~~GvvlN~~~~~~~  723 (754)
T TIGR01005       695 CGRADAQGISRLNGEVTGVFLNMLDPNDE  723 (754)
T ss_pred             HHHHHHHHHHhcCCceEEEEecCCChhhh
Confidence            3333333222 235678999999996544

The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.

>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell

Probab=99.42  E-value=3.1e-12  Score=123.25  Aligned_cols=148  Identities=24%  Similarity=0.274  Sum_probs=86.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch-------hHHHHHH---------Hhhhhc-----------
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP-------AAIDQLV---------ILGEQV-----------  237 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp-------~aidql~---------~~~~~~-----------  237 (481)
                      +++++|++|+||||++++||.+++++|++|++||+|+.++       +..+-+.         .+....           
T Consensus         1 ~~~~~g~~g~Gkt~~~~~la~~~a~~g~~~~l~~~d~~~~~~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (217)
T cd02035           1 VIFFTGKGGVGKTTIAAATAVRLAEEGKKVLLVSTDPAHNLSDKGLPNLSDAFIVEDPEIAPNLYREEVDATRRVERAWG   80 (217)
T ss_pred             CEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEECCCCcccccccCCCchhhhccCChHHHHHHHHHHHHHHHHhhhccc
Confidence            4678999999999999999999999999999999999882       2211110         010000           


Q ss_pred             --CCCee-cCCCCCCHHHHH--HHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-ch-HH
Q 011624          238 --GVPVY-TAGTEVKPSQIA--KQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TG-QE  310 (481)
Q Consensus       238 --gv~v~-~~~~~~~~~~~l--~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~-~~  310 (481)
                        +..+. ......++.+.+  .+.++.++..+||+||||||+..+....++   .........+.+++|+.+. +. .+
T Consensus        81 ~~~~~~~~~~~~~p~~~ell~~~~l~~~l~~~~yD~IIiD~pp~~~~~~~l~---~~~l~~~~~~~vllV~~p~~~s~~~  157 (217)
T cd02035          81 GEGGLMLELAAALPGIEELASLLAVFREFSEGLYDVIVFDTAPTGHTLRLLV---RELLTDPERTSFRLVTLPEKLPLYE  157 (217)
T ss_pred             chhhhHHhHhccCCCHHHHHHHHHHHHHHhcCCCCEEEECCCCchHHHHHHH---HHHccCCCceEEEEEeCCCccHHHH
Confidence              11111 111233444433  345555543349999999998643211111   1111111126788888873 33 33


Q ss_pred             HHHHHHHhh-hcCCeeEEEEcCCCCC
Q 011624          311 AAALVTTFN-IEIGITGAILTKLDGD  335 (481)
Q Consensus       311 ~~~~~~~f~-~~~~i~GvIlnKvD~~  335 (481)
                      +...++.+. .+.++.|+|+|++...
T Consensus       158 ~~~~l~~l~~~~~~~~glVlN~~~~~  183 (217)
T cd02035         158 TERAITELALYGIPVDAVVVNRVLPA  183 (217)
T ss_pred             HHHHHHHHHHCCCCCCEEEEeCCcCc
Confidence            334343332 2356789999998643

This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.

>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA)

Probab=99.42  E-value=9.2e-12  Score=122.91  Aligned_cols=40  Identities=45%  Similarity=0.574  Sum_probs=37.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++++++|+||+||||+++++|.+++++|++|++||+|+..
T Consensus         1 ~~~~~~gkgG~GKtt~a~~la~~~a~~g~~vLlvd~D~~~   40 (254)
T cd00550           1 RYIFFGGKGGVGKTTISAATAVRLAEQGKKVLLVSTDPAH   40 (254)
T ss_pred             CEEEEECCCCchHHHHHHHHHHHHHHCCCCceEEeCCCcc
Confidence            3788999999999999999999999999999999999853

This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.

>PHA02519 plasmid partition protein SopA; Reviewed

Probab=99.41  E-value=3.5e-12  Score=133.06  Aligned_cols=43  Identities=30%  Similarity=0.446  Sum_probs=38.0

Q ss_pred             CCCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEec-cCCc
Q 011624          181 SRPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAG-DVYR  223 (481)
Q Consensus       181 ~~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~-D~~r  223 (481)
                      .+++||+++ .||||||||++.+||.+|+.+|+||++||+ |+|.
T Consensus       104 ~~~~vIav~n~KGGVGKTTta~nLA~~LA~~G~rVLlIDl~DpQ~  148 (387)
T PHA02519        104 KNPVVLAVMSHKGGVYKTSSAVHTAQWLALQGHRVLLIEGNDPQG  148 (387)
T ss_pred             CCceEEEEecCCCCCcHHHHHHHHHHHHHhCCCcEEEEeCCCCCC
Confidence            346777765 789999999999999999999999999996 9975

>PRK10037 cell division protein; Provisional

Probab=99.41  E-value=6.7e-12  Score=123.42  Aligned_cols=140  Identities=16%  Similarity=0.115  Sum_probs=81.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH-------------HHHH---H-----hhhhcCCCeec
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI-------------DQLV---I-----LGEQVGVPVYT  243 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai-------------dql~---~-----~~~~~gv~v~~  243 (481)
                      |.+...+|||||||++.+||..|+++|+||++||+|++.....             +.+.   .     +....|+.+++
T Consensus         4 iav~n~KGGvGKTT~a~nLA~~La~~G~rVLlID~D~q~~~s~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~iip   83 (250)
T PRK10037          4 LGLQGVRGGVGTTSITAALAWSLQMLGENVLVIDACPDNLLRLSFNVDFTHRQGWARALLDGQDWRDAGLRYTSQLDLLP   83 (250)
T ss_pred             EEEecCCCCccHHHHHHHHHHHHHhcCCcEEEEeCChhhhHHHHhCCCccccchHHHHHhcCCCchhhhccccCCeEEEc
Confidence            3444688999999999999999999999999999999853210             0000   0     00012444554


Q ss_pred             CCCCCCHH------------HHHHHHHHHHHc-CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH
Q 011624          244 AGTEVKPS------------QIAKQGLEEAKK-KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE  310 (481)
Q Consensus       244 ~~~~~~~~------------~~l~~~l~~~~~-~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~  310 (481)
                      .+. ....            ..+.+.+..++. .+||||||||||....  .....+    .  ..+.+++++.+.. .+
T Consensus        84 ~~~-~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~yD~iiIDtpp~~~~--~~~~al----~--aaD~vlvpv~~~~-~~  153 (250)
T PRK10037         84 FGQ-LSIEEQENPQHWQTRLGDICSALQQLKASGRYQWILLDLPRGASP--LTRQLL----S--LCDHSLAIVNVDA-NC  153 (250)
T ss_pred             CCC-CCHHHHHHHHHHHHhHHHHHHHHHHhcccCCCCEEEEECCCCccH--HHHHHH----H--hCCEEEEEcCcCH-HH
Confidence            431 2111            123455555531 5799999999998642  121211    1  2377888887642 22


Q ss_pred             HHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          311 AAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       311 ~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+..+.+. ..+ ..+++|+++...
T Consensus       154 ~i~~~~~~~-~~~-~~i~~n~~~~~~  177 (250)
T PRK10037        154 HIRLHQQAL-PAG-AHILINDLRIGS  177 (250)
T ss_pred             HHhhhcccc-CCC-eEEEEecCCccc
Confidence            333333221 122 357789987433

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.40  E-value=3.8e-11  Score=122.37  Aligned_cols=146  Identities=21%  Similarity=0.253  Sum_probs=94.7

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch---hHH--HH--HHHhhhhcCCCeecCCC--CC-CH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP---AAI--DQ--LVILGEQVGVPVYTAGT--EV-KP  250 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp---~ai--dq--l~~~~~~~gv~v~~~~~--~~-~~  250 (481)
                      +++.+|.++|++|+||||++..|+..|..+|++|.+++.|+..+   +++  |.  +..+....++-+.....  .. ..
T Consensus        54 ~~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~Dp~s~~~~gallgd~~r~~~~~~~~~~~~r~~~~~~~l~~~  133 (332)
T PRK09435         54 GNALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAVDPSSTRTGGSILGDKTRMERLSRHPNAFIRPSPSSGTLGGV  133 (332)
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeCCCccccchhhhchHhHHHhhcCCCCeEEEecCCcccccch
Confidence            35789999999999999999999999999999999999999654   222  21  22223333333333222  11 24


Q ss_pred             HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEc
Q 011624          251 SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILT  330 (481)
Q Consensus       251 ~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIln  330 (481)
                      ...+.+++..+...+||+|||||+|..+..... .+        ..|-+++|++...+.+........-+-.  .-+|+|
T Consensus       134 a~~~~~~~~~~~~~g~d~viieT~Gv~qs~~~i-~~--------~aD~vlvv~~p~~gd~iq~~k~gi~E~a--DIiVVN  202 (332)
T PRK09435        134 ARKTRETMLLCEAAGYDVILVETVGVGQSETAV-AG--------MVDFFLLLQLPGAGDELQGIKKGIMELA--DLIVIN  202 (332)
T ss_pred             HHHHHHHHHHHhccCCCEEEEECCCCccchhHH-HH--------hCCEEEEEecCCchHHHHHHHhhhhhhh--heEEee
Confidence            566677777776678999999999987543221 11        1366777776555654433222111111  248999


Q ss_pred             CCCCCCc
Q 011624          331 KLDGDSR  337 (481)
Q Consensus       331 KvD~~~~  337 (481)
                      |.|....
T Consensus       203 KaDl~~~  209 (332)
T PRK09435        203 KADGDNK  209 (332)
T ss_pred             hhcccch
Confidence            9996543

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=99.39  E-value=1.4e-11  Score=118.38  Aligned_cols=90  Identities=29%  Similarity=0.406  Sum_probs=65.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcC-----CCeecCCCCCCHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVG-----VPVYTAGTEVKPSQIAKQG  257 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~g-----v~v~~~~~~~~~~~~l~~~  257 (481)
                      |.|.+.+.|||+||||++..||..|+++|.+|.+||+||.||-..+  ...+...|     +.++..    +....+.+.
T Consensus         2 ~vItf~s~KGGaGKTT~~~~LAs~la~~G~~V~lIDaDpn~pl~~W--~~~a~~~~~~~~~~~V~~~----~e~~~l~~~   75 (231)
T PF07015_consen    2 PVITFASSKGGAGKTTAAMALASELAARGARVALIDADPNQPLAKW--AENAQRPGAWPDRIEVYEA----DELTILEDA   75 (231)
T ss_pred             CeEEEecCCCCCcHHHHHHHHHHHHHHCCCeEEEEeCCCCCcHHHH--HHhccccCCCCCCeeEEec----cchhhHHHH
Confidence            4455667899999999999999999999999999999999987632  23332222     233322    223345566


Q ss_pred             HHHHHcCCCcEEEEcCCCCcc
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~  278 (481)
                      ++.+....||+||||+.|..+
T Consensus        76 ~e~a~~~~~d~VlvDleG~as   96 (231)
T PF07015_consen   76 YEAAEASGFDFVLVDLEGGAS   96 (231)
T ss_pred             HHHHHhcCCCEEEEeCCCCCc
Confidence            666654579999999998764

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=99.39  E-value=1.3e-11  Score=125.79  Aligned_cols=164  Identities=25%  Similarity=0.298  Sum_probs=96.8

Q ss_pred             CCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH-----H--------HHHH-------------hh
Q 011624          182 RPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI-----D--------QLVI-------------LG  234 (481)
Q Consensus       182 ~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai-----d--------ql~~-------------~~  234 (481)
                      +.++|.++ ++||+||||++++||.+|+++|++|++||+|++.++..     +        .+..             ..
T Consensus        92 ~~~vIav~~~KGGvGkTT~a~nLA~~la~~g~~VlLvD~D~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  171 (322)
T TIGR03815        92 RGVVVAVIGGRGGAGASTLAAALALAAARHGLRTLLVDADPWGGGLDLLLGAEDVPGLRWPDLSQARGRLPAGALRDALP  171 (322)
T ss_pred             CceEEEEEcCCCCCcHHHHHHHHHHHHHhcCCCEEEEecCCCCCCeeeeecCCCCCCcCHHHHhhcCCCcCHHHHHHhCC
Confidence            35667665 67999999999999999999999999999999865320     0        0000             00


Q ss_pred             hhcCCCeecCCCCC---CHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--H
Q 011624          235 EQVGVPVYTAGTEV---KPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--Q  309 (481)
Q Consensus       235 ~~~gv~v~~~~~~~---~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~  309 (481)
                      ...|+.++..+...   ...+.++..++.++ +.|||||||||+....  ....    ++.  ..+.+++|+++...  .
T Consensus       172 ~~~~l~vl~~~~~~~~~~~~~~l~~~l~~l~-~~~D~VIID~p~~~~~--~~~~----~L~--~AD~vliV~~~~~~sl~  242 (322)
T TIGR03815       172 RRGGLSVLSWGRAVGAALPPAAVRAVLDAAR-RGGDLVVVDLPRRLTP--AAET----ALE--SADLVLVVVPADVRAVA  242 (322)
T ss_pred             CcCCeEEEecCCCCcCCCCHHHHHHHHHHHH-hcCCEEEEeCCCCCCH--HHHH----HHH--HCCEEEEEcCCcHHHHH
Confidence            11244444433211   12345667777764 7899999999988642  1111    112  23778888877322  2


Q ss_pred             HHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecC
Q 011624          310 EAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRG  358 (481)
Q Consensus       310 ~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g  358 (481)
                      .+.+.++.+...-.-..+|+|+....  .-....+.+.+|.|+  ++..
T Consensus       243 ~a~r~l~~l~~~~~~~~lVv~~~~~~--~~~~~~i~~~lg~~v--~~~I  287 (322)
T TIGR03815       243 AAARVCPELGRRNPDLRLVVRGPAPA--GLDPEEIAESLGLPL--LGEV  287 (322)
T ss_pred             HHHHHHHHHhhhCCCeEEEEeCCCCC--CCCHHHHHHHhCCCc--eeeC
Confidence            33333333322111235677764321  112356677788888  4444

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.38  E-value=1e-11  Score=125.46  Aligned_cols=146  Identities=21%  Similarity=0.259  Sum_probs=91.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH---H--HH--HHHhhhhcCCCeecCCCC---CCH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA---I--DQ--LVILGEQVGVPVYTAGTE---VKP  250 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a---i--dq--l~~~~~~~gv~v~~~~~~---~~~  250 (481)
                      .++.++.++|++|+||||++.+|+..+.++|++|.++++|++.+..   +  +.  +.......++.+......   ...
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIAVDPSSPFTGGSILGDRTRMQRLATDPGAFIRSMPTRGHLGGL  111 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCCcchhhhcccchhhhhcccCCCceeeecCccccccch
Confidence            3578999999999999999999999999999999999999887542   1  11  111112233333333221   122


Q ss_pred             HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEc
Q 011624          251 SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILT  330 (481)
Q Consensus       251 ~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIln  330 (481)
                      .....+.+..+...+||+|||||+|..+......       ..  .+.+++|.....+.+.......+...  ..-+++|
T Consensus       112 ~~~~~~~~~~l~~~g~D~viidT~G~~~~e~~i~-------~~--aD~i~vv~~~~~~~el~~~~~~l~~~--~~ivv~N  180 (300)
T TIGR00750       112 SQATRELILLLDAAGYDVIIVETVGVGQSEVDIA-------NM--ADTFVVVTIPGTGDDLQGIKAGLMEI--ADIYVVN  180 (300)
T ss_pred             hHHHHHHHHHHHhCCCCEEEEeCCCCchhhhHHH-------Hh--hceEEEEecCCccHHHHHHHHHHhhh--ccEEEEE
Confidence            2334556666665799999999999765332211       11  25555555555555544333333221  2358999


Q ss_pred             CCCCCCc
Q 011624          331 KLDGDSR  337 (481)
Q Consensus       331 KvD~~~~  337 (481)
                      |+|....
T Consensus       181 K~Dl~~~  187 (300)
T TIGR00750       181 KADGEGA  187 (300)
T ss_pred             cccccch
Confidence            9997543

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PRK13705 plasmid-partitioning protein SopA; Provisional

Probab=99.37  E-value=6.2e-12  Score=131.33  Aligned_cols=43  Identities=42%  Similarity=0.422  Sum_probs=38.0

Q ss_pred             CCCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEec-cCCc
Q 011624          181 SRPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAG-DVYR  223 (481)
Q Consensus       181 ~~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~-D~~r  223 (481)
                      .+++||.++ .+|||||||++.+||.+|+++|+||++||+ |+|.
T Consensus       104 ~~~~vIai~n~KGGVGKTT~a~nLA~~LA~~G~rVLlID~~DpQ~  148 (388)
T PRK13705        104 VFPPVIGVAAHKGGVYKTSVSVHLAQDLALKGLRVLLVEGNDPQG  148 (388)
T ss_pred             CCCeEEEEECCCCCchHHHHHHHHHHHHHhcCCCeEEEcCCCCCC
Confidence            346777765 789999999999999999999999999997 9975

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=99.35  E-value=1.2e-11  Score=111.00  Aligned_cols=111  Identities=25%  Similarity=0.352  Sum_probs=75.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      |.+.++++|+||||++.++|.+++.+|++|+++|+|++.+..-                                     
T Consensus         2 i~~~~~kgg~gkt~~~~~~a~~~~~~~~~~~~vd~D~~~~~~~-------------------------------------   44 (139)
T cd02038           2 IAVTSGKGGVGKTNISANLALALAKLGKRVLLLDADLGLANLD-------------------------------------   44 (139)
T ss_pred             EEEEcCCCCCcHHHHHHHHHHHHHHCCCcEEEEECCCCCCCCC-------------------------------------
Confidence            3445689999999999999999999999999999998754321                                     


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhh--cCCeeEEEEcCCCCCCchhH
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNI--EIGITGAILTKLDGDSRGGA  340 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~--~~~i~GvIlnKvD~~~~~g~  340 (481)
                       ||+||||||+.....  ...    +...  .+.+++|+++...  .+....++....  .....++|+|+++.......
T Consensus        45 -yd~VIiD~p~~~~~~--~~~----~l~~--aD~vviv~~~~~~s~~~~~~~l~~l~~~~~~~~~~lVvN~~~~~~~~~~  115 (139)
T cd02038          45 -YDYIIIDTGAGISDN--VLD----FFLA--ADEVIVVTTPEPTSITDAYALIKKLAKQLRVLNFRVVVNRAESPKEGKK  115 (139)
T ss_pred             -CCEEEEECCCCCCHH--HHH----HHHh--CCeEEEEcCCChhHHHHHHHHHHHHHHhcCCCCEEEEEeCCCCHHHHHH
Confidence             899999999875422  111    1221  2778888887422  233333333321  23346799999986544433


Q ss_pred             H
Q 011624          341 A  341 (481)
Q Consensus       341 ~  341 (481)
                      .
T Consensus       116 ~  116 (139)
T cd02038         116 V  116 (139)
T ss_pred             H
Confidence            3

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.35  E-value=5.9e-11  Score=116.94  Aligned_cols=143  Identities=22%  Similarity=0.300  Sum_probs=95.7

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh---HH--HH--HHHhhhhcCCCeecCCCCCC---H
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA---AI--DQ--LVILGEQVGVPVYTAGTEVK---P  250 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~---ai--dq--l~~~~~~~gv~v~~~~~~~~---~  250 (481)
                      +++.+|.++|.||+||||++-+|...|.++|++|.++..||-.|-   ++  |.  +..+....|+.+.+..+...   -
T Consensus        49 G~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGGl  128 (323)
T COG1703          49 GNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGGL  128 (323)
T ss_pred             CCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccCCCeEEeecCCCccchhh
Confidence            457899999999999999999999999999999999999986543   21  22  22333345666666544222   2


Q ss_pred             HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEc
Q 011624          251 SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILT  330 (481)
Q Consensus       251 ~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIln  330 (481)
                      ....++++.-+...+||+|||+|.|..+.+.....-         .|.+++|+-+..|.+....-....+-.  +-+++|
T Consensus       129 S~at~~~i~~ldAaG~DvIIVETVGvGQsev~I~~~---------aDt~~~v~~pg~GD~~Q~iK~GimEia--Di~vIN  197 (323)
T COG1703         129 SRATREAIKLLDAAGYDVIIVETVGVGQSEVDIANM---------ADTFLVVMIPGAGDDLQGIKAGIMEIA--DIIVIN  197 (323)
T ss_pred             hHHHHHHHHHHHhcCCCEEEEEecCCCcchhHHhhh---------cceEEEEecCCCCcHHHHHHhhhhhhh--heeeEe
Confidence            334456666666789999999999998755443322         155566665666644433222222111  348999


Q ss_pred             CCCC
Q 011624          331 KLDG  334 (481)
Q Consensus       331 KvD~  334 (481)
                      |.|.
T Consensus       198 KaD~  201 (323)
T COG1703         198 KADR  201 (323)
T ss_pred             ccCh
Confidence            9993

>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]

Probab=99.35  E-value=2.8e-11  Score=119.61  Aligned_cols=145  Identities=21%  Similarity=0.358  Sum_probs=87.1

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHH-HHHHHcCCeEEEEeccCCchh-------------HHH---------HHHHhhhhcCC
Q 011624          184 TVILL-AGLQGVGKTTVSAKLA-NYLKKQGKSCMLVAGDVYRPA-------------AID---------QLVILGEQVGV  239 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA-~~L~~~G~kVlLId~D~~rp~-------------aid---------ql~~~~~~~gv  239 (481)
                      ++|.+ +|+||+||||++++|+ ..++.+|++|+++|+|+.-+.             ..+         +...+....|+
T Consensus         3 ~~Iav~SgKGGvGKTtitanlga~~~~~~~k~V~~iDaD~g~~nL~~~~g~~~~~~~l~dvL~~~~~~~Di~~~~~~~gl   82 (262)
T COG0455           3 KVIAVVSGKGGVGKTTITANLGAALAALGGKVVLLIDADLGLGNLSLLLGVESKPTTLHDVLAGEASIEDIIYETPQDGL   82 (262)
T ss_pred             EEEEEEecCCCccHHHHHHhHHHHHHhhCCCeEEEEecCCCCCcHHHHhCCCCCcccHHHHHhCCCCHhHeeeecCcCCE
Confidence            45555 6999999999999994 555566788899999986322             111         22122222566


Q ss_pred             CeecCCCCCCH-----HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC--cchHHHH
Q 011624          240 PVYTAGTEVKP-----SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA--MTGQEAA  312 (481)
Q Consensus       240 ~v~~~~~~~~~-----~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda--~~~~~~~  312 (481)
                      .+++.+.....     .+.....++.+. ..+|||||||++.++.+.  +..   +.   ..+.+++|...  ..-.++.
T Consensus        83 ~vipg~~~~~~~~~~~~~~~~~~~~~l~-~~~D~iliD~~aGl~~~~--~~~---~~---~sd~~viVt~pe~~si~~A~  153 (262)
T COG0455          83 YVLPGGSGLEDLAKLDPEDLEDVIKELE-ELYDYILIDTGAGLSRDT--LSF---IL---SSDELVIVTTPEPTSITDAY  153 (262)
T ss_pred             EEeeCCCChHHHhhcCHHHHHHHHHHHH-hcCCEEEEeCCCCccHHH--HHH---HH---hcCcEEEEeCCCcchHHHHH
Confidence            66665542211     122345566664 567999999998875332  222   11   12677888766  2234555


Q ss_pred             HHHHHh-hhcCCeeE--EEEcCCCCCCc
Q 011624          313 ALVTTF-NIEIGITG--AILTKLDGDSR  337 (481)
Q Consensus       313 ~~~~~f-~~~~~i~G--vIlnKvD~~~~  337 (481)
                      ...+-. .......+  +|+|++++...
T Consensus       154 ~~i~~~~~~~~~~~~~~vV~N~v~~~~e  181 (262)
T COG0455         154 KTIKILSKLGLDLLGRRVVLNRVRSTKE  181 (262)
T ss_pred             HHHHHHHHcCCccccceEEEEecccccc
Confidence            544322 22344556  99999985444

>cd03114 ArgK-like The function of this protein family is unkown

Probab=99.34  E-value=1.6e-11  Score=111.45  Aligned_cols=136  Identities=21%  Similarity=0.258  Sum_probs=80.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHH-------HHhhhhcCCCeecCCC---CCCHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQL-------VILGEQVGVPVYTAGT---EVKPSQIA  254 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql-------~~~~~~~gv~v~~~~~---~~~~~~~l  254 (481)
                      ++.+.|++|+||||++.+++.++.++|.+|+++++|+..+.....+       .......++.+.....   ...+....
T Consensus         1 ~i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (148)
T cd03114           1 VIGITGVPGAGKSTLIDALITALRARGKRVAVLAIDPSSPFSGGAILGDRIRMERHASDPGVFIRSLATRGFLGGLSRAT   80 (148)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeCCCCCCcccchhcCceEhhheecCCCceEEEcCCcCcccccchhH
Confidence            3678899999999999999999999999999999998654321111       0111111222222211   11122334


Q ss_pred             HHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHH--HhhhcCCeeEEEEcCC
Q 011624          255 KQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVT--TFNIEIGITGAILTKL  332 (481)
Q Consensus       255 ~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~--~f~~~~~i~GvIlnKv  332 (481)
                      .+.++.++..+||+|||||+|..+..   ..    +..  ..+.+++|+.+.. .++....+  .|. .  -.-+++||+
T Consensus        81 ~~~~~~~~~~~~D~iiIDtaG~~~~~---~~----~~~--~Ad~~ivv~tpe~-~D~y~~~k~~~~~-~--~~~~~~~k~  147 (148)
T cd03114          81 PEVIRVLDAAGFDVIIVETVGVGQSE---VD----IAS--MADTTVVVMAPGA-GDDIQAIKAGIME-I--ADIVVVNKA  147 (148)
T ss_pred             HHHHHHHHhcCCCEEEEECCccChhh---hh----HHH--hCCEEEEEECCCc-hhHHHHhhhhHhh-h--cCEEEEeCC
Confidence            45555554468999999998875321   11    111  1266777776642 23333333  232 1  245899998


Q ss_pred             C
Q 011624          333 D  333 (481)
Q Consensus       333 D  333 (481)
                      |
T Consensus       148 ~  148 (148)
T cd03114         148 D  148 (148)
T ss_pred             C
Confidence            7

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.

>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.32  E-value=2e-11  Score=120.44  Aligned_cols=41  Identities=34%  Similarity=0.426  Sum_probs=35.4

Q ss_pred             CEEEEE-EcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCc
Q 011624          183 PTVILL-AGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i-~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~r  223 (481)
                      +.+|.+ .-+|||||||++.+||.+|+ .+|+||++||+||+.
T Consensus         2 ~~iI~v~n~KGGvGKTT~a~nLa~~La~~~~~kVLliDlDpQ~   44 (259)
T COG1192           2 MKIIAVANQKGGVGKTTTAVNLAAALAKRGGKKVLLIDLDPQG   44 (259)
T ss_pred             CEEEEEEecCCCccHHHHHHHHHHHHHHhcCCcEEEEeCCCcc
Confidence            345655 57799999999999999999 566999999999985

>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=99.29  E-value=5.7e-12  Score=122.52  Aligned_cols=139  Identities=25%  Similarity=0.328  Sum_probs=84.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh---HH--H--HHHHhhhhcCCCeecCCCCCCHHH--
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA---AI--D--QLVILGEQVGVPVYTAGTEVKPSQ--  252 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~---ai--d--ql~~~~~~~gv~v~~~~~~~~~~~--  252 (481)
                      +..+|.++|+||+||||++..|+..|.++|++|.+++.||-.|-   ++  |  .+..+....|+.+.+..+......  
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls  107 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLS  107 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHHH
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCcc
Confidence            56799999999999999999999999999999999999986542   21  1  122444556777776655433333  


Q ss_pred             -HHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhhhcCCeeEEE
Q 011624          253 -IAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFNIEIGITGAI  328 (481)
Q Consensus       253 -~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~~~~~i~GvI  328 (481)
                       ...+++.-+...+||+|||+|.|..+.+...       ...  .|.+++|+.+..|.+..   +-+-++.     +-+|
T Consensus       108 ~~t~~~v~ll~aaG~D~IiiETVGvGQsE~~I-------~~~--aD~~v~v~~Pg~GD~iQ~~KaGimEia-----Di~v  173 (266)
T PF03308_consen  108 RATRDAVRLLDAAGFDVIIIETVGVGQSEVDI-------ADM--ADTVVLVLVPGLGDEIQAIKAGIMEIA-----DIFV  173 (266)
T ss_dssp             HHHHHHHHHHHHTT-SEEEEEEESSSTHHHHH-------HTT--SSEEEEEEESSTCCCCCTB-TTHHHH------SEEE
T ss_pred             HhHHHHHHHHHHcCCCEEEEeCCCCCccHHHH-------HHh--cCeEEEEecCCCccHHHHHhhhhhhhc-----cEEE
Confidence             3355566666679999999999988733222       111  26778887776553321   1112221     3489


Q ss_pred             EcCCCC
Q 011624          329 LTKLDG  334 (481)
Q Consensus       329 lnKvD~  334 (481)
                      +||.|.
T Consensus       174 VNKaD~  179 (266)
T PF03308_consen  174 VNKADR  179 (266)
T ss_dssp             EE--SH
T ss_pred             EeCCCh
Confidence            999993

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.

>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=99.28  E-value=2.2e-11  Score=118.72  Aligned_cols=173  Identities=23%  Similarity=0.272  Sum_probs=103.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc------------hhHHHHHHHhhh-------------hcC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR------------PAAIDQLVILGE-------------QVG  238 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r------------p~aidql~~~~~-------------~~g  238 (481)
                      +-|++.|++|.||||+++||+++|+++|+||++|-|||-.            |...+.++..+.             ..|
T Consensus         1 r~IAiYGKGGIGKST~~~Nlsaala~~G~kVl~iGCDPK~DST~~ll~g~~~~Tvld~~~~~~~~e~~~ledvv~~G~~g   80 (273)
T PF00142_consen    1 RKIAIYGKGGIGKSTTASNLSAALAEMGKKVLQIGCDPKADSTRLLLGGKAIPTVLDLLREKGSVEDLELEDVVKEGFKG   80 (273)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESSSSTSSCHHHTTSS-SBHHHHHHHHCTGGGS-HHHHSEEEGGG
T ss_pred             CeEEEEcCCCcccChhhhHHHHHHHhccceeeEecccCCCccceeccCCccchhHHHHHhhccccccCCCCcEEEeccCC
Confidence            3589999999999999999999999999999999999852            223444443332             124


Q ss_pred             CCeecCCCCC----CHHHH---HHHHHHHHH--cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC-cch
Q 011624          239 VPVYTAGTEV----KPSQI---AKQGLEEAK--KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA-MTG  308 (481)
Q Consensus       239 v~v~~~~~~~----~~~~~---l~~~l~~~~--~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda-~~~  308 (481)
                      +.+...+.+.    ....-   ..+.+++..  ..++|+|+.|..|..--. .+..-+    +.-..+++++|.+. .+.
T Consensus        81 i~CvEsGGPePGvGCaGRGI~~a~~~L~~~~~~~~~~D~v~yDVLGDVVCG-GFamPi----r~g~a~evyIVtSge~ms  155 (273)
T PF00142_consen   81 ILCVESGGPEPGVGCAGRGIITALELLEELGAYEDDYDFVLYDVLGDVVCG-GFAMPI----REGYAQEVYIVTSGEFMS  155 (273)
T ss_dssp             EEEEE---SCTTSSBHHHHHHHHHHHHHHTTTSTSTSSEEEEEEESSSSCT-TTTHHH----HTTS-SEEEEEEBSSHHH
T ss_pred             ceeeccCCCcccccccccchhhhhhhHHhhhhhhcCCceEEEEEEeeeEEe-eeehhh----hhccCCEEEEEecCcHHH
Confidence            4455443221    11122   234444432  245899999987654110 111112    11223788888877 333


Q ss_pred             -HHH---HHHHHHhhh--cCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          309 -QEA---AALVTTFNI--EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       309 -~~~---~~~~~~f~~--~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                       ..+   ..-++.|..  ..++.|+|+|..+.......+..+++..|.||  ++..|+.+.
T Consensus       156 lyAANNI~~~i~~~~~~g~~~l~GiI~N~r~~~~e~~~v~~fa~~~g~~i--~~~iPr~~~  214 (273)
T PF00142_consen  156 LYAANNICKAIKNFADRGGARLGGIICNSRNVDDEEEIVEDFAERIGTPI--IAFIPRSEI  214 (273)
T ss_dssp             HHHHHHHHHHHHHHCTTSS-EEEEEEEE-SSSTTHHHHHHHHHHHHTSEE--EEEE---HH
T ss_pred             HHHHHHHHHHHHHHhccCCCceEEEEecCCCCCCchHHHHHHHHHcCCcE--EEecCchHH
Confidence             222   333456643  35689999998876666777788999999999  777766654

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 ....

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=99.28  E-value=5.5e-11  Score=101.73  Aligned_cols=73  Identities=30%  Similarity=0.383  Sum_probs=56.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      |.+++++||+||||++.+||.++++. |++|+++|+|++++.                                      
T Consensus         2 i~~~~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d~~~~~--------------------------------------   43 (106)
T cd03111           2 IAFIGAKGGVGATTLAANLAVALAKEAGRRVLLVDLDLQFGD--------------------------------------   43 (106)
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHhcCCCcEEEEECCCCCCC--------------------------------------
Confidence            34456889999999999999999998 999999999998654                                      


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM  306 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~  306 (481)
                         |+|||||||.....  .. .   +..  ..+.+++|+++.
T Consensus        44 ---D~IIiDtpp~~~~~--~~-~---~l~--~aD~vlvvv~~~   75 (106)
T cd03111          44 ---DYVVVDLGRSLDEV--SL-A---ALD--QADRVFLVTQQD   75 (106)
T ss_pred             ---CEEEEeCCCCcCHH--HH-H---HHH--HcCeEEEEecCC
Confidence               89999999986421  11 1   122  137788888873

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=99.26  E-value=7.2e-11  Score=99.99  Aligned_cols=94  Identities=28%  Similarity=0.331  Sum_probs=66.1

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCC
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKN  265 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~  265 (481)
                      .+...+||+||||++.+||.+++++|.+|+++|+|++                                           
T Consensus         3 ~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~-------------------------------------------   39 (104)
T cd02042           3 AVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQ-------------------------------------------   39 (104)
T ss_pred             EEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCC-------------------------------------------
Confidence            3445679999999999999999999999999999987                                           


Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHH------HHHhhhcCCeeEEEEc
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAAL------VTTFNIEIGITGAILT  330 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~------~~~f~~~~~i~GvIln  330 (481)
                      ||+||||+||.....  ..    .+...  .+.+++++++...  ....+.      .+.+.....+.|+|+|
T Consensus        40 ~d~viiD~p~~~~~~--~~----~~l~~--ad~viv~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~vv~n  104 (104)
T cd02042          40 YDYIIIDTPPSLGLL--TR----NALAA--ADLVLIPVQPSPLDLDGLEKLLETLILEDRLNPDLDILGILPT  104 (104)
T ss_pred             CCEEEEeCcCCCCHH--HH----HHHHH--CCEEEEeccCCHHHHHHHHHHHHHHHHHHhcCCCCceEEEEeC
Confidence            899999999986421  11    12221  3778888887322  222222      2233445667788876

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon

Probab=99.26  E-value=1.3e-10  Score=113.15  Aligned_cols=142  Identities=23%  Similarity=0.205  Sum_probs=86.0

Q ss_pred             EEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc-------------hhHH------HHH--HHhhhhcCCCee
Q 011624          185 VILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR-------------PAAI------DQL--VILGEQVGVPVY  242 (481)
Q Consensus       185 VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r-------------p~ai------dql--~~~~~~~gv~v~  242 (481)
                      +|++.|. ||+||||++++||..|++.|++|++||+||+.             .+..      ..+  ..+....|+.++
T Consensus         3 ~iai~s~kGGvG~TTltAnLA~aL~~~G~~VlaID~dpqN~Lrlhfg~~~~~~~G~a~a~l~~~~W~~~~~~~~~g~~~L   82 (243)
T PF06564_consen    3 VIAIVSPKGGVGKTTLTANLAWALARLGESVLAIDLDPQNLLRLHFGLPLDDRDGWARALLDGADWQQAAYRYSDGVDFL   82 (243)
T ss_pred             EEEEecCCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCcHHHHHHhcCCCCcccccHHHHHhCCCCHHHHhhccCCCCEEE
Confidence            5666655 99999999999999999999999999999852             1110      011  122334577777


Q ss_pred             cCCCCCCH-----------HHHHHHHHHHHH-cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH
Q 011624          243 TAGTEVKP-----------SQIAKQGLEEAK-KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE  310 (481)
Q Consensus       243 ~~~~~~~~-----------~~~l~~~l~~~~-~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~  310 (481)
                      +.+.-...           ...+.+.+..+. ...+|+||||||+....   ...+   ....  .+.++.|+.+-.. .
T Consensus        83 PfG~l~~~~~~~~~~l~~~~~~l~~~l~~l~~~~~~~~iliD~P~g~~~---~~~~---al~~--aD~vL~V~~~Da~-s  153 (243)
T PF06564_consen   83 PFGQLTEAEREAFEQLAQDPQWLARALAALKALGPYDWILIDTPPGPSP---YTRQ---ALAA--ADLVLVVVNPDAA-S  153 (243)
T ss_pred             cCCCCCHHHHHHHHHhhcCHHHHHHHHHHHhccCCCCEEEEeCCCCCcH---HHHH---HHHh--CCeEEEEeCCCHH-H
Confidence            66532111           122345566665 46799999999987542   2222   1111  2667777766332 1


Q ss_pred             HHHHHH-HhhhcCCeeEEEEcCCCCCCch
Q 011624          311 AAALVT-TFNIEIGITGAILTKLDGDSRG  338 (481)
Q Consensus       311 ~~~~~~-~f~~~~~i~GvIlnKvD~~~~~  338 (481)
                      ....-+ .+..   -..+++|++|..+..
T Consensus       154 ~~~L~q~~l~~---~~~~liNq~~~~s~l  179 (243)
T PF06564_consen  154 HARLHQRALPA---GHRFLINQYDPASQL  179 (243)
T ss_pred             HHHHHHhcccC---CcEEEEeccCccchH
Confidence            112111 1221   247899999977664

It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PF09140 MipZ: ATPase MipZ; InterPro: IPR015223 Cell division in bacteria is facilitated by a polymeric ring structure, the Z ring, composed of tubulin-like FtsZ protofilaments

Probab=99.26  E-value=1e-11  Score=119.97  Aligned_cols=93  Identities=24%  Similarity=0.373  Sum_probs=52.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH---HHHHHHhhhhcCCCeecC-----CC-----CCC-H
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA---IDQLVILGEQVGVPVYTA-----GT-----EVK-P  250 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a---idql~~~~~~~gv~v~~~-----~~-----~~~-~  250 (481)
                      |++.+||||+||||++.+||.+|+++|++|.++|+|.+.|..   .+.-..+....++++-..     ..     ... +
T Consensus         3 IvV~sgKGGvGKSTva~~lA~aLa~~G~kVg~lD~Di~q~S~~r~l~nr~~~~~~~gi~Lp~p~~~~L~~~~~~v~~~~~   82 (261)
T PF09140_consen    3 IVVGSGKGGVGKSTVAVNLAVALARMGKKVGLLDLDIRQPSLPRYLENRAAWAQRDGIELPVPSHFFLPPDQASVWEGEN   82 (261)
T ss_dssp             EEEE-SSTTTTHHHHHHHHHHHHHCTT--EEEEE--TTT-HHHHHHHHHHHHHHHHT------EEE-SSSHHHHTTS-HH
T ss_pred             EEEecCCCCCcHHHHHHHHHHHHHHCCCeEEEEecCCCCCCHHHHHhccchhHHhcCcccCCccceeecccccccccCcc
Confidence            444569999999999999999999999999999999987543   222222222233322111     00     111 1


Q ss_pred             H--HHHHHHHHHHHcCCCcEEEEcCCCCcc
Q 011624          251 S--QIAKQGLEEAKKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       251 ~--~~l~~~l~~~~~~~~D~VIIDt~G~~~  278 (481)
                      .  ..+.+++..+. .++||+||||||...
T Consensus        83 ~~~~~L~q~l~~l~-~~~DfLVID~PGtd~  111 (261)
T PF09140_consen   83 VEDKRLEQALADLE-GDLDFLVIDTPGTDD  111 (261)
T ss_dssp             HHHHHHHHHHHHHH-HH-SEEEEEE-SSS-
T ss_pred             hhHHHHHHHHHHHh-cCCCEEEEeCCCCCc
Confidence            1  24556677764 689999999998743

Correct positioning of the division plane is a prerequisite for the generation of daughter cells with a normal chromosome complement. In Caulobacter crescentus MipZ, an essential protein, coordinates and regulates the assembly of the FtsZ cytokinetic ring during cell division. MipZ, forms a complex with the partitioning protein ParB near the origin of replication and localizes with the duplicated origin regions to the cell poles. MipZ also directly interferes with FtsZ polymerisation, thereby restricting FtsZ ring formation to mid-cell, the region of lowest MipZ concentration. In eukaryotes members of this entry belong to the Mrp/NBP35 ATP-binding protein family, and specifically the NUBP2/CFD1 subfamily. This includes the cytosolic Fe-S cluster assembly factor Cfd1, which is a component of the cytosolic iron-sulphur (Fe/S) protein assembly machinery. This protein is required for maturation of extra-mitochondrial Fe/S proteins. It may bind and transfer a labile 4Fe-4S cluster to target apoproteins. Cfd1 is also required for biogenesis and export of both ribosomal subunits, suggesting a role in assembly of the Fe/S clusters in RLI1, a protein which performs rRNA processing and ribosome export. ; PDB: 2XIT_B 2XJ4_A 2XJ9_A.

>PRK00090 bioD dithiobiotin synthetase; Reviewed

Probab=99.23  E-value=2.4e-10  Score=110.24  Aligned_cols=170  Identities=18%  Similarity=0.283  Sum_probs=97.4

Q ss_pred             EEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEe---ccCCchhHHHHHHHhhhhcCCCee-------cCCC--------
Q 011624          186 ILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVA---GDVYRPAAIDQLVILGEQVGVPVY-------TAGT--------  246 (481)
Q Consensus       186 I~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId---~D~~rp~aidql~~~~~~~gv~v~-------~~~~--------  246 (481)
                      ++++|. +|+|||++++.|+.+|+++|++|.+.-   ........-.....+....+++..       ....        
T Consensus         2 i~I~~t~t~~GKT~vs~~L~~~l~~~g~~v~~~KPv~~g~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~sp~~a~   81 (222)
T PRK00090          2 LFVTGTDTDVGKTVVTAALAQALREAGYSVAGYKPVQSGCEETDRNGDALALQRLSGLPLDYEDVNPYRFEEPLSPHLAA   81 (222)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHHcCCceEEEeeEecCCCCCCCcHHHHHHHHHcCCCCChhhcCceeeCCCCCHHHHH
Confidence            455555 999999999999999999999998432   011100000012223333332210       0011        


Q ss_pred             -----CCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHH
Q 011624          247 -----EVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVT  316 (481)
Q Consensus       247 -----~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~  316 (481)
                           ..+. +.+.+.++.+. ++||+|||||+|....   ......++.....    .++++|+++..+  .++...++
T Consensus        82 ~~~~~~~~~-~~i~~~~~~l~-~~~D~viIEg~gg~~~~~~~~~~~adl~~~l~----~pvilV~~~~~~~i~~~~~~i~  155 (222)
T PRK00090         82 ALEGVAIDL-EKISAALRRLA-QQYDLVLVEGAGGLLVPLTEDLTLADLAKQLQ----LPVILVVGVKLGCINHTLLTLE  155 (222)
T ss_pred             HHhCCCCCH-HHHHHHHHHHH-hhCCEEEEECCCceeccCCCCCcHHHHHHHhC----CCEEEEECCCCcHHHHHHHHHH
Confidence                 1112 23445566554 7899999999987532   1123344433333    788999987443  12222222


Q ss_pred             Hh-hhcCCeeEEEEcCCCCC-Cc-h-hHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          317 TF-NIEIGITGAILTKLDGD-SR-G-GAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       317 ~f-~~~~~i~GvIlnKvD~~-~~-~-g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                      .+ ...+.+.|+|+|+++.. .. . .....+.+.+++|+  +|..|+.++
T Consensus       156 ~l~~~~~~i~gvIlN~~~~~~~~~~~~~~~~l~~~~gi~v--lg~ip~~~~  204 (222)
T PRK00090        156 AIRARGLPLAGWVANGIPPEPGLRHAENLATLERLLPAPL--LGELPYLAE  204 (222)
T ss_pred             HHHHCCCCeEEEEEccCCCcchhHHHHHHHHHHHHcCCCe--EEecCCCCC
Confidence            22 23567899999999865 22 2 23345666789999  888887643

>COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]

Probab=99.21  E-value=2e-10  Score=109.12  Aligned_cols=174  Identities=25%  Similarity=0.293  Sum_probs=110.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc------------hhHHHHHHHhhh--h-----------cC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR------------PAAIDQLVILGE--Q-----------VG  238 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r------------p~aidql~~~~~--~-----------~g  238 (481)
                      +-|++.|++|-|||||+.|++++|++.|+||++|-|||-.            |...|.++....  .           -|
T Consensus         2 r~iAiYGKGGIGKSTts~N~aAAla~~GkkVl~vGCDPKaDSTr~Llgg~~ipTVld~lre~~~~e~~~ledvi~~Gf~G   81 (278)
T COG1348           2 RQIAIYGKGGIGKSTTSQNLAAALAELGKKVLIVGCDPKADSTRLLLGGKAIPTVLDTLREKGEVEDLELEDVIFTGFGG   81 (278)
T ss_pred             ceEEEecCCCcCcchhHHHHHHHHHHcCCeEEEEcCCCCcchHHHHhCCcccchHHHHHHhcCccccCCHHHheeccCCc
Confidence            3688999999999999999999999999999999999852            334455443332  1           13


Q ss_pred             CCeecCCCCC-----CHHHH--HHHHHHHHHc--CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC-cch
Q 011624          239 VPVYTAGTEV-----KPSQI--AKQGLEEAKK--KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA-MTG  308 (481)
Q Consensus       239 v~v~~~~~~~-----~~~~~--l~~~l~~~~~--~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda-~~~  308 (481)
                      +.+...+.+.     ....+  ..+.++++..  ...|+|+.|..|..-     ..-.+.-++.-..+++++|.+. .+.
T Consensus        82 v~CVEsGGPepGvGCAGRGVitai~~Le~lgaf~~~~DvviyDVLGDVV-----CGGFAmPiReg~AdeiyIVtSge~Ma  156 (278)
T COG1348          82 VKCVESGGPEPGVGCAGRGVITAINLLEELGAFEEDLDVVIYDVLGDVV-----CGGFAMPIREGYADEIYIVTSGEMMA  156 (278)
T ss_pred             eEEeecCCCCCCCCcccchHHHHHHHHHHhCCccccCCEEEEeccCcee-----ecceeeehhcccCcEEEEEecCchHH
Confidence            4444433211     11111  2344444421  345999999987641     1111111222234788999887 333


Q ss_pred             -HHHHHH---HHHhhh--cCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCC
Q 011624          309 -QEAAAL---VTTFNI--EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDL  364 (481)
Q Consensus       309 -~~~~~~---~~~f~~--~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl  364 (481)
                       ..+-++   ++.|..  .+++.|+|.|.-........+..+++..|.|+  +...|+.+.+
T Consensus       157 lYAANNI~kgi~k~a~~~~~rLgGiIcNsr~~~~e~e~v~~fa~~igt~l--i~~vPr~~iv  216 (278)
T COG1348         157 LYAANNIAKGIRKYAKTGGVRLGGIICNSRSVDRERELVEAFAERLGTQL--IHFVPRDNIV  216 (278)
T ss_pred             HHHHHHHHHHHHHHhhcCCcceeeEEecCCCcccHHHHHHHHHHHhCCce--EeeccchHHH
Confidence             333333   355643  45689999998876666677788999999999  7777666543

>PRK13768 GTPase; Provisional

Probab=99.20  E-value=1.6e-10  Score=114.08  Aligned_cols=152  Identities=22%  Similarity=0.318  Sum_probs=83.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-------HHHHHHhhh---hcCC-C---eecCCCCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-------IDQLVILGE---QVGV-P---VYTAGTEV  248 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-------idql~~~~~---~~gv-~---v~~~~~~~  248 (481)
                      +.+++++|++|+||||++.+++.+++.+|++|++|+.|+.....       +..+....+   ..++ |   .+... ..
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~~D~~~~~~~~~~~~~i~~~~~~~~v~~~~~l~p~~~~~~~~-~~   80 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVNLDPAVEYLPYTPDFDVRDYVTAREIMKKYGLGPNGALIASV-DL   80 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHHHHHHhcCCceEEEECCCccccCCCCCCcchhhheeHHHHHHHcCCCCchHHHHHH-HH
Confidence            46889999999999999999999999999999999999863110       111101111   1111 0   10000 00


Q ss_pred             CHHHHHHHHHHHHHcCCCcEEEEcCCCCcccc--HHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHH-----HHh
Q 011624          249 KPSQIAKQGLEEAKKKNVDVVIVDTAGRLQID--KAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALV-----TTF  318 (481)
Q Consensus       249 ~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d--~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~-----~~f  318 (481)
                       ....+......+...+.|++||||||.....  ......+.+......++.+++|+|+...   .+.....     ...
T Consensus        81 -~~~~~~~l~~~l~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~  159 (253)
T PRK13768         81 -LLTKADEIKEEIESLDADYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL  159 (253)
T ss_pred             -HHHHHHHHHHHHHhcCCCEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH
Confidence             1112233344444456799999999976431  1122222222221115788999999433   2221111     111


Q ss_pred             hhcCCeeEEEEcCCCCCCc
Q 011624          319 NIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       319 ~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.+ .-+|+||+|....
T Consensus       160 ~~~~~-~i~v~nK~D~~~~  177 (253)
T PRK13768        160 RLGLP-QIPVLNKADLLSE  177 (253)
T ss_pred             HcCCC-EEEEEEhHhhcCc
Confidence            21222 3478999997543

>PF02978 SRP_SPB: Signal peptide binding domain; InterPro: IPR004125 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=99.18  E-value=3.9e-12  Score=108.23  Aligned_cols=73  Identities=37%  Similarity=0.615  Sum_probs=63.2

Q ss_pred             cccHHHHHHHHhhhhccCCccccccCCCCCCCc----c-ccccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          409 NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI----T-PAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       409 ~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~----~-~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      +||++||++|++++.+||+++++++++||+++.    . .+....++..|+++++||+|||++|+.+|.++++||++|
T Consensus         1 ~F~l~Df~~Q~~~i~kmG~l~~i~~miPG~~~~~~~~~~~~~~~~~~~~lk~~~~Ii~SMT~~Er~~p~ll~~sR~~R   78 (104)
T PF02978_consen    1 KFTLRDFLEQLQQIKKMGPLSKIMSMIPGMGNMMESLPSEQEEEEDEKKLKRMEAIIDSMTPEERDNPKLLNESRRRR   78 (104)
T ss_dssp             SSCHHHHHHHHHHHHHTSTTHHHHTTSSSSSSS-SSTTCSSSSHHHHHHHHHHHHHHTTSBHHHHHCGGGHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHCcCccccccccchhcchhhhHHHHHHHHHHHHCcCHHHHhCccccchHHHHH
Confidence            599999999999999999999999999998765    2 112234567789999999999999999999999998876

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 M 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. 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: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle; PDB: 2FFH_B 3NDB_B 2V3C_C 1QZW_G 1QZX_B 3KL4_A 2JQE_A 1HQ1_A 1RY1_W 1MFQ_C ....

>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=99.14  E-value=2.8e-10  Score=115.20  Aligned_cols=40  Identities=43%  Similarity=0.622  Sum_probs=36.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++++++|+|||||||+++.+|.+++++|++|++++.||-.
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa~   41 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLVSTDPAH   41 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEESSTTT
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEeecCCCc
Confidence            5899999999999999999999999999999999999853

...

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.08  E-value=5.3e-10  Score=108.51  Aligned_cols=124  Identities=21%  Similarity=0.231  Sum_probs=79.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC------c--------hhHHHHHHHhhhhcCCCee-cCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY------R--------PAAIDQLVILGEQVGVPVY-TAG  245 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~------r--------p~aidql~~~~~~~gv~v~-~~~  245 (481)
                      ++|.+|+++|..|+||||++..|-.++..++.+..+|..||-      -        ..|.+-++.|....+-.+. .+.
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~TsLN   96 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIVTSLN   96 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchhhhHH
Confidence            468899999999999999999999999999999999999963      1        1123333333322211111 011


Q ss_pred             CCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccc--cHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          246 TEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI--DKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       246 ~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~--d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      .+...-+.+...+++. ...+|+|||||||.+..  +.++-.-+.+.+....|.-+++|+|.
T Consensus        97 LF~tk~dqv~~~iek~-~~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt  157 (366)
T KOG1532|consen   97 LFATKFDQVIELIEKR-AEEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDT  157 (366)
T ss_pred             HHHHHHHHHHHHHHHh-hcccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecC
Confidence            1111122233555554 36799999999998754  33333333334455567888999997

>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A

Probab=99.06  E-value=4.8e-09  Score=99.47  Aligned_cols=166  Identities=25%  Similarity=0.400  Sum_probs=99.0

Q ss_pred             EEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-----HHHHHHhhhhcCCCe-------ecCCCCCCHH
Q 011624          185 VILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-----IDQLVILGEQVGVPV-------YTAGTEVKPS  251 (481)
Q Consensus       185 VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-----idql~~~~~~~gv~v-------~~~~~~~~~~  251 (481)
                      .+.++|. +|+|||+++..|+.+|.++|.+|.     .|||-.     -+......+..+...       +.......|.
T Consensus         2 ~i~I~~t~t~vGKT~vslgL~~~l~~~g~~v~-----~~KPi~~~~~~d~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   76 (199)
T PF13500_consen    2 TIFITGTDTGVGKTVVSLGLARALRRRGIKVG-----YFKPIQTGPEDDEDAELIRELFGLSEPPDDPSPYTFDEPASPH   76 (199)
T ss_dssp             EEEEEESSSSSSHHHHHHHHHHHHHHTTSEEE-----EEEEEEESCCCSSHHHHHHHHCCTCCCHHHHECEEESSSS-HH
T ss_pred             EEEEEeCCCCCCHHHHHHHHHHHHHhCCCceE-----EEeeeEecCCCCchHHHHHHHhCCCcccccccccccCcccCHH
Confidence            3555555 999999999999999999999998     444311     011112222333221       1111122221


Q ss_pred             HH---------HHHH-HHHHHcCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHH
Q 011624          252 QI---------AKQG-LEEAKKKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVT  316 (481)
Q Consensus       252 ~~---------l~~~-l~~~~~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~  316 (481)
                      -.         +.+. ++++ .+++|++||+++|....   ...+..++++.+.    .++++|+++..+  .++...++
T Consensus        77 ~~~~~~~~~~~~~~i~~~~l-~~~~D~vlVEGag~~~~~~~~~~~n~dia~~L~----a~vIlV~~~~~g~i~~~l~~~~  151 (199)
T PF13500_consen   77 LAAELEGVDIDLERIIYKEL-AEEYDVVLVEGAGGLMVPIFSGDLNADIAKALG----APVILVASGRLGTINHTLLTIE  151 (199)
T ss_dssp             HHHHHHT----HHHHHHHHC-HTTTCEEEEEESSSTTSECCTTEEHHHHHHHHT-----EEEEEEESSTTHHHHHHHHHH
T ss_pred             HHhhccCCcccHHHHHHHHH-hhcCCEEEEeCCcccCcccccChHHHHHHHHcC----CCEEEEeCCCCCCHHHHHHHHH
Confidence            11         1111 1333 36899999999987654   3355667666666    789999998444  33333334


Q ss_pred             Hh-hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCC
Q 011624          317 TF-NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLE  365 (481)
Q Consensus       317 ~f-~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~  365 (481)
                      .+ ..+.++.|+|+|+++..   ..+..+.+.+++|+  +|..|...++.
T Consensus       152 ~~~~~g~~v~GvI~N~~~~~---~~~~~l~~~~~i~v--lg~iP~~~~L~  196 (199)
T PF13500_consen  152 ALKQRGIRVLGVILNRVPEP---ENLEALREKSGIPV--LGVIPEDPDLS  196 (199)
T ss_dssp             HHHCTTS-EEEEEEEECTCC---HHHHHHHHHHCCEE--CE---SSTT--
T ss_pred             HHHhcCCCEEEEEEECCCCH---HHHHHHHHhCCCCE--EEECCCCcccc
Confidence            33 34678999999998765   35566777889999  89988887754

...

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=99.03  E-value=2.4e-09  Score=104.38  Aligned_cols=85  Identities=25%  Similarity=0.362  Sum_probs=56.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h----HHHHHHHHHhhhcCCeeEEEEcCCCCCCch
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G----QEAAALVTTFNIEIGITGAILTKLDGDSRG  338 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~----~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~  338 (481)
                      +..|++|||||+..+-  ..++.+      ...|.+++|..++. +    ..+++.++.|+-   ..++|+||.+.... 
T Consensus       162 E~~~~~IIDsaaG~gC--pVi~sl------~~aD~ai~VTEPTp~glhD~kr~~el~~~f~i---p~~iViNr~~~g~s-  229 (284)
T COG1149         162 ELADLLIIDSAAGTGC--PVIASL------KGADLAILVTEPTPFGLHDLKRALELVEHFGI---PTGIVINRYNLGDS-  229 (284)
T ss_pred             hhcceeEEecCCCCCC--hHHHhh------ccCCEEEEEecCCccchhHHHHHHHHHHHhCC---ceEEEEecCCCCch-
Confidence            3379999999987642  233332      23477888887743 3    334455555542   37899999943222 


Q ss_pred             hHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          339 GAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       339 g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                       .+...++..|+|+  ++..|..++
T Consensus       230 -~ie~~~~e~gi~i--l~~IPyd~~  251 (284)
T COG1149         230 -EIEEYCEEEGIPI--LGEIPYDKD  251 (284)
T ss_pred             -HHHHHHHHcCCCe--eEECCcchh
Confidence             6788999999999  777766655

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=99.02  E-value=6.3e-10  Score=112.90  Aligned_cols=40  Identities=38%  Similarity=0.566  Sum_probs=37.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .++++++|+|||||||+++++|.++++.|++|++|..||-
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g~kvLlvStDPA   41 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESGKKVLLVSTDPA   41 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcCCcEEEEEeCCC
Confidence            4799999999999999999999999999999999999974

>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=98.99  E-value=3.4e-09  Score=92.26  Aligned_cols=88  Identities=27%  Similarity=0.367  Sum_probs=60.0

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCe-ecCC--------CCCCHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPV-YTAG--------TEVKPSQIAKQ  256 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v-~~~~--------~~~~~~~~l~~  256 (481)
                      ++++|++|+||||++.+|+.+|+++|++|+++|+|+  +...+.+....  .+.+. +..+        .........++
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~--~~~~~~~~~~~--~~~~~~i~~g~~~~~~~g~~~~~n~~~~~   77 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP--DDLPERLSVEV--GEIKLLLVMGMGRPGGEGCYCPENALLNA   77 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc--hhhHHHHhhcc--CCceEEEEecccccCCCCCEehhhHHHHH
Confidence            678999999999999999999999999999999999  33333321111  11111 1111        11111135667


Q ss_pred             HHHHHHcCCCcEEEEcCCCCc
Q 011624          257 GLEEAKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       257 ~l~~~~~~~~D~VIIDt~G~~  277 (481)
                      .+..+...++|++++||++.+
T Consensus        78 ~l~~~~~~~~~~vivDt~ag~   98 (116)
T cd02034          78 LLRHLVLTRDEQVVVDTEAGL   98 (116)
T ss_pred             HHHHeEccCCCEEEEecHHHH
Confidence            777764578999999998765

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.

>TIGR00347 bioD dethiobiotin synthase

Probab=98.96  E-value=5e-09  Score=96.32  Aligned_cols=134  Identities=25%  Similarity=0.242  Sum_probs=74.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc---hhH-HHHHHHhhh-h--cC--CCeecCCC------------CCC
Q 011624          191 LQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR---PAA-IDQLVILGE-Q--VG--VPVYTAGT------------EVK  249 (481)
Q Consensus       191 ~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r---p~a-idql~~~~~-~--~g--v~v~~~~~------------~~~  249 (481)
                      .+|+||||++.+|+.+|+++|++|.++......   .+. .+.+..+.. .  ..  .++.....            ...
T Consensus         6 ~~~~GKT~va~~L~~~l~~~g~~V~~~kP~~~~~~~~d~d~~~i~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~   85 (166)
T TIGR00347         6 DTGVGKTVASSALAAKLKKAGYSVGYYKPVQTGIEKTNSDALLLQNISGTALDWDEVNPYAFALPLSPHIAADQEGRPID   85 (166)
T ss_pred             CCCccHHHHHHHHHHHHHHCCCcEEEEEeeeeCCCCCchHHHHHHHHcCCCCchhccCCeeeCCCCChHHHHHHhCCCCC
Confidence            389999999999999999999999986211111   000 011111000 0  00  00110000            011


Q ss_pred             HHHHHHHHHHHHHcCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhh-hcCC
Q 011624          250 PSQIAKQGLEEAKKKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFN-IEIG  323 (481)
Q Consensus       250 ~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~-~~~~  323 (481)
                      . +.+.+.++.+. ++||+|||||||....   +......+.....    .++++|++...+  .++......+. ...+
T Consensus        86 ~-~~i~~~~~~l~-~~~D~viid~~g~~~~~~~~~~~~~dl~~~~~----~~vilV~~~~~~~~~~~~~~~~~l~~~~~~  159 (166)
T TIGR00347        86 L-EELSKHLRTLE-QKYDFVLVEGAGGLCVPITEEYTTADLIKLLQ----LPVILVVRVKLGTINHTLLTVEHARQTGLT  159 (166)
T ss_pred             H-HHHHHHHHHHH-hcCCEEEEEcCCccccCCCCCCcHHHHHHHhC----CCEEEEECCCCcHHHHHHHHHHHHHHCCCC
Confidence            1 12345566654 7899999999986542   2223444443333    789999988443  22223333343 3578


Q ss_pred             eeEEEEc
Q 011624          324 ITGAILT  330 (481)
Q Consensus       324 i~GvIln  330 (481)
                      +.|+|+|
T Consensus       160 i~gvv~N  166 (166)
T TIGR00347       160 LAGVILN  166 (166)
T ss_pred             eEEEEeC
Confidence            9999997

Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.

>PRK12374 putative dithiobiotin synthetase; Provisional

Probab=98.92  E-value=4.2e-08  Score=95.50  Aligned_cols=165  Identities=21%  Similarity=0.293  Sum_probs=96.6

Q ss_pred             EEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH-----------HHHHHhhhhcCCCe----e---cCCC
Q 011624          186 ILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI-----------DQLVILGEQVGVPV----Y---TAGT  246 (481)
Q Consensus       186 I~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai-----------dql~~~~~~~gv~v----~---~~~~  246 (481)
                      +.++|. +|+|||++++.|+.+|.++|.+|.     .|||-..           +....+.+..+.+.    .   ....
T Consensus         5 ifIt~t~t~vGKT~vt~~L~~~l~~~g~~v~-----~~KPi~~g~~~~~~~~~~~D~~~l~~~~~~~~~~~~~~p~~~~~   79 (231)
T PRK12374          5 FFITGTDTSVGKTVVSRALLQALASQGKTVA-----GYKPVAKGSKETPEGLRNKDALVLQSVSSIELPYEAVNPIALSE   79 (231)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEE-----EECccccCCccCCCCCchHHHHHHHHhcCCCCCHHhccCeecCC
Confidence            556655 999999999999999999999999     5554210           11112223233211    0   0111


Q ss_pred             ---------CCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcchH--HHH
Q 011624          247 ---------EVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAA  312 (481)
Q Consensus       247 ---------~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~  312 (481)
                               ..+..+ +.+.++.+. +++|+||||++|.+..   +...+.++....    ..++++|++...+.  .+.
T Consensus        80 ~~a~~~~~~~i~~~~-i~~~~~~l~-~~~D~VlVEGaGgl~~p~~~~~~~~d~~~~~----~~pvilV~~~~lg~in~~l  153 (231)
T PRK12374         80 EESSVAHSCPINYTL-MSNGLANLS-EKVDHVVVEGTGGWRSLMNDLRPLSEWVVQE----QLPVLMVVGIQEGCINHAL  153 (231)
T ss_pred             CcChHHcCCcCCHHH-HHHHHHHHH-hhCCEEEEECCCCcceeccCcccHHHHHHHh----CCCEEEEECCCcChHHHHH
Confidence                     112222 344555554 7899999999985533   112333333332    37889999775442  222


Q ss_pred             HHHHHh-hhcCCeeEEEEcCCCCCCch--hHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          313 ALVTTF-NIEIGITGAILTKLDGDSRG--GAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       313 ~~~~~f-~~~~~i~GvIlnKvD~~~~~--g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                      -.++.+ ...+.+.|+|+|+++.....  .....+.+..+.|+  +|..|...+
T Consensus       154 Lt~~~l~~~~~~~~gvV~N~~~~~~~~~~~~~~~l~~~~~~~~--lg~iP~~~~  205 (231)
T PRK12374        154 LTAQAIANDGLPLIGWVANRINPGLAHYAEIIDVLGKKLPAPL--IGELPYLPR  205 (231)
T ss_pred             HHHHHHHhCCCcEEEEEEeCccCchhhhhhHHHHHHHhcCCCE--EEEeCCCCC
Confidence            222333 34678999999999864321  12334455678888  888776654

>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D

Probab=98.91  E-value=5e-09  Score=94.90  Aligned_cols=115  Identities=25%  Similarity=0.323  Sum_probs=69.7

Q ss_pred             EEEEEEc-CCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH------------HH---------------HHHHhhh
Q 011624          184 TVILLAG-LQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA------------ID---------------QLVILGE  235 (481)
Q Consensus       184 ~VI~i~G-~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a------------id---------------ql~~~~~  235 (481)
                      ++|.++| .+|+||||++.+||..|+++|++|++||+|.+.+..            .+               .+..+..
T Consensus         1 k~i~v~s~~~g~G~t~~a~~lA~~la~~~~~Vllid~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~l~~~~~   80 (157)
T PF13614_consen    1 KVIAVWSPKGGVGKTTLALNLAAALARKGKKVLLIDFDFFSPSLSRLLGIEPERGLSDLLYDKKSGDENLSERDLSDHIY   80 (157)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTT-EEEEE--SSS-HHHHHTTSSSSSSHHHHHTTSHC--C-HHHSHHHHHCE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHhcCCCeEEEECCCCCCCcccccccccccchhhHhcCccccccchhhhhHHHHhe
Confidence            4777877 499999999999999999999999999999876532            11               1111111


Q ss_pred             ---hcCCCeecCCCCCCHH-----HHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc
Q 011624          236 ---QVGVPVYTAGTEVKPS-----QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM  306 (481)
Q Consensus       236 ---~~gv~v~~~~~~~~~~-----~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~  306 (481)
                         ..++.++.......+.     +.+.+.++.++ +.||+||||+|+.......  ..   +..  ..+.+++|+.+.
T Consensus        81 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~li~~l~-~~yd~IivD~~~~~~~~~~--~~---~l~--~~D~ii~v~~~~  151 (157)
T PF13614_consen   81 SDAHDGLDLLPPPSSPEDLEELTPEDVEELIDALK-EHYDYIIVDLPSSLSNPDT--QA---VLE--LADKIILVVRPD  151 (157)
T ss_dssp             EESSTTEEEE--SSSSHHHHHHTSHHHHHHHHHHH-HHSSEEEEEEESTTTHTHH--HH---HHT--THSEEEEEEETT
T ss_pred             eccCCCeEEecCCCCCCchhhcCHHHHHHHHHHHH-HcCCEEEEECcCCccHHHH--HH---HHH--HCCEEEEEECCC
Confidence               1233334333322222     23466777775 5899999999988753211  11   111  137888888773

>COG1159 Era GTPase [General function prediction only]

Probab=98.90  E-value=8.7e-09  Score=101.85  Aligned_cols=192  Identities=18%  Similarity=0.250  Sum_probs=112.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +...++++|.+.|||||+..+|.      |.||.+++--++        .+.....|+...                   
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~------G~KisIvS~k~Q--------TTR~~I~GI~t~-------------------   51 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALV------GQKISIVSPKPQ--------TTRNRIRGIVTT-------------------   51 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHh------cCceEeecCCcc--------hhhhheeEEEEc-------------------
Confidence            34588999999999999999997      999998876665        233333344321                   


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhh--ccCCceEEEEEeCcc--hHHHHHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKR--VLNPTEVLLVVDAMT--GQEAAALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~--~~~p~~vvLVvda~~--~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                        +++.+|+|||||.......+-..|.+...  .-..|-+++|+|+..  +.....++..+...--..-+++||+|....
T Consensus        52 --~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d~~il~~lk~~~~pvil~iNKID~~~~  129 (298)
T COG1159          52 --DNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFILEQLKKTKTPVILVVNKIDKVKP  129 (298)
T ss_pred             --CCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccHHHHHHHHhhcCCCeEEEEEccccCCc
Confidence              47789999999987553333222222221  123478899999944  322223333333311234588999997665


Q ss_pred             hhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHH-------hhchhHHHHHHHhhhcccc
Q 011624          338 GGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQE-------VMQQEDAEEMQKKIMSANF  410 (481)
Q Consensus       338 ~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e-------~~~~~~~~~~~~k~~~~~~  410 (481)
                      ...++.+.+....-..|.       ++.+      .|..-|. .+..+.+...+       .++++...+...+++..++
T Consensus       130 ~~~l~~~~~~~~~~~~f~-------~ivp------iSA~~g~-n~~~L~~~i~~~Lpeg~~~yp~d~itD~~~rf~~aEi  195 (298)
T COG1159         130 KTVLLKLIAFLKKLLPFK-------EIVP------ISALKGD-NVDTLLEIIKEYLPEGPWYYPEDQITDRPERFLAAEI  195 (298)
T ss_pred             HHHHHHHHHHHHhhCCcc-------eEEE------eeccccC-CHHHHHHHHHHhCCCCCCcCChhhccCChHHHHHHHH
Confidence            543334333322111111       0111      1111111 12222222233       3356777888899999999


Q ss_pred             cHHHHHHHHhhh
Q 011624          411 DFNDFLKQTRTV  422 (481)
Q Consensus       411 dl~~l~~~~~~~  422 (481)
                      .+|+++..+++-
T Consensus       196 iREk~~~~l~eE  207 (298)
T COG1159         196 IREKLLLLLREE  207 (298)
T ss_pred             HHHHHHHhcccc
Confidence            999999988764

>PRK05632 phosphate acetyltransferase; Reviewed

Probab=98.86  E-value=3.2e-08  Score=110.72  Aligned_cols=172  Identities=25%  Similarity=0.260  Sum_probs=99.7

Q ss_pred             EEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          186 ILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       186 I~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      +.++|. +|+|||+++..|+.+|.++|++|.     .|||...+.+ .+.....  .+..+......+.+.+.+..+. .
T Consensus         5 l~I~~T~t~~GKT~vslgL~~~L~~~G~~Vg-----~fKPi~~~p~-~~~~~~~--~~~~~~~~~~~~~I~~~~~~l~-~   75 (684)
T PRK05632          5 IYLAPTGTGVGLTSVSLGLMRALERKGVKVG-----FFKPIAQPPL-TMSEVEA--LLASGQLDELLEEIVARYHALA-K   75 (684)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCeEE-----EeCCcccCCC-CHHHHHH--HHhccCChHHHHHHHHHHHHhc-c
Confidence            455555 999999999999999999999999     6666432211 0000000  0000000111233445555553 7


Q ss_pred             CCcEEEEcCCCCcccc---HHHHHHHHhhhhccCCceEEEEEeCc--chHHHHHHH----HHhh--hcCCeeEEEEcC--
Q 011624          265 NVDVVIVDTAGRLQID---KAMMDELKDVKRVLNPTEVLLVVDAM--TGQEAAALV----TTFN--IEIGITGAILTK--  331 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d---~~~~~el~~i~~~~~p~~vvLVvda~--~~~~~~~~~----~~f~--~~~~i~GvIlnK--  331 (481)
                      +||++|||+++....+   ..+..++++.+.    .++++|+++.  +..++.+.+    ..|.  ....+.|+|+||  
T Consensus        76 ~~D~VLIEGa~~~~~~~~~~~~na~iA~~L~----~pVILV~~~~~~si~d~~~~i~~~~~~l~~~~~~~v~GVIvNr~~  151 (684)
T PRK05632         76 DCDVVLVEGLDPTRKHPFEFSLNAEIAKNLG----AEVVLVSSGGNDTPEELAERIELAASSFGGAKNANILGVIINKLN  151 (684)
T ss_pred             CCCEEEEeCcCCCCcCcccCchHHHHHHHhC----CCEEEEECCCCCChHHHHHHHHHHHHHhccCCCCcEEEEEEECCC
Confidence            8999999998654321   223455555555    7899999883  222333222    3342  457899999999  


Q ss_pred             CCCCCchhHHHHH------------------HHHhCCCeEEeecCCCCCCCCCcChhhHh
Q 011624          332 LDGDSRGGAALSV------------------KEVSGKPIKLVGRGERMEDLEPFYPDRMA  373 (481)
Q Consensus       332 vD~~~~~g~~~~~------------------~~~~glPV~~ig~g~~v~dl~~f~~~~~~  373 (481)
                      ++.. ..+.+...                  ....++|+  +|..|....|....-..+.
T Consensus       152 v~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~i~~--LG~IP~d~~L~~~t~~~i~  208 (684)
T PRK05632        152 APVD-EQGRTRPDLSEIFDDSSKANVDPSKLFASSPLPL--LGVVPWSPDLIAPRVIDIA  208 (684)
T ss_pred             CCHH-HHHHHHHHHHhhhccccccchhcchhhhcCCCce--EEEccCccccCCCCHHHHH
Confidence            5544 22222221                  12345666  8888888776644334333

>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms

Probab=98.84  E-value=5.2e-08  Score=86.88  Aligned_cols=122  Identities=22%  Similarity=0.292  Sum_probs=82.0

Q ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCC
Q 011624          187 LLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNV  266 (481)
Q Consensus       187 ~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~  266 (481)
                      .++| .|+||||++..|+..|+++|.+|.     .|||...                                      +
T Consensus         4 ~~~~-~~~Gkt~~~~~l~~~l~~~~~~v~-----~~kp~~~--------------------------------------~   39 (134)
T cd03109           4 FGTG-TDIGKTVATAILARALKEKGYRVA-----PLKPVQT--------------------------------------Y   39 (134)
T ss_pred             EeCC-CCcCHHHHHHHHHHHHHHCCCeEE-----EEecCCC--------------------------------------C
Confidence            3446 559999999999999999999999     7776642                                      6


Q ss_pred             cEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHh-hhcCCeeEEEEcCCCCCCc--h
Q 011624          267 DVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTF-NIEIGITGAILTKLDGDSR--G  338 (481)
Q Consensus       267 D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f-~~~~~i~GvIlnKvD~~~~--~  338 (481)
                      |++|||++|....   ......++.+..+    .++++|.+...+  .++...++.. ...+.+.|+|.|+.+....  .
T Consensus        40 d~vliEGaGg~~~p~~~~~~~~d~~~~~~----~~vllV~~~~~g~i~~a~~~~~~l~~~g~~i~gvi~N~~~~~~~~~~  115 (134)
T cd03109          40 DFVLVEGAGGLCVPLKEDFTNADVAKELN----LPAILVTSAGLGSINHAFLTIEAARIKGIILNGVLGNVIVEKEGLAT  115 (134)
T ss_pred             CEEEEECCCccccCCCCCCCHHHHHHHhC----CCEEEEEcCCCCcHhHHHHHHHHHHhcCCceeEEEEccCCCccchhh
Confidence            9999999987653   2222334433333    678888877333  2233333222 3356789999999886432  1


Q ss_pred             hHHHHHHHHhCCCeEEeecC
Q 011624          339 GAALSVKEVSGKPIKLVGRG  358 (481)
Q Consensus       339 g~~~~~~~~~glPV~~ig~g  358 (481)
                      ..+..+.+.+++|+  +|..
T Consensus       116 ~~~~~i~~~~gip~--LG~I  133 (134)
T cd03109         116 LNVETIERLTGIPV--LGIV  133 (134)
T ss_pred             hhHHHHHHhcCCCE--EEeC
Confidence            23466778889998  7654

The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=98.84  E-value=3.5e-08  Score=80.89  Aligned_cols=34  Identities=50%  Similarity=0.759  Sum_probs=31.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      +++++|++|+||||++.+||..|++.|++|+++|
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~   34 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALAKRGKRVLLID   34 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence            4678899999999999999999999999999998

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=98.81  E-value=2.3e-08  Score=93.38  Aligned_cols=145  Identities=23%  Similarity=0.301  Sum_probs=95.7

Q ss_pred             CCC-EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC-CC--HHHHHHH
Q 011624          181 SRP-TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE-VK--PSQIAKQ  256 (481)
Q Consensus       181 ~~~-~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~-~~--~~~~l~~  256 (481)
                      .+| ..|.+.|++|||||++..++...|+++ +++++|..|.|...-.+.+...   .|.+++...+. ..  ++.....
T Consensus        10 ~~~~~~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~Da~~l~~~---~g~~i~~v~TG~~CH~da~m~~~   85 (202)
T COG0378          10 NRPMLRIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKEDADRLRKL---PGEPIIGVETGKGCHLDASMNLE   85 (202)
T ss_pred             cCceEEEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeechhhHHHHHhC---CCCeeEEeccCCccCCcHHHHHH
Confidence            356 678889999999999999999999987 9999999999973333333221   67777655443 33  6667777


Q ss_pred             HHHHHHc--CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          257 GLEEAKK--KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       257 ~l~~~~~--~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      +++++..  .+.|++||++.|.+.-  ....++       ..+-.++|+|.+.|.+.-...  +..-..-.-+|+||.|.
T Consensus        86 ai~~l~~~~~~~Dll~iEs~GNL~~--~~sp~L-------~d~~~v~VidvteGe~~P~K~--gP~i~~aDllVInK~DL  154 (202)
T COG0378          86 AIEELVLDFPDLDLLFIESVGNLVC--PFSPDL-------GDHLRVVVIDVTEGEDIPRKG--GPGIFKADLLVINKTDL  154 (202)
T ss_pred             HHHHHhhcCCcCCEEEEecCcceec--ccCcch-------hhceEEEEEECCCCCCCcccC--CCceeEeeEEEEehHHh
Confidence            7877743  2379999999993321  011111       113568899988776543221  11001124489999998


Q ss_pred             CCchhH
Q 011624          335 DSRGGA  340 (481)
Q Consensus       335 ~~~~g~  340 (481)
                      ....|.
T Consensus       155 a~~v~~  160 (202)
T COG0378         155 APYVGA  160 (202)
T ss_pred             HHHhCc
Confidence            766554

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.81  E-value=1.6e-07  Score=89.80  Aligned_cols=140  Identities=20%  Similarity=0.311  Sum_probs=81.5

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC---CCHHHHHHH
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE---VKPSQIAKQ  256 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~---~~~~~~l~~  256 (481)
                      .++++++.++|..|+||||+..+++..+. .+.+|.++..|+...-..+.++    ..|.+++.....   ........+
T Consensus        19 ~~~~~~i~~~G~~gsGKTTli~~l~~~~~-~~~~v~v~~~~~~~~~D~~~~~----~~~~~~~~l~~gcic~~~~~~~~~   93 (207)
T TIGR00073        19 KHGLVVLNFMSSPGSGKTTLIEKLIDNLK-DEVKIAVIEGDVITKFDAERLR----KYGAPAIQINTGKECHLDAHMVAH   93 (207)
T ss_pred             hcCcEEEEEECCCCCCHHHHHHHHHHHHh-cCCeEEEEECCCCCcccHHHHH----HcCCcEEEEcCCCcccCChHHHHH
Confidence            34688999999999999999999988765 4689999999987432222332    233443332211   111222335


Q ss_pred             HHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH-HHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA-AALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       257 ~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~-~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      .+..+...++|+|||||.|.+....    .   . . ......+.|+|+..+... ......+.   ...-+++||.|..
T Consensus        94 ~l~~~~~~~~d~IiIEt~G~l~~~~----~---~-~-~~~~~~i~Vvd~~~~d~~~~~~~~~~~---~a~iiv~NK~Dl~  161 (207)
T TIGR00073        94 ALEDLPLDDIDLLFIENVGNLVCPA----D---F-D-LGEHMRVVLLSVTEGDDKPLKYPGMFK---EADLIVINKADLA  161 (207)
T ss_pred             HHHHhccCCCCEEEEecCCCcCCCc----c---c-c-cccCeEEEEEecCcccchhhhhHhHHh---hCCEEEEEHHHcc
Confidence            5555533478999999999432111    0   0 0 112444677887544322 11111121   1235899999974


Q ss_pred             C
Q 011624          336 S  336 (481)
Q Consensus       336 ~  336 (481)
                      .
T Consensus       162 ~  162 (207)
T TIGR00073       162 E  162 (207)
T ss_pred             c
Confidence            3

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.80  E-value=1.3e-08  Score=99.48  Aligned_cols=35  Identities=31%  Similarity=0.497  Sum_probs=28.7

Q ss_pred             EEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          188 LAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       188 i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++|+.||||||.+.++..++...|++|.+|..||-
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNLDPa   35 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNLDPA   35 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE--TT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceEEEcchH
Confidence            57999999999999999999999999999999974

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]

Probab=98.79  E-value=2.8e-07  Score=88.82  Aligned_cols=168  Identities=26%  Similarity=0.390  Sum_probs=105.4

Q ss_pred             EEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH---H-----HHHHHhhhhcCCCe-------ecCCCC
Q 011624          184 TVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA---I-----DQLVILGEQVGVPV-------YTAGTE  247 (481)
Q Consensus       184 ~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a---i-----dql~~~~~~~gv~v-------~~~~~~  247 (481)
                      +.+.++|. +|+|||++++.|+.+|+.+|++|.     .|+|-.   .     ++...+.+..+++.       +.....
T Consensus         3 ~~~fVtGTDT~VGKTv~S~aL~~~l~~~g~~~~-----~~KPVqsG~~~~~~~~D~~~l~~~~~~~~~~~~~~py~f~~P   77 (223)
T COG0132           3 KRFFVTGTDTGVGKTVVSAALAQALKQQGYSVA-----GYKPVQTGSEETAENSDALVLQRLSGLDLSYELINPYRFKEP   77 (223)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhCCCeeE-----EECceeeCCCCCCCCchHHHHHHhcCCCcccccccceecCCC
Confidence            35677777 999999999999999999999999     666421   0     22334455444441       111112


Q ss_pred             CCHH------------HHHHHHHHHHHcCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch--HH
Q 011624          248 VKPS------------QIAKQGLEEAKKKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG--QE  310 (481)
Q Consensus       248 ~~~~------------~~l~~~l~~~~~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~  310 (481)
                      ..|.            +.+...+..+. ..||+|||+++|..-.   +...+..+....+    .+++||+....|  ..
T Consensus        78 ~sPhlAa~~eg~~I~~~~l~~~l~~l~-~~~d~vlVEGAGGl~vPl~~~~~~~D~~~~~~----lpvILV~~~~LGtINH  152 (223)
T COG0132          78 LSPHLAAELEGRTIDLEKLSQGLRQLL-KKYDLVLVEGAGGLLVPLTEEYTFADLAVQLQ----LPVILVVGIKLGTINH  152 (223)
T ss_pred             CCcHHHHhhcCCcccHHHHHHHHHhhh-cccCEEEEeCCCceeeecCCcccHHHHHHHcC----CCEEEEecCCccHHHH
Confidence            2222            12234444554 5899999999998754   3344444444444    789999987444  23


Q ss_pred             HHHHHHHh-hhcCCeeEEEEcCCCCCC-chhHH-HHHHHHhCCCeEEeecCCCCCC
Q 011624          311 AAALVTTF-NIEIGITGAILTKLDGDS-RGGAA-LSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       311 ~~~~~~~f-~~~~~i~GvIlnKvD~~~-~~g~~-~~~~~~~glPV~~ig~g~~v~d  363 (481)
                      +.-.++.. ...+++.|+|+|...... +.... ..+...++.|+  +|..|...+
T Consensus       153 tlLt~eal~~~gl~l~G~I~n~~~~~~~~~~~~~~~l~~~~~~p~--~g~~p~~~~  206 (223)
T COG0132         153 TLLTVEALRARGLPLAGWVANGINPELDHYAEINATLLKRIGAPL--LGIIPYLPE  206 (223)
T ss_pred             HHHHHHHHHHCCCCEEEEEEccCCCchhHHHHHHHHHHHhcCCCc--cccccCCcc
Confidence            32222222 457889999999987543 33333 35677889998  777766554

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=98.74  E-value=8.6e-08  Score=89.54  Aligned_cols=147  Identities=21%  Similarity=0.234  Sum_probs=84.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC---CCHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE---VKPSQIAKQGLEEA  261 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~---~~~~~~l~~~l~~~  261 (481)
                      |++++|.-|+||||+..+|.. ...+|.++++|-.|.-..+.-.++   -...|+++......   ......+...+..+
T Consensus         2 v~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~g~~~iD~~~---l~~~~~~v~~l~~gcicc~~~~~~~~~l~~l   77 (178)
T PF02492_consen    2 VIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEFGEVNIDAEL---LQEDGVPVVELNNGCICCTLRDDLVEALRRL   77 (178)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECSTTSTHHHHHH---HHTTT-EEEEECTTTESS-TTS-HHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEccccccccchhh---hcccceEEEEecCCCcccccHHHHHHHHHHH
Confidence            789999999999999999998 667799999999997654432222   12235555444321   11112223445554


Q ss_pred             Hc-C--CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          262 KK-K--NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       262 ~~-~--~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      .. .  ++|+|||++.|..+...- +..-..+...+..+.++.|+|+..-   ......+...-...  .-||+||.|..
T Consensus        78 ~~~~~~~~d~IiIE~sG~a~p~~l-~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~A--DvIvlnK~D~~  154 (178)
T PF02492_consen   78 LREYEERPDRIIIETSGLADPAPL-ILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAFA--DVIVLNKIDLV  154 (178)
T ss_dssp             CCCCHGC-SEEEEEEECSSGGGGH-HHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT---SEEEEE-GGGH
T ss_pred             HHhcCCCcCEEEECCccccccchh-hhccccccccccccceeEEeccccccccccchhhhhhcchhc--CEEEEeccccC
Confidence            32 3  579999999996543322 1112223333445788999999432   22222222211111  45899999975


Q ss_pred             Cch
Q 011624          336 SRG  338 (481)
Q Consensus       336 ~~~  338 (481)
                      ...
T Consensus       155 ~~~  157 (178)
T PF02492_consen  155 SDE  157 (178)
T ss_dssp             HHH
T ss_pred             Chh
Confidence            544

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=98.73  E-value=2.7e-07  Score=91.65  Aligned_cols=161  Identities=19%  Similarity=0.283  Sum_probs=81.8

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH--HHHHHHHhhhcCC-eeEEEEcCCCCCCc-h
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE--AAALVTTFNIEIG-ITGAILTKLDGDSR-G  338 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~--~~~~~~~f~~~~~-i~GvIlnKvD~~~~-~  338 (481)
                      ++++++.||||||...    ...++.....  ..+.+++|+|+..+..  .....+... ..+ ...+++||+|.... .
T Consensus        61 ~~~~~i~liDtPG~~~----f~~~~~~~l~--~aD~~i~Vvd~~~g~~~~~~~~~~~~~-~~~~p~iivvNK~D~~~~~~  133 (268)
T cd04170          61 WKGHKINLIDTPGYAD----FVGETRAALR--AADAALVVVSAQSGVEVGTEKLWEFAD-EAGIPRIIFINKMDRERADF  133 (268)
T ss_pred             ECCEEEEEEECcCHHH----HHHHHHHHHH--HCCEEEEEEeCCCCCCHHHHHHHHHHH-HcCCCEEEEEECCccCCCCH
Confidence            4678899999999753    2222322333  2478899999965421  112222111 222 25579999996532 3


Q ss_pred             h-HHHHHHHHhCCCeEE--ee--cCCCCCCCCCcChhhHhhh-------hcCC-chhHHHHHHHHHhhc---hhHHHHHH
Q 011624          339 G-AALSVKEVSGKPIKL--VG--RGERMEDLEPFYPDRMAGR-------ILGM-GDVLSFVEKAQEVMQ---QEDAEEMQ  402 (481)
Q Consensus       339 g-~~~~~~~~~glPV~~--ig--~g~~v~dl~~f~~~~~~~r-------~lGl-gd~~~lve~a~e~~~---~~~~~~~~  402 (481)
                      . .+..+...++.++..  ++  .+.++..+..........+       ...+ .+....++.+++.+.   .+..++++
T Consensus       134 ~~~~~~l~~~~~~~~~~~~ip~~~~~~~~~~vd~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~l~e~~a~~dd~l~  213 (268)
T cd04170         134 DKTLAALQEAFGRPVVPLQLPIGEGDDFKGVVDLLTEKAYIYSPGAPSEEIEIPEELKEEVAEAREELLEAVAETDDELM  213 (268)
T ss_pred             HHHHHHHHHHhCCCeEEEEecccCCCceeEEEEcccCEEEEccCCCcceeccCCHHHHHHHHHHHHHHHHHHhhCCHHHH
Confidence            3 334455567776542  22  2222211100000000000       0011 122222333333332   24456788


Q ss_pred             Hhhhcc-cccHHHHHHHHhhhhccCCccc
Q 011624          403 KKIMSA-NFDFNDFLKQTRTVARMGSMSR  430 (481)
Q Consensus       403 ~k~~~~-~~dl~~l~~~~~~~~~~g~~~~  430 (481)
                      ++++++ +++-+++.+.++..-..|.+.+
T Consensus       214 e~yl~~~~~~~~~l~~~l~~~~~~~~~~p  242 (268)
T cd04170         214 EKYLEGGELTEEELHAGLRRALRAGLLVP  242 (268)
T ss_pred             HHHhCCCCCCHHHHHHHHHHHHHhCCEEE
Confidence            899986 8999999998887765555443

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.73  E-value=1.8e-07  Score=85.83  Aligned_cols=144  Identities=18%  Similarity=0.233  Sum_probs=79.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-------CCCHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-------EVKPSQIAKQG  257 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-------~~~~~~~l~~~  257 (481)
                      +++++|..|+||||+...++...  .|.++.++..|....+.-.+. ..  ..+.+++....       ..+..+.+.+.
T Consensus         2 ~~~l~G~~GsGKTtl~~~l~~~~--~~~~~~~i~~~~G~~~~d~~~-~~--~~~~~v~~l~~GCiCC~~~~~l~~~l~~l   76 (158)
T cd03112           2 VTVLTGFLGAGKTTLLNHILTEQ--HGRKIAVIENEFGEVGIDNQL-VV--DTDEEIIEMNNGCICCTVRGDLIRALLDL   76 (158)
T ss_pred             EEEEEECCCCCHHHHHHHHHhcc--cCCcEEEEecCCCccchhHHH-Hh--CCCceEEEeCCCEeEeeCchhHHHHHHHH
Confidence            67899999999999999887653  488999988886544432222 11  23344444332       11222222222


Q ss_pred             HHHH--HcCCCcEEEEcCCCCccccHHHHHHH---HhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCe-eEEEEcC
Q 011624          258 LEEA--KKKNVDVVIVDTAGRLQIDKAMMDEL---KDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGI-TGAILTK  331 (481)
Q Consensus       258 l~~~--~~~~~D~VIIDt~G~~~~d~~~~~el---~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i-~GvIlnK  331 (481)
                      +..+  ...++|+|+|||+|..... ..+..+   ..+......+.++.|+|+............+...+.. .-||+||
T Consensus        77 ~~~~~~~~~~~d~I~IEt~G~~~p~-~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~ad~ivlnk  155 (158)
T cd03112          77 LERLDAGKIAFDRIVIETTGLADPG-PVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAFADRILLNK  155 (158)
T ss_pred             HHHHHhccCCCCEEEEECCCcCCHH-HHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHHCCEEEEec
Confidence            3332  1257899999999987432 233221   1122233357789999985433222111111111111 3489999


Q ss_pred             CCC
Q 011624          332 LDG  334 (481)
Q Consensus       332 vD~  334 (481)
                      .|.
T Consensus       156 ~dl  158 (158)
T cd03112         156 TDL  158 (158)
T ss_pred             ccC
Confidence            983

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=98.68  E-value=3.8e-07  Score=90.95  Aligned_cols=161  Identities=19%  Similarity=0.191  Sum_probs=83.8

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHhh-hcCCeeEEEEcCCCCCC-ch
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFN-IEIGITGAILTKLDGDS-RG  338 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~-~~~~i~GvIlnKvD~~~-~~  338 (481)
                      ++++.+.+|||||...    ...++......  .+.+++|+|+..+.  .....++... ...++ -+++||+|... ..
T Consensus        61 ~~~~~i~liDTPG~~d----f~~~~~~~l~~--aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p~-ivviNK~D~~~a~~  133 (270)
T cd01886          61 WKDHRINIIDTPGHVD----FTIEVERSLRV--LDGAVAVFDAVAGVEPQTETVWRQADRYNVPR-IAFVNKMDRTGADF  133 (270)
T ss_pred             ECCEEEEEEECCCcHH----HHHHHHHHHHH--cCEEEEEEECCCCCCHHHHHHHHHHHHcCCCE-EEEEECCCCCCCCH
Confidence            4678899999999753    33343333333  37889999995541  1112222111 12333 48999999643 33


Q ss_pred             hH-HHHHHHHhCCCeE--EeecCCC-----CCCCCCcChhhHhh------hhcC-CchhHHHHHHHHHhhch---hHHHH
Q 011624          339 GA-ALSVKEVSGKPIK--LVGRGER-----MEDLEPFYPDRMAG------RILG-MGDVLSFVEKAQEVMQQ---EDAEE  400 (481)
Q Consensus       339 g~-~~~~~~~~glPV~--~ig~g~~-----v~dl~~f~~~~~~~------r~lG-lgd~~~lve~a~e~~~~---~~~~~  400 (481)
                      .. +..+.+.++..+.  .++.+..     +-|+-.-..-.+..      .... ..+..+.++.+++.+-+   +..++
T Consensus       134 ~~~~~~l~~~l~~~~~~~~~Pisa~~~f~g~vd~~~~~a~~~~~~~~~~~~~~~ip~~~~~~~~~~r~~l~e~vae~dd~  213 (270)
T cd01886         134 FRVVEQIREKLGANPVPLQLPIGEEDDFRGVVDLIEMKALYWDGELGEKIEETEIPEDLLEEAEEAREELIETLAEFDDE  213 (270)
T ss_pred             HHHHHHHHHHhCCCceEEEeccccCCCceEEEEccccEEEecccCCCceeEEecCCHHHHHHHHHHHHHHHHHHhcCCHH
Confidence            33 3455556654322  2222221     11221100000000      0000 11223334444443322   45667


Q ss_pred             HHHhhhcc-cccHHHHHHHHhhhhccCCccc
Q 011624          401 MQKKIMSA-NFDFNDFLKQTRTVARMGSMSR  430 (481)
Q Consensus       401 ~~~k~~~~-~~dl~~l~~~~~~~~~~g~~~~  430 (481)
                      ++++++++ +++.+++.+.++..-..|.+-+
T Consensus       214 L~e~yl~~~~~~~~el~~~l~~~~~~~~~~P  244 (270)
T cd01886         214 LMEKYLEGEEITEEEIKAAIRKGTIANKIVP  244 (270)
T ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHHcCcEEE
Confidence            89999998 8999999999988765555443

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]

Probab=98.64  E-value=2.1e-07  Score=95.73  Aligned_cols=124  Identities=22%  Similarity=0.339  Sum_probs=77.7

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh-----HHHHH------HHhhhhcCCCeecCC---
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA-----AIDQL------VILGEQVGVPVYTAG---  245 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~-----aidql------~~~~~~~gv~v~~~~---  245 (481)
                      ...+.+++++|+.+|||||+++-||..+..+|++|.+||+|+-.++     .+.-.      ..+.+......+-.+   
T Consensus        70 ~~~~~~vmvvG~vDSGKSTLt~~LaN~~l~rG~~v~iiDaDvGQ~ei~pPg~ISL~~~~s~~~~L~~l~~~~~~FvG~is  149 (398)
T COG1341          70 AGKVGVVMVVGPVDSGKSTLTTYLANKLLARGRKVAIIDADVGQSEIGPPGFISLAFPESPVISLSELEPFTLYFVGSIS  149 (398)
T ss_pred             ccCCcEEEEECCcCcCHHHHHHHHHHHHhhcCceEEEEeCCCCCcccCCCceEEeecccCCCCCHHHcCccceEEEeccC
Confidence            3456799999999999999999999999999999999999986533     21100      000111111111111   


Q ss_pred             CCCCHHHH---HHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          246 TEVKPSQI---AKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       246 ~~~~~~~~---l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +...+...   +..+++.++ +..|++||||+|....+ ..+.-...+..+++|+.++.+=++
T Consensus       150 P~~~~~~~i~~v~rL~~~a~-~~~~~ilIdT~GWi~G~-~g~elk~~li~~ikP~~Ii~l~~~  210 (398)
T COG1341         150 PQGFPGRYIAGVARLVDLAK-KEADFILIDTDGWIKGW-GGLELKRALIDAIKPDLIIALERA  210 (398)
T ss_pred             CCCChHHHHHHHHHHHHHhh-ccCCEEEEcCCCceeCc-hHHHHHHHHHhhcCCCEEEEeccc
Confidence            11222222   345566664 44799999999997532 333444556677788877766444

>PRK13886 conjugal transfer protein TraL; Provisional

Probab=98.62  E-value=4.5e-07  Score=88.48  Aligned_cols=42  Identities=26%  Similarity=0.453  Sum_probs=37.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      +++..|+|||||||++++||.+++++|++|+++|+|+..+..
T Consensus         5 ~~i~~~KGGvGKSt~a~~la~~l~~~g~~vl~iD~D~~n~~~   46 (241)
T PRK13886          5 HMVLQGKGGVGKSFIAATIAQYKASKGQKPLCIDTDPVNATF   46 (241)
T ss_pred             EEEecCCCCCcHHHHHHHHHHHHHhCCCCEEEEECCCCCchh
Confidence            344459999999999999999999999999999999998754

>PF02881 SRP54_N: SRP54-type protein, helical bundle domain; InterPro: IPR013822 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=98.60  E-value=4.2e-07  Score=72.63  Aligned_cols=75  Identities=29%  Similarity=0.595  Sum_probs=65.1

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHH
Q 011624           88 LTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDEL  165 (481)
Q Consensus        88 l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L  165 (481)
                      |+++|.++.+++.+...++++++++++++|+.+|+++||+.+++.+|++++++...+   ..+.++.+.+.++++++|
T Consensus         1 L~~~l~kt~~~l~~~~~~~~~~i~~~l~ele~~Li~aDVg~~~a~~i~~~ik~~~~~---~~~~~~~~~v~~~l~~~L   75 (75)
T PF02881_consen    1 LKKGLSKTFKKLSGSIFLTEKDIEEFLEELEEALIEADVGVEVAEKIIENIKKKLIK---KKGINPREEVKKALKEEL   75 (75)
T ss_dssp             HHHHHHHHHHHHHCCSSCTHHHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHHHHC---TTSSHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHhCcccccHHhHHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhc---ccCCCcHHHHHHHHHHHC
Confidence            678999999999988777899999999999999999999999999999999995444   345677788888888775

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 N-terminal helical bundle 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. 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: 1J8M_F 1J8Y_F 2J37_W 2OG2_A 3B9Q_A 2V3C_C 3NDB_B 1ZU5_B 1ZU4_A 1WGW_A ....

>smart00053 DYNc Dynamin, GTPase

Probab=98.59  E-value=6.6e-07  Score=87.56  Aligned_cols=161  Identities=19%  Similarity=0.203  Sum_probs=85.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHH-HHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYL-KKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L-~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      .++++|++|+||||+...|+... ...|  ...++..|.+-....+...++.....+.   ....+..+ +.+.++.+..
T Consensus        28 ~i~vvG~~~~GKSt~l~~i~g~~~~~~~--~g~~t~~p~~i~l~~~~~~~~~~~~~~~---~~~~~~~~-v~~~i~~~~~  101 (240)
T smart00053       28 QIAVVGGQSAGKSSVLENFVGRDFLPRG--SGIVTRRPLILQLINSSTEYAEFLHCKG---KKFTDFDE-VRNEIEAETD  101 (240)
T ss_pred             eEEEEcCCCccHHHHHHHHhCCCccccC--CCcccccceEEEccCCCCcceEEEecCC---cccCCHHH-HHHHHHHHHH
Confidence            67889999999999999998431 1111  2233333333222111112222222221   11122222 2333332210


Q ss_pred             ---------------------CCCcEEEEcCCCCccc---c--HHHHHHHHhhh-hccC-C-ceEEEEEeCcc---hHHH
Q 011624          264 ---------------------KNVDVVIVDTAGRLQI---D--KAMMDELKDVK-RVLN-P-TEVLLVVDAMT---GQEA  311 (481)
Q Consensus       264 ---------------------~~~D~VIIDt~G~~~~---d--~~~~~el~~i~-~~~~-p-~~vvLVvda~~---~~~~  311 (481)
                                           .-.|+.||||||....   +  ......+.++. ..+. + +-+++|+|+..   .+++
T Consensus       102 ~~~~~~~~~s~~~i~l~i~~p~~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~  181 (240)
T smart00053      102 RVTGTNKGISPVPINLRVYSPHVLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDA  181 (240)
T ss_pred             HhcCCCCcccCcceEEEEeCCCCCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhH
Confidence                                 1278999999999642   1  22222333221 2222 2 35688888843   3455


Q ss_pred             HHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCC
Q 011624          312 AALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKP  351 (481)
Q Consensus       312 ~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glP  351 (481)
                      ...++.+++.-.-.-+|+||+|....+..+.+++.....|
T Consensus       182 l~ia~~ld~~~~rti~ViTK~D~~~~~~~~~~~~~~~~~~  221 (240)
T smart00053      182 LKLAKEVDPQGERTIGVITKLDLMDEGTDARDILENKLLP  221 (240)
T ss_pred             HHHHHHHHHcCCcEEEEEECCCCCCccHHHHHHHhCCccc
Confidence            6777777765445567999999877666666665543333

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.57  E-value=1.9e-06  Score=84.27  Aligned_cols=145  Identities=15%  Similarity=0.183  Sum_probs=79.6

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-HHHHHHHHh-h-hcCCeeEEEEcCCCCC-Cch
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-EAAALVTTF-N-IEIGITGAILTKLDGD-SRG  338 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-~~~~~~~~f-~-~~~~i~GvIlnKvD~~-~~~  338 (481)
                      ++++.+.++||||....    ..+.......  .+.+++|+|+..+. .....+..+ . ..++ .-+++||+|.. ...
T Consensus        61 ~~~~~i~liDTPG~~~f----~~~~~~~l~~--aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P-~iivvNK~D~~~a~~  133 (237)
T cd04168          61 WEDTKVNLIDTPGHMDF----IAEVERSLSV--LDGAILVISAVEGVQAQTRILWRLLRKLNIP-TIIFVNKIDRAGADL  133 (237)
T ss_pred             ECCEEEEEEeCCCccch----HHHHHHHHHH--hCeEEEEEeCCCCCCHHHHHHHHHHHHcCCC-EEEEEECccccCCCH
Confidence            46778999999998542    2233222232  37889999996542 111222221 1 1233 34899999964 343


Q ss_pred             hH-HHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhcc-cccHHHHH
Q 011624          339 GA-ALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSA-NFDFNDFL  416 (481)
Q Consensus       339 g~-~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~~-~~dl~~l~  416 (481)
                      .. +..+...++.++..+.. |.+.+.  +.  ..    -..  -..++|.+.|     ..++++++++++ +++-++++
T Consensus       134 ~~~~~~i~~~~~~~~~~~~~-p~~~~~--~~--~~----~~~--~~~l~e~vae-----~dd~l~e~yl~~~~~~~~el~  197 (237)
T cd04168         134 EKVYQEIKEKLSSDIVPMQK-VGLAPN--IC--ET----NEI--DDEFWETLAE-----GDDELLEKYLEGGPIEELELD  197 (237)
T ss_pred             HHHHHHHHHHHCCCeEEEEC-CcEeee--ee--ee----eec--cHHHHHHHhc-----CCHHHHHHHhCCCCCCHHHHH
Confidence            33 45666777766532221 111110  00  00    000  0223333332     345688888888 89999999


Q ss_pred             HHHhhhhccCCccc
Q 011624          417 KQTRTVARMGSMSR  430 (481)
Q Consensus       417 ~~~~~~~~~g~~~~  430 (481)
                      +.++..-..|.+-+
T Consensus       198 ~~l~~~~~~~~~~P  211 (237)
T cd04168         198 NELSARIAKRKVFP  211 (237)
T ss_pred             HHHHHHHHhCCeEE
Confidence            99988766555443

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=98.51  E-value=6e-07  Score=82.59  Aligned_cols=46  Identities=33%  Similarity=0.509  Sum_probs=42.0

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~  225 (481)
                      .++|.+|.++|.+|+||||++..|...|.++|++|.++|+|.-|-+
T Consensus        20 ~~~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR~g   65 (197)
T COG0529          20 GQKGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVRHG   65 (197)
T ss_pred             CCCCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhHhhc
Confidence            3568899999999999999999999999999999999999986643

>PRK00089 era GTPase Era; Reviewed

Probab=98.49  E-value=6.4e-07  Score=90.02  Aligned_cols=121  Identities=21%  Similarity=0.286  Sum_probs=68.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +..+|+++|.+||||||++..|.      |.++..+...++...        ....+  ++.                  
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~------g~~~~~vs~~~~tt~--------~~i~~--i~~------------------   49 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALV------GQKISIVSPKPQTTR--------HRIRG--IVT------------------   49 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHh------CCceeecCCCCCccc--------ccEEE--EEE------------------
Confidence            34588999999999999998886      777776655443110        00000  110                  


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhh--hhccCCceEEEEEeCcc--hHHHHHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDV--KRVLNPTEVLLVVDAMT--GQEAAALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i--~~~~~p~~vvLVvda~~--~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                       .++++++++||||.......+-..+...  ......+.+++|+|+..  .......+......-...-+|+||+|....
T Consensus        50 -~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~~~pvilVlNKiDl~~~  128 (292)
T PRK00089         50 -EDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTPVILVLNKIDLVKD  128 (292)
T ss_pred             -cCCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhcCCCEEEEEECCcCCCC
Confidence             1346899999999864332222211111  11224578899999854  222222223222111234589999997633

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=98.48  E-value=1.3e-06  Score=87.28  Aligned_cols=138  Identities=17%  Similarity=0.268  Sum_probs=85.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC---CCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT---EVKPSQIAKQGL  258 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~---~~~~~~~l~~~l  258 (481)
                      +..++.++|.+|+||||+..+|...|... .++.+|..|.....-.+-+    ...|++++....   .......+.+++
T Consensus       103 ~~~~v~l~G~pGsGKTTLl~~l~~~l~~~-~~~~VI~gD~~t~~Da~rI----~~~g~pvvqi~tG~~Chl~a~mv~~Al  177 (290)
T PRK10463        103 KQLVLNLVSSPGSGKTTLLTETLMRLKDS-VPCAVIEGDQQTVNDAARI----RATGTPAIQVNTGKGCHLDAQMIADAA  177 (290)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccC-CCEEEECCCcCcHHHHHHH----HhcCCcEEEecCCCCCcCcHHHHHHHH
Confidence            45789999999999999999999888654 5899999998654322222    345666654433   222344566778


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCe-eEEEEcCCCCCC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGI-TGAILTKLDGDS  336 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i-~GvIlnKvD~~~  336 (481)
                      ..+...+.|++||++.|.+......  .+.   .    ...+.|++...+.+.   ...|...+.. .-+|+||+|...
T Consensus       178 ~~L~~~~~d~liIEnvGnLvcPa~f--dlg---e----~~~v~vlsV~eg~dk---plKyp~~f~~ADIVVLNKiDLl~  244 (290)
T PRK10463        178 PRLPLDDNGILFIENVGNLVCPASF--DLG---E----KHKVAVLSVTEGEDK---PLKYPHMFAAASLMLLNKVDLLP  244 (290)
T ss_pred             HHHhhcCCcEEEEECCCCccCCCcc--chh---h----ceeEEEEECcccccc---chhccchhhcCcEEEEEhHHcCc
Confidence            8876678899999999964211110  111   1    222455565444221   1122222222 458999999754

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=98.47  E-value=1.1e-06  Score=83.72  Aligned_cols=57  Identities=32%  Similarity=0.476  Sum_probs=46.3

Q ss_pred             HHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHH
Q 011624          166 VKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQ  229 (481)
Q Consensus       166 ~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidq  229 (481)
                      .++++++..       +..++.++|++|+|||+++..++....++|.+|++++++-+.+..+.+
T Consensus         2 D~~l~GGi~-------~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~~~~~rl~~   58 (209)
T TIGR02237         2 DELLGGGVE-------RGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQ   58 (209)
T ss_pred             hhhhcCCCC-------CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCCHHHHHH
Confidence            345666553       468999999999999999999999998889999999998666554443

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=98.43  E-value=2.1e-06  Score=82.83  Aligned_cols=61  Identities=30%  Similarity=0.463  Sum_probs=49.4

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHH
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQL  230 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql  230 (481)
                      ..|.++++++..       ...++.++|++|+||||++..+|....+.|.+|++++++.+.+....++
T Consensus        10 ~~lD~~l~GGi~-------~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e~~~~~r~~~~   70 (225)
T PRK09361         10 KMLDELLGGGFE-------RGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTEGLSPERFKQI   70 (225)
T ss_pred             HHHHHHhcCCCC-------CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCCCHHHHHHH
Confidence            456777766553       4679999999999999999999999988999999999996555544443

>cd04169 RF3 RF3 subfamily

Probab=98.42  E-value=2.7e-06  Score=84.69  Aligned_cols=84  Identities=17%  Similarity=0.189  Sum_probs=47.8

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-HHHHHHHHhhh--cCCeeEEEEcCCCCCCc-h
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-EAAALVTTFNI--EIGITGAILTKLDGDSR-G  338 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-~~~~~~~~f~~--~~~i~GvIlnKvD~~~~-~  338 (481)
                      ++++.+.++||||...    ...+......  ..+.+++|+|+..+. .....+..+..  +.+ .-+++||+|.... .
T Consensus        68 ~~~~~i~liDTPG~~d----f~~~~~~~l~--~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P-~iivvNK~D~~~a~~  140 (267)
T cd04169          68 YRDCVINLLDTPGHED----FSEDTYRTLT--AVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIP-IITFINKLDREGRDP  140 (267)
T ss_pred             eCCEEEEEEECCCchH----HHHHHHHHHH--HCCEEEEEEECCCCccHHHHHHHHHHHhcCCC-EEEEEECCccCCCCH
Confidence            4678899999999743    2222222222  247889999996542 11122222221  233 4578999996433 3


Q ss_pred             hH-HHHHHHHhCCCeE
Q 011624          339 GA-ALSVKEVSGKPIK  353 (481)
Q Consensus       339 g~-~~~~~~~~glPV~  353 (481)
                      .. +..+...++.++.
T Consensus       141 ~~~~~~l~~~l~~~~~  156 (267)
T cd04169         141 LELLDEIEEELGIDCT  156 (267)
T ss_pred             HHHHHHHHHHHCCCce
Confidence            23 3456666777664

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=98.42  E-value=2.3e-06  Score=88.08  Aligned_cols=100  Identities=25%  Similarity=0.495  Sum_probs=76.0

Q ss_pred             HHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCe
Q 011624          162 RDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPV  241 (481)
Q Consensus       162 ~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v  241 (481)
                      ..||.+++|++..       +..++++.|-+|.||||+...++..+++++ +|++|.+.    ....|++..++++|++.
T Consensus        79 ~~EldRVLGGG~V-------~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsGE----ES~~QiklRA~RL~~~~  146 (456)
T COG1066          79 IEELDRVLGGGLV-------PGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSGE----ESLQQIKLRADRLGLPT  146 (456)
T ss_pred             hHHHHhhhcCCcc-------cccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeCC----cCHHHHHHHHHHhCCCc
Confidence            4789999998775       457999999999999999999999999998 99999988    45678888888888765


Q ss_pred             ecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCC
Q 011624          242 YTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAG  275 (481)
Q Consensus       242 ~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G  275 (481)
                      .+.  .+.+.-.+.+.++.+...++|++|||+--
T Consensus       147 ~~l--~l~aEt~~e~I~~~l~~~~p~lvVIDSIQ  178 (456)
T COG1066         147 NNL--YLLAETNLEDIIAELEQEKPDLVVIDSIQ  178 (456)
T ss_pred             cce--EEehhcCHHHHHHHHHhcCCCEEEEeccc
Confidence            322  12222223344445555789999999863

>TIGR00436 era GTP-binding protein Era

Probab=98.41  E-value=7.8e-07  Score=88.55  Aligned_cols=117  Identities=17%  Similarity=0.211  Sum_probs=63.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      .|+++|.+||||||+...|.      |.++..+..-++.        +.....++  ..                   ..
T Consensus         2 ~V~liG~pnvGKSTLln~L~------~~~~~~vs~~~~T--------Tr~~i~~i--~~-------------------~~   46 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLH------GQKISITSPKAQT--------TRNRISGI--HT-------------------TG   46 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHh------CCcEeecCCCCCc--------ccCcEEEE--EE-------------------cC
Confidence            47888999999999999987      6666644332221        10001111  10                   13


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHh-hhh-ccCCceEEEEEeCcchHHHHHH-HHHhhhcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKD-VKR-VLNPTEVLLVVDAMTGQEAAAL-VTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~-i~~-~~~p~~vvLVvda~~~~~~~~~-~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ++.++++||||.......+...+.+ ... ....+-+++|+|+......... .......-...-+|+||+|...
T Consensus        47 ~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~~~i~~~l~~~~~p~ilV~NK~Dl~~  121 (270)
T TIGR00436        47 ASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDGEFVLTKLQNLKRPVVLTRNKLDNKF  121 (270)
T ss_pred             CcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchHHHHHHHHHhcCCCEEEEEECeeCCC
Confidence            4568999999976432222221211 111 1245788999999543211121 2222211123458999999753

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>PRK12337 2-phosphoglycerate kinase; Provisional

Probab=98.41  E-value=6.4e-07  Score=94.44  Aligned_cols=109  Identities=27%  Similarity=0.398  Sum_probs=76.0

Q ss_pred             hHHHHHH--HHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCc-ccccc----ccC-C
Q 011624          110 IVEPMRD--IRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGE-VSELV----FAK-S  181 (481)
Q Consensus       110 i~~~l~~--i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~-~~~~~----~~~-~  181 (481)
                      .+.++..  +.+.|+++||+++++.+|++.+++.+.....  .......+...+.+.+.+.++.. ...+.    +.. .
T Consensus       176 ~~~PFSkGiLaRsLi~aDV~~~~A~~Ia~~Lk~~L~~kg~--~~~~ra~VR~~V~~~L~~~l~~~~a~~y~la~~i~~~k  253 (475)
T PRK12337        176 PRVPFSKGILAQSLMAAGLAPDVARRLARETERDLRRSGD--RVVRRDQLRRKVEALLLEEAGEEVARRYRLLRSIRRPP  253 (475)
T ss_pred             CCCCCchhHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccc--ccccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHhhccC
Confidence            3455666  8999999999999999999999988742211  11234556666766666655432 11111    122 4


Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      +|.+|+++|.+|+||||++.+||..+   |. ..++..|..|-
T Consensus       254 ~p~vil~~G~~G~GKSt~a~~LA~~l---g~-~~ii~tD~iR~  292 (475)
T PRK12337        254 RPLHVLIGGVSGVGKSVLASALAYRL---GI-TRIVSTDAVRE  292 (475)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc---CC-cEEeehhHHHH
Confidence            68999999999999999999999766   33 23788898663

>cd01394 radB RadB

Probab=98.40  E-value=2.6e-06  Score=81.74  Aligned_cols=53  Identities=34%  Similarity=0.450  Sum_probs=45.1

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..|.++++++..       +..++.++|++|+||||++..+|..+..+|.+|++++++..
T Consensus         6 ~~LD~~l~GGi~-------~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e~~   58 (218)
T cd01394           6 KGLDELLGGGVE-------RGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGL   58 (218)
T ss_pred             hHHHHHhcCCcc-------CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCC
Confidence            356777776553       56899999999999999999999999889999999999854

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>TIGR00101 ureG urease accessory protein UreG

Probab=98.40  E-value=8.7e-06  Score=77.53  Aligned_cols=140  Identities=19%  Similarity=0.244  Sum_probs=76.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeec--C-CC-----CCCHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT--A-GT-----EVKPSQIA  254 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~--~-~~-----~~~~~~~l  254 (481)
                      |..+.++|++|+||||+...+...+.. ..++.++..|.+.....+.+...+....-.++.  . +.     +.+.... 
T Consensus         1 ~~~i~i~G~~GsGKTTll~~l~~~l~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~-   78 (199)
T TIGR00101         1 PLKIGVAGPVGSGKTALIEALTRALRQ-KYQLAVITNDIYTQEDAEFLVKNSALPPERILGVETGGCPHTAIREDASMN-   78 (199)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhhCc-CCcEEEEeCCcCChhHHHHHHHcCCCCcCceehhhcCCCccceeccCHHHH-
Confidence            457899999999999999999877765 356888999987643222222211100001111  1 11     1122111 


Q ss_pred             HHHHHHHH--cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCe-eEEEEcC
Q 011624          255 KQGLEEAK--KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGI-TGAILTK  331 (481)
Q Consensus       255 ~~~l~~~~--~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i-~GvIlnK  331 (481)
                      ..++..+.  ..++|+++|+|.|..-.. .....+        .+.++.|+|+..+.+....   ....+.. .-+|+||
T Consensus        79 ~~~L~~l~~~~~~~D~iiIEt~G~~l~~-~~~~~l--------~~~~i~vvD~~~~~~~~~~---~~~qi~~ad~~~~~k  146 (199)
T TIGR00101        79 LEAVAEMEARFPPLEMVFIESGGDNLSA-TFSPEL--------ADLTIFVIDVAAGDKIPRK---GGPGITRSDLLVINK  146 (199)
T ss_pred             HHHHHHHHhcCCCCCEEEEECCCCCccc-ccchhh--------hCcEEEEEEcchhhhhhhh---hHhHhhhccEEEEEh
Confidence            22233331  246899999999942111 111111        2568999999766543221   1112222 3489999


Q ss_pred             CCCCC
Q 011624          332 LDGDS  336 (481)
Q Consensus       332 vD~~~  336 (481)
                      .|...
T Consensus       147 ~d~~~  151 (199)
T TIGR00101       147 IDLAP  151 (199)
T ss_pred             hhccc
Confidence            99753

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.34  E-value=1.8e-06  Score=78.35  Aligned_cols=112  Identities=25%  Similarity=0.406  Sum_probs=67.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC----------------
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT----------------  246 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~----------------  246 (481)
                      +.-|.++|++||||||++.+++..|.++|++|.=+-+---|-+        +...|..++...+                
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EVR~g--------GkR~GF~Ivdl~tg~~~~la~~~~~~~rv   76 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVREG--------GKRIGFKIVDLATGEEGILARVGFSRPRV   76 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeeeecC--------CeEeeeEEEEccCCceEEEEEcCCCCccc
Confidence            4568899999999999999999999999999884433322211        1111111111100                


Q ss_pred             -----CC-CHHHHHHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          247 -----EV-KPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       247 -----~~-~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                           .. ...+++..+++.+. +..|+||||--|-+.. ...+...+..++..-.  +++.++.-
T Consensus        77 GkY~V~v~~le~i~~~al~rA~-~~aDvIIIDEIGpMElks~~f~~~ve~vl~~~k--pliatlHr  139 (179)
T COG1618          77 GKYGVNVEGLEEIAIPALRRAL-EEADVIIIDEIGPMELKSKKFREAVEEVLKSGK--PLIATLHR  139 (179)
T ss_pred             ceEEeeHHHHHHHhHHHHHHHh-hcCCEEEEecccchhhccHHHHHHHHHHhcCCC--cEEEEEec
Confidence                 01 11234556666664 5689999999988765 3445555555555332  24555543

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=98.34  E-value=1.3e-06  Score=79.83  Aligned_cols=132  Identities=25%  Similarity=0.251  Sum_probs=74.4

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCC
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKN  265 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~  265 (481)
                      |+++|.+.|||||+-..|.      |.++.+-   .| |+             ..+......             +...+
T Consensus         3 ialvG~PNvGKStLfN~Lt------g~~~~v~---n~-pG-------------~Tv~~~~g~-------------~~~~~   46 (156)
T PF02421_consen    3 IALVGNPNVGKSTLFNALT------GAKQKVG---NW-PG-------------TTVEKKEGI-------------FKLGD   46 (156)
T ss_dssp             EEEEESTTSSHHHHHHHHH------TTSEEEE---ES-TT-------------SSSEEEEEE-------------EEETT
T ss_pred             EEEECCCCCCHHHHHHHHH------CCCceec---CC-CC-------------CCeeeeeEE-------------EEecC
Confidence            7889999999999998887      6553311   12 22             111100000             01245


Q ss_pred             CcEEEEcCCCCccccHHHHHHH--HhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhH---
Q 011624          266 VDVVIVDTAGRLQIDKAMMDEL--KDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGA---  340 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el--~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~---  340 (481)
                      ..+.+||+||.......+.+|.  .+.+..-+++-+++|+|++.-+.-......+.+.-...-+++||+|...+.|.   
T Consensus        47 ~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~g~~id  126 (156)
T PF02421_consen   47 QQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIPVVVVLNKMDEAERKGIEID  126 (156)
T ss_dssp             EEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEEEEETHHHHHHTTEEE-
T ss_pred             ceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEEeCHHHHHHcCCEEC
Confidence            7899999999654322221111  11222346799999999966554445554444322335689999998665443   


Q ss_pred             HHHHHHHhCCCeE
Q 011624          341 ALSVKEVSGKPIK  353 (481)
Q Consensus       341 ~~~~~~~~glPV~  353 (481)
                      ...+.+.+|+||.
T Consensus       127 ~~~Ls~~Lg~pvi  139 (156)
T PF02421_consen  127 AEKLSERLGVPVI  139 (156)
T ss_dssp             HHHHHHHHTS-EE
T ss_pred             HHHHHHHhCCCEE
Confidence            3566778899994

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>PHA02542 41 41 helicase; Provisional

Probab=98.34  E-value=0.00011  Score=78.96  Aligned_cols=82  Identities=18%  Similarity=0.163  Sum_probs=55.4

Q ss_pred             hHHHHHHHHHHHHHHhh-ccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHH
Q 011624          128 LPVVRRFVQAVSEQAVG-VGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANY  206 (481)
Q Consensus       128 ~~~v~~l~~~l~~~~~~-~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~  206 (481)
                      ..+..+.++.+.++... .....++..+       ...|.++++++..       +..+++++|.+|+||||++.++|..
T Consensus       148 ~~~~~~~~~~ie~~~~~~~~~~~gi~TG-------~~~LD~~t~gGl~-------~G~LiiIaarPgmGKTtfalniA~~  213 (473)
T PHA02542        148 SSVGHDYFEDYEERYDSYQSKANKIPFK-------LEILNKITKGGAE-------RKTLNVLLAGVNVGKSLGLCSLAAD  213 (473)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCccCCC-------cHHHHHhccCCCC-------CCcEEEEEcCCCccHHHHHHHHHHH
Confidence            55566666666554211 1112222222       2466677733332       4568999999999999999999998


Q ss_pred             HHHcCCeEEEEeccCCc
Q 011624          207 LKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       207 L~~~G~kVlLId~D~~r  223 (481)
                      .++.|++|++++++.-+
T Consensus       214 ~a~~g~~Vl~fSLEM~~  230 (473)
T PHA02542        214 YLQQGYNVLYISMEMAE  230 (473)
T ss_pred             HHhcCCcEEEEeccCCH
Confidence            88889999999999654

>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=98.34  E-value=1.4e-06  Score=79.67  Aligned_cols=44  Identities=39%  Similarity=0.536  Sum_probs=39.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~  225 (481)
                      +|.+|+++|.+|+||||++..|...|..+|.+|.++|.|..|.+
T Consensus         1 ~g~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~lR~~   44 (156)
T PF01583_consen    1 KGFVIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNLRHG   44 (156)
T ss_dssp             S-EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHHCTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcchhhc
Confidence            47899999999999999999999999999999999999987744

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 ....

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=98.33  E-value=9.3e-07  Score=88.23  Aligned_cols=90  Identities=21%  Similarity=0.261  Sum_probs=57.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc----hhHHHHHHHhhhhcCCCe---ecCCCCC--CHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR----PAAIDQLVILGEQVGVPV---YTAGTEV--KPSQIA  254 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r----p~aidql~~~~~~~gv~v---~~~~~~~--~~~~~l  254 (481)
                      +++.++|.+||||||++.+|+..|+++| +|++|+.|+..    ++ .|..+.+  ..|.+.   ++.....  .....+
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKhd~h~~~~~~g-~Ds~~~~--~aGa~~v~~~s~~~~~~~~~~~~l   77 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKHMDTERLNPDG-TDTGRHF--DAGADVVYGLTDGEWVASGRDRSL   77 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEEcCCCcCCCCC-CCcHHHH--HCCCcEEEEecCCeEEEEecCCCH
Confidence            4789999999999999999999999999 89999999843    33 1222111  123221   1111000  000112


Q ss_pred             HHHHHHHHcCCCcEEEEcCCCCcc
Q 011624          255 KQGLEEAKKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       255 ~~~l~~~~~~~~D~VIIDt~G~~~  278 (481)
                      .+.+..+. .++|+|||||.+...
T Consensus        78 ~~~l~~l~-~~~D~vlVEG~k~~~  100 (274)
T PRK14493         78 DDALDDLA-PGMDYAVVEGFKDSR  100 (274)
T ss_pred             HHHHHhhC-cCCCEEEEECCCCCC
Confidence            34444443 579999999998754

>PRK15494 era GTPase Era; Provisional

Probab=98.33  E-value=1.6e-06  Score=89.26  Aligned_cols=190  Identities=15%  Similarity=0.240  Sum_probs=93.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ..-++++|.+||||||+...|.      |.++..+..-++   .     +.....+  ++.                   
T Consensus        52 ~~kV~ivG~~nvGKSTLin~l~------~~k~~ivs~k~~---t-----Tr~~~~~--~~~-------------------   96 (339)
T PRK15494         52 TVSVCIIGRPNSGKSTLLNRII------GEKLSIVTPKVQ---T-----TRSIITG--IIT-------------------   96 (339)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHh------CCceeeccCCCC---C-----ccCcEEE--EEE-------------------
Confidence            3468889999999999998885      555553322111   0     1010111  111                   


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhh--hhccCCceEEEEEeCcch-HHH-HHHHHHhhh-cCCeeEEEEcCCCCCCc
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDV--KRVLNPTEVLLVVDAMTG-QEA-AALVTTFNI-EIGITGAILTKLDGDSR  337 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i--~~~~~p~~vvLVvda~~~-~~~-~~~~~~f~~-~~~i~GvIlnKvD~~~~  337 (481)
                      .+++.++++||||.......+...+.+.  ......+.+++|+|+..+ .+. ...+..... ...+ -+|+||+|....
T Consensus        97 ~~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~~~p~-IlViNKiDl~~~  175 (339)
T PRK15494         97 LKDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLKSFDDITHNILDKLRSLNIVP-IFLLNKIDIESK  175 (339)
T ss_pred             eCCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCE-EEEEEhhcCccc
Confidence            1356789999999753222222222111  112245788999998433 111 112222211 1223 478999997433


Q ss_pred             -hhHHHHHHHHhC--CCeEEeec--CCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhcccccH
Q 011624          338 -GGAALSVKEVSG--KPIKLVGR--GERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDF  412 (481)
Q Consensus       338 -~g~~~~~~~~~g--lPV~~ig~--g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~~~~dl  412 (481)
                       ...+...+...+  .++..+..  |.+++++.        +.+      ..+.......++++...+...+++..++-.
T Consensus       176 ~~~~~~~~l~~~~~~~~i~~iSAktg~gv~eL~--------~~L------~~~l~~~~~~~~~~~~td~~~~~~~~eiiR  241 (339)
T PRK15494        176 YLNDIKAFLTENHPDSLLFPISALSGKNIDGLL--------EYI------TSKAKISPWLYAEDDITDLPMRFIAAEITR  241 (339)
T ss_pred             cHHHHHHHHHhcCCCcEEEEEeccCccCHHHHH--------HHH------HHhCCCCCCCCCCCCCCCCCHHHHHHHHHH
Confidence             112222222222  23322221  22222211        100      000111122334555666677888888889


Q ss_pred             HHHHHHHhhh
Q 011624          413 NDFLKQTRTV  422 (481)
Q Consensus       413 ~~l~~~~~~~  422 (481)
                      |.++..+++-
T Consensus       242 e~~~~~~~~E  251 (339)
T PRK15494        242 EQLFLNLQKE  251 (339)
T ss_pred             HHHHhhCCcc
Confidence            9999888764

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=98.33  E-value=9.9e-06  Score=78.78  Aligned_cols=107  Identities=22%  Similarity=0.370  Sum_probs=65.9

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhc-----
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQV-----  237 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~-----  237 (481)
                      ..|.++++++..       ++.+++++|++|+||||++..++....++|.+|++++.+--.....+++..++-..     
T Consensus        12 ~~LD~~l~gG~~-------~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~~~~~~~~~~~g~~~~~~~~   84 (234)
T PRK06067         12 EELDRKLGGGIP-------FPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTSKSYLKQMESVKIDISDFFL   84 (234)
T ss_pred             HHHHHhhCCCCc-------CCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCHHHHHHHHHHCCCChhHHHh
Confidence            456777776553       56799999999999999999999887788999999999854333333332222100     


Q ss_pred             --CCCeecCC------CCCCHHHHHHHHHHHHHcCCCcEEEEcCCCC
Q 011624          238 --GVPVYTAG------TEVKPSQIAKQGLEEAKKKNVDVVIVDTAGR  276 (481)
Q Consensus       238 --gv~v~~~~------~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~  276 (481)
                        .+.++...      ......+.+......+...+++++|||.+..
T Consensus        85 ~g~l~i~~~~~~~~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t~  131 (234)
T PRK06067         85 WGYLRIFPLNTEGFEWNSTLANKLLELIIEFIKSKREDVIIIDSLTI  131 (234)
T ss_pred             CCCceEEeccccccccCcchHHHHHHHHHHHHHhcCCCEEEEecHHH
Confidence              01111110      0111223333333333334789999999863

>cd04163 Era Era subfamily

Probab=98.33  E-value=1e-05  Score=72.33  Aligned_cols=119  Identities=19%  Similarity=0.242  Sum_probs=64.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ...|+++|++|+||||++..|.      |.++..+..++....          ......+                   .
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~------~~~~~~~~~~~~~~~----------~~~~~~~-------------------~   47 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALV------GQKISIVSPKPQTTR----------NRIRGIY-------------------T   47 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHh------CCceEeccCCCCcee----------ceEEEEE-------------------E
Confidence            4579999999999999999886      566664443322100          0000000                   0


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHh--hhhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKD--VKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~--i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+++++++||||...........+..  .......+.+++|+|+...  +........+...-....+|+||+|...
T Consensus        48 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~  125 (168)
T cd04163          48 DDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEGDEFILELLKKSKTPVILVLNKIDLVK  125 (168)
T ss_pred             cCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCchHHHHHHHHHHhCCCEEEEEEchhccc
Confidence            135789999999976432211111110  1112234778999998543  2222222222211123568999999763

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=98.31  E-value=6.3e-06  Score=84.08  Aligned_cols=159  Identities=20%  Similarity=0.240  Sum_probs=85.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCC-------CCCCHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAG-------TEVKPSQIAKQ  256 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~-------~~~~~~~~l~~  256 (481)
                      .|.+++|.-|+||||+..+|...  ..|.++++|-.|.-..+.-..+ . . ..+..++.+.       ...+-...+.+
T Consensus         5 pv~iltGFLGaGKTTll~~ll~~--~~~~riaVi~NEfG~v~iD~~l-l-~-~~~~~v~eL~~GCiCCs~~~~l~~~l~~   79 (318)
T PRK11537          5 AVTLLTGFLGAGKTTLLRHILNE--QHGYKIAVIENEFGEVSVDDQL-I-G-DRATQIKTLTNGCICCSRSNELEDALLD   79 (318)
T ss_pred             CEEEEEECCCCCHHHHHHHHHhc--ccCCcccccccCcCCccccHHH-H-h-CcCceEEEECCCEEEEccCchHHHHHHH
Confidence            48899999999999999999753  4689999999886543321122 1 1 1122222221       11222223333


Q ss_pred             HHHHHHcC--CCcEEEEcCCCCccccHHHHHHH---HhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCC-eeEEEEc
Q 011624          257 GLEEAKKK--NVDVVIVDTAGRLQIDKAMMDEL---KDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG-ITGAILT  330 (481)
Q Consensus       257 ~l~~~~~~--~~D~VIIDt~G~~~~d~~~~~el---~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~-i~GvIln  330 (481)
                      .+.....+  .+|+|||+|.|.... ..++..+   ..+...+.-+.++.|+|+............+...+. -.-||+|
T Consensus        80 l~~~~~~~~~~~d~IvIEttG~a~p-~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~~AD~Ivln  158 (318)
T PRK11537         80 LLDNLDKGNIQFDRLVIECTGMADP-GPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLT  158 (318)
T ss_pred             HHHHHhccCCCCCEEEEECCCccCH-HHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHHhCCEEEEe
Confidence            33332211  599999999998642 2233322   111222223678999999543221111111111121 1458999


Q ss_pred             CCCCCCchhHHHHHHHHh
Q 011624          331 KLDGDSRGGAALSVKEVS  348 (481)
Q Consensus       331 KvD~~~~~g~~~~~~~~~  348 (481)
                      |+|.......+.......
T Consensus       159 K~Dl~~~~~~~~~~l~~l  176 (318)
T PRK11537        159 KTDVAGEAEKLRERLARI  176 (318)
T ss_pred             ccccCCHHHHHHHHHHHh
Confidence            999765444444444444

>TIGR02012 tigrfam_recA protein RecA

Probab=98.29  E-value=6e-06  Score=84.01  Aligned_cols=100  Identities=22%  Similarity=0.356  Sum_probs=66.0

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCe
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPV  241 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v  241 (481)
                      ..|..+|+ ++..       +.+++.+.|++|+||||++..++....++|.+|++||+.-.    .++  .+....|++.
T Consensus        41 ~~LD~~Lg~GGlp-------~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~----~~~--~~a~~lGvd~  107 (321)
T TIGR02012        41 LSLDLALGVGGLP-------RGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHA----LDP--VYARKLGVDI  107 (321)
T ss_pred             HHHHHHhcCCCCc-------CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccch----hHH--HHHHHcCCCH
Confidence            46677777 5543       56899999999999999999999999999999999998732    122  1344445432


Q ss_pred             ---ecCCCCCCHHHHHHHHHHH-HHcCCCcEEEEcCCCCc
Q 011624          242 ---YTAGTEVKPSQIAKQGLEE-AKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       242 ---~~~~~~~~~~~~l~~~l~~-~~~~~~D~VIIDt~G~~  277 (481)
                         +.... ....+.+ ..+.. .+...+++||||+...+
T Consensus       108 ~~l~v~~p-~~~eq~l-~~~~~li~~~~~~lIVIDSv~al  145 (321)
T TIGR02012       108 DNLLVSQP-DTGEQAL-EIAETLVRSGAVDIIVVDSVAAL  145 (321)
T ss_pred             HHeEEecC-CCHHHHH-HHHHHHhhccCCcEEEEcchhhh
Confidence               11111 1223332 22322 33467999999997654

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.

>KOG2825 consensus Putative arsenite-translocating ATPase [Inorganic ion transport and metabolism]

Probab=98.29  E-value=2.2e-06  Score=82.75  Aligned_cols=41  Identities=37%  Similarity=0.447  Sum_probs=37.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      -+-|.+.|+|||||||.++.||..|++-+.+|++|..||-.
T Consensus        19 lKwifVGGKGGVGKTTcs~sLAvqla~~r~~vLiISTDPAH   59 (323)
T KOG2825|consen   19 LKWIFVGGKGGVGKTTCSCSLAVQLAKVRESVLIISTDPAH   59 (323)
T ss_pred             eeEEEEcCcCCcCccchhhHHHHHHhccCCceEEeecCccc
Confidence            35788889999999999999999999999999999999854

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.29  E-value=8.9e-06  Score=70.06  Aligned_cols=91  Identities=29%  Similarity=0.310  Sum_probs=59.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      +..+++.|++|+||||++..||..+...+..+.+++++........+..      ....................+..++
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~   75 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLL------LIIVGGKKASGSGELRLRLALALAR   75 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHH------hhhhhccCCCCCHHHHHHHHHHHHH
Confidence            3578999999999999999999988877778999999976543322211      0011111112233344445555555


Q ss_pred             cCCCcEEEEcCCCCccc
Q 011624          263 KKNVDVVIVDTAGRLQI  279 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~  279 (481)
                      ...+++++||.++....
T Consensus        76 ~~~~~viiiDei~~~~~   92 (148)
T smart00382       76 KLKPDVLILDEITSLLD   92 (148)
T ss_pred             hcCCCEEEEECCcccCC
Confidence            44569999999988754

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=98.29  E-value=3.8e-06  Score=83.28  Aligned_cols=40  Identities=20%  Similarity=0.346  Sum_probs=36.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ++.+++++|++|+||||++..++...+++|.+|++++.+.
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence            4679999999999999999999998888899999999984

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK04220 2-phosphoglycerate kinase; Provisional

Probab=98.28  E-value=3.4e-06  Score=84.79  Aligned_cols=101  Identities=25%  Similarity=0.372  Sum_probs=75.0

Q ss_pred             HHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCcccc-cc-----ccCCCCEEEEEEc
Q 011624          117 IRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSE-LV-----FAKSRPTVILLAG  190 (481)
Q Consensus       117 i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~-~~-----~~~~~~~VI~i~G  190 (481)
                      |.+.|..+|+++.++-++...+.+.+......  ....+.+.+.+.+.|.+..++.... +.     .....|.+|+++|
T Consensus        22 L~rsL~~~g~~~~~A~~iA~~i~~~L~~~g~~--~i~~~el~~~V~~~L~~~~~~~~~~~y~~~~~i~~~~~p~iIlI~G   99 (301)
T PRK04220         22 LARSLTAAGMKPSIAYEIASEIEEELKKEGIK--EITKEELRRRVYYKLIEKDYEEVAEKYLLWRRIRKSKEPIIILIGG   99 (301)
T ss_pred             HHHHHHHcCCChhHHHHHHHHHHHHHHHcCCE--EeeHHHHHHHHHHHHHHhCcHhHHHHHHHHHHHhcCCCCEEEEEEC
Confidence            67789999999999999999998887765321  2345667777777777765543221 11     1235788999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          191 LQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       191 ~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++|+||||++.+||..|   |.. .+|.+|.+|
T Consensus       100 ~sgsGKStlA~~La~~l---~~~-~vi~~D~~r  128 (301)
T PRK04220        100 ASGVGTSTIAFELASRL---GIR-SVIGTDSIR  128 (301)
T ss_pred             CCCCCHHHHHHHHHHHh---CCC-EEEechHHH
Confidence            99999999999999888   555 468899887

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=98.24  E-value=7.2e-06  Score=88.43  Aligned_cols=102  Identities=20%  Similarity=0.193  Sum_probs=69.5

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCe-
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPV-  241 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v-  241 (481)
                      .+|.++++++..       +..+++++|++|+||||++..+++..+++|.+|+++..+--.    +|+...++..|++. 
T Consensus       250 ~~lD~~lgGG~~-------~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~----~~i~~~~~~lg~~~~  318 (484)
T TIGR02655       250 VRLDEMCGGGFF-------KDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEESR----AQLLRNAYSWGIDFE  318 (484)
T ss_pred             HhHHHHhcCCcc-------CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCH----HHHHHHHHHcCCChH
Confidence            567777877654       568999999999999999999999999999999999988543    34444444444432 


Q ss_pred             ----------ecCC-CCCCHHHHHHHHHHHHHcCCCcEEEEcCCC
Q 011624          242 ----------YTAG-TEVKPSQIAKQGLEEAKKKNVDVVIVDTAG  275 (481)
Q Consensus       242 ----------~~~~-~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G  275 (481)
                                +... ....+.+.+...++.+...+++.|+||+-.
T Consensus       319 ~~~~~g~l~~~~~~p~~~~~~~~~~~i~~~i~~~~~~~vvIDsi~  363 (484)
T TIGR02655       319 EMEQQGLLKIICAYPESAGLEDHLQIIKSEIADFKPARIAIDSLS  363 (484)
T ss_pred             HHhhCCcEEEEEcccccCChHHHHHHHHHHHHHcCCCEEEEcCHH
Confidence                      1111 122334455555555544567788888743

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=98.24  E-value=9e-06  Score=84.61  Aligned_cols=99  Identities=26%  Similarity=0.453  Sum_probs=67.2

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      .+|.++|+++..       +..++++.|.+|+||||++..+|..+++.|.+|++++.+--    .+|++..+...|+..-
T Consensus        69 ~eLD~vLgGGi~-------~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs----~~qi~~Ra~rlg~~~~  137 (372)
T cd01121          69 EELDRVLGGGLV-------PGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEES----PEQIKLRADRLGISTE  137 (372)
T ss_pred             HHHHHhhcCCcc-------CCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcC----HHHHHHHHHHcCCCcc
Confidence            577888887654       45799999999999999999999999998999999988732    3455444555554321


Q ss_pred             cC--CCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCC
Q 011624          243 TA--GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGR  276 (481)
Q Consensus       243 ~~--~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~  276 (481)
                      ..  ....+. +   +.++.+...++++||||.-..
T Consensus       138 ~l~l~~e~~l-e---~I~~~i~~~~~~lVVIDSIq~  169 (372)
T cd01121         138 NLYLLAETNL-E---DILASIEELKPDLVIIDSIQT  169 (372)
T ss_pred             cEEEEccCcH-H---HHHHHHHhcCCcEEEEcchHH
Confidence            11  011122 2   223333345789999999643

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=98.23  E-value=7.8e-06  Score=75.79  Aligned_cols=43  Identities=35%  Similarity=0.604  Sum_probs=39.5

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +++.+|+++|.+|+||||++..|+..+...|.+|.+++.|.+|
T Consensus         2 ~~g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D~~~   44 (175)
T PRK00889          2 QRGVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDAVR   44 (175)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCccHH
Confidence            4578999999999999999999999999889999999999775

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=98.23  E-value=5.8e-06  Score=80.51  Aligned_cols=108  Identities=25%  Similarity=0.353  Sum_probs=68.6

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhc-----
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQV-----  237 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~-----  237 (481)
                      ++|.+.++++..       +..++++.|++|+||||++.+++..+.++|.++.+++.+-.....++++..++...     
T Consensus        11 ~~ld~~l~ggi~-------~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~~~~~~~~~~~g~~~~~~~~   83 (230)
T PRK08533         11 DELHKRLGGGIP-------AGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTTTEFIKQMMSLGYDINKKLI   83 (230)
T ss_pred             eeeehhhCCCCC-------CCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHhCCchHHHhh
Confidence            456666765432       35699999999999999999999988889999999999877666666654332111     


Q ss_pred             --CCCeecCCC-CC---CHHHHHHHHHHHHHcCCCcEEEEcCCCCc
Q 011624          238 --GVPVYTAGT-EV---KPSQIAKQGLEEAKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       238 --gv~v~~~~~-~~---~~~~~l~~~l~~~~~~~~D~VIIDt~G~~  277 (481)
                        .+....... ..   .....+...+......++++++||.+...
T Consensus        84 ~~~l~~~~~~~~~~~~~~~~~~l~~il~~~~~~~~~~lVIDe~t~~  129 (230)
T PRK08533         84 SGKLLYIPVYPLLSGNSEKRKFLKKLMNTRRFYEKDVIIIDSLSSL  129 (230)
T ss_pred             cCcEEEEEecccccChHHHHHHHHHHHHHHHhcCCCEEEEECccHH
Confidence              010111100 11   11233344444443346889999998653

>PRK09354 recA recombinase A; Provisional

Probab=98.21  E-value=1.3e-05  Score=82.22  Aligned_cols=100  Identities=20%  Similarity=0.345  Sum_probs=66.5

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCe
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPV  241 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v  241 (481)
                      ..|..+|+ ++..       +.+++.+.|++|+||||++..++....++|.+|++||+.-.    .++  .+....|+++
T Consensus        46 ~~LD~~LG~GGip-------~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s----~~~--~~a~~lGvdl  112 (349)
T PRK09354         46 LALDIALGIGGLP-------RGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHA----LDP--VYAKKLGVDI  112 (349)
T ss_pred             HHHHHHhcCCCCc-------CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccc----hHH--HHHHHcCCCH
Confidence            46777788 6553       56899999999999999999999988889999999999742    111  2344445542


Q ss_pred             ---ecCCCCCCHHHHHHHHHHH-HHcCCCcEEEEcCCCCc
Q 011624          242 ---YTAGTEVKPSQIAKQGLEE-AKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       242 ---~~~~~~~~~~~~l~~~l~~-~~~~~~D~VIIDt~G~~  277 (481)
                         +... .....+.+ ..+.. ++....++||||+...+
T Consensus       113 d~lli~q-p~~~Eq~l-~i~~~li~s~~~~lIVIDSvaaL  150 (349)
T PRK09354        113 DNLLVSQ-PDTGEQAL-EIADTLVRSGAVDLIVVDSVAAL  150 (349)
T ss_pred             HHeEEec-CCCHHHHH-HHHHHHhhcCCCCEEEEeChhhh
Confidence               1111 11233333 22322 34467999999997654

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=98.20  E-value=1.6e-05  Score=77.64  Aligned_cols=61  Identities=20%  Similarity=0.265  Sum_probs=47.8

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHH
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQL  230 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql  230 (481)
                      ..|.++++++..       ++.++++.|++|+||||++..++....++|.+|++++.+-.....++++
T Consensus         8 ~~LD~~l~GG~~-------~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee~~~~i~~~~   68 (237)
T TIGR03877         8 PGMDEILHGGIP-------ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEEHPVQVRRNM   68 (237)
T ss_pred             HhHHHHhcCCCc-------CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeCCHHHHHHHH
Confidence            356777776654       5689999999999999999999987778899999999986433333433

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=98.20  E-value=1.1e-05  Score=82.22  Aligned_cols=100  Identities=20%  Similarity=0.303  Sum_probs=65.3

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC-chhHHHHHHHhhhhcCCC
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY-RPAAIDQLVILGEQVGVP  240 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~-rp~aidql~~~~~~~gv~  240 (481)
                      ..|..+|+ ++..       +.+++.+.|++|+||||++..++....++|.+|++||+.-. .|.       +....|++
T Consensus        41 ~~LD~~Lg~GGlp-------~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~-------~a~~lGvd  106 (325)
T cd00983          41 LSLDIALGIGGYP-------KGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPV-------YAKKLGVD  106 (325)
T ss_pred             HHHHHHhcCCCcc-------CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHH-------HHHHcCCC
Confidence            46677777 5553       56799999999999999999999999999999999998632 222       23333443


Q ss_pred             eecC--CCCCCHHHHHHHHHHH-HHcCCCcEEEEcCCCCc
Q 011624          241 VYTA--GTEVKPSQIAKQGLEE-AKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       241 v~~~--~~~~~~~~~l~~~l~~-~~~~~~D~VIIDt~G~~  277 (481)
                      .-..  .......+.+ ..++. ++...+++||||+...+
T Consensus       107 ~~~l~v~~p~~~eq~l-~i~~~li~s~~~~lIVIDSvaal  145 (325)
T cd00983         107 LDNLLISQPDTGEQAL-EIADSLVRSGAVDLIVVDSVAAL  145 (325)
T ss_pred             HHHheecCCCCHHHHH-HHHHHHHhccCCCEEEEcchHhh
Confidence            2111  1111233332 22332 24467999999997544

RecA couples ATP hydrolysis to DNA strand exchange.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.19  E-value=2.3e-05  Score=70.23  Aligned_cols=93  Identities=20%  Similarity=0.248  Sum_probs=57.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhh---hhcCCCeecCCCCCCHHH-HHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILG---EQVGVPVYTAGTEVKPSQ-IAKQGLEE  260 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~---~~~gv~v~~~~~~~~~~~-~l~~~l~~  260 (481)
                      ++++.|++|+||||++..++..+..+|.+|++++.+.........+....   ...+..++.......... ........
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERL   80 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHH
Confidence            36789999999999999999999999999999999976554433321111   111222322222222121 11122222


Q ss_pred             HHcCCCcEEEEcCCCCc
Q 011624          261 AKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       261 ~~~~~~D~VIIDt~G~~  277 (481)
                      ....+++++|||.+..+
T Consensus        81 ~~~~~~~~lviDe~~~~   97 (165)
T cd01120          81 RERGGDDLIILDELTRL   97 (165)
T ss_pred             HhCCCCEEEEEEcHHHH
Confidence            33467889999997653

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.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=98.18  E-value=5.7e-05  Score=76.94  Aligned_cols=164  Identities=18%  Similarity=0.191  Sum_probs=92.5

Q ss_pred             HHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHH---------HHHHH
Q 011624           95 AWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKI---------VRDEL  165 (481)
Q Consensus        95 ~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~---------l~~~L  165 (481)
                      .+++|...+.-|-+++-..  .-.+.....|++...+.++.+.+.+....     +......+.+.         --..|
T Consensus        13 ~~~~L~~~g~~t~~~~~~~--~~~~L~~~~gls~~~~~~i~~~~~~~~~~-----~~~ta~~~~~~~~~~~~isTG~~~L   85 (313)
T TIGR02238        13 DIKKLKSAGICTVNGVIMT--TRRALCKIKGLSEAKVDKIKEAASKIINP-----GFITAFEISQKRKKVLKITTGSQAL   85 (313)
T ss_pred             HHHHHHHcCCCcHHHHHhC--CHHHHHHhcCCCHHHHHHHHHHHHhhhcc-----cCccHHHHHHhhccCceeCCCCHHH
Confidence            3455555444444433221  11222344888888888888877665321     12222222111         11467


Q ss_pred             HHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH------HcCCeEEEEeccC-CchhHHHHHHHhhhhcC
Q 011624          166 VKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLK------KQGKSCMLVAGDV-YRPAAIDQLVILGEQVG  238 (481)
Q Consensus       166 ~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~------~~G~kVlLId~D~-~rp~aidql~~~~~~~g  238 (481)
                      .++|+++..       ...|+-++|++|+|||+++..++....      ..|.+|++||+.- |+|.-+.++   ++..|
T Consensus        86 D~lLgGGi~-------~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~---a~~~g  155 (313)
T TIGR02238        86 DGILGGGIE-------SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAI---AERFG  155 (313)
T ss_pred             HHHhCCCCc-------CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHH---HHHcC
Confidence            777877654       467999999999999999999986433      2357999999985 677755443   33333


Q ss_pred             CCe-------ecCCCCCCHHH---HHHHHHHHHHcCCCcEEEEcCCCC
Q 011624          239 VPV-------YTAGTEVKPSQ---IAKQGLEEAKKKNVDVVIVDTAGR  276 (481)
Q Consensus       239 v~v-------~~~~~~~~~~~---~l~~~l~~~~~~~~D~VIIDt~G~  276 (481)
                      ++.       +.. ...+..+   .+......+...++++||||+-..
T Consensus       156 ~d~~~~l~~i~~~-~~~~~e~~~~~l~~l~~~i~~~~~~LvVIDSisa  202 (313)
T TIGR02238       156 VDPDAVLDNILYA-RAYTSEHQMELLDYLAAKFSEEPFRLLIVDSIMA  202 (313)
T ss_pred             CChHHhcCcEEEe-cCCCHHHHHHHHHHHHHHhhccCCCEEEEEcchH
Confidence            321       111 1112222   222222233345788999998653

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>COG1492 CobQ Cobyric acid synthase [Coenzyme metabolism]

Probab=98.17  E-value=4.5e-06  Score=88.06  Aligned_cols=166  Identities=22%  Similarity=0.352  Sum_probs=99.9

Q ss_pred             EEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH---------------HHHHHHhhhhcCC---------
Q 011624          185 VILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA---------------IDQLVILGEQVGV---------  239 (481)
Q Consensus       185 VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a---------------idql~~~~~~~gv---------  239 (481)
                      .|++.|. +.+|||++++.|+..+.++|++|.     ||++.-               ..|+ .-+...++         
T Consensus         3 ~iMv~GT~S~~GKS~~~aglcRi~~~~G~~V~-----PFK~QNMsLNs~it~~G~EIgraQ~-~QA~Aa~i~p~v~mNPv   76 (486)
T COG1492           3 AIMVQGTTSDAGKSFLVAGLCRILARRGYRVA-----PFKSQNMSLNSAITPGGGEIGRAQA-LQALAAGIEPSVHMNPV   76 (486)
T ss_pred             ccEEEeccCCcchhhhhhhhhHHHHhcCCccC-----CCchhhcccccEECCCCcEEehhhh-HHHHHcCCCCccccCCE
Confidence            3566666 999999999999999999999999     997542               1122 11111121         


Q ss_pred             ----------CeecCCC---CCCHHH-----------HHHHHHHHHHcCCCcEEEEcCCCCccc----cHHH-HHHHHhh
Q 011624          240 ----------PVYTAGT---EVKPSQ-----------IAKQGLEEAKKKNVDVVIVDTAGRLQI----DKAM-MDELKDV  290 (481)
Q Consensus       240 ----------~v~~~~~---~~~~~~-----------~l~~~l~~~~~~~~D~VIIDt~G~~~~----d~~~-~~el~~i  290 (481)
                                .++..+.   ..++.+           .+.+.++.+ ...||+|+++++|....    +..+ .-.++++
T Consensus        77 LLKP~sd~~sQVIv~G~~~G~~s~~~yy~~~~~~l~~~v~~s~~~l-~~~~d~Vv~EGAGSpaEiNlr~~Di~Nm~~a~~  155 (486)
T COG1492          77 LLKPCSDTGSQVIVMGKDIGRKSAVEYYQEGKGLLWVAVKESLERL-DREYDVVVIEGAGSPAEINLRDRDIANMGVAEI  155 (486)
T ss_pred             EEeecCCCceEEEEecccccccChHHHHHHHHHHHHHHHHHHHHHh-hhcccEEEEecCCChhhcCcccccccceeeehh
Confidence                      1221111   112222           224555554 47899999999987532    1110 1112222


Q ss_pred             hhccCCceEEEEEeCcchH---HHHHHHHHh--hhcCCeeEEEEcCCCCCCc--hhHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          291 KRVLNPTEVLLVVDAMTGQ---EAAALVTTF--NIEIGITGAILTKLDGDSR--GGAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       291 ~~~~~p~~vvLVvda~~~~---~~~~~~~~f--~~~~~i~GvIlnKvD~~~~--~g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                      .    ..+++||.|-..|-   +..-...-.  ..+-.+.|+|+||+.++..  ...+..+.+.+|+||  +|..|..++
T Consensus       156 ~----dapvILV~DIdRGGvfAsl~GT~~lL~~~~r~~VkG~iINkFRGd~~ll~~gik~Le~~tg~~v--lGv~P~~~~  229 (486)
T COG1492         156 A----DAPVILVGDIDRGGVFASLYGTLALLPESDRALVKGFIINKFRGDESLLDPGLKWLEELTGVPV--LGVLPYLKD  229 (486)
T ss_pred             c----CCCEEEEEeecccceeeeeeehheecCHhHhcceeEEEEeeeCCCHHHHhhHHHHHHHhhCCee--Eeecccccc
Confidence            2    27889998874431   111111111  2234689999999998765  344566777899999  999988855

>PRK11823 DNA repair protein RadA; Provisional

Probab=98.15  E-value=1.5e-05  Score=84.96  Aligned_cols=99  Identities=25%  Similarity=0.440  Sum_probs=67.3

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      .+|.++++++..       +..++++.|.+|+||||++..++..++++|.+|++++++-.    .+|+...++..|...-
T Consensus        67 ~~LD~~LgGGi~-------~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees----~~qi~~ra~rlg~~~~  135 (446)
T PRK11823         67 GELDRVLGGGLV-------PGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEES----ASQIKLRAERLGLPSD  135 (446)
T ss_pred             HHHHHHhcCCcc-------CCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcccc----HHHHHHHHHHcCCChh
Confidence            577888887654       45799999999999999999999999888999999998632    3455444455554221


Q ss_pred             c--CCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCC
Q 011624          243 T--AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGR  276 (481)
Q Consensus       243 ~--~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~  276 (481)
                      .  .....+..    +.++.++..++++||||....
T Consensus       136 ~l~~~~e~~l~----~i~~~i~~~~~~lVVIDSIq~  167 (446)
T PRK11823        136 NLYLLAETNLE----AILATIEEEKPDLVVIDSIQT  167 (446)
T ss_pred             cEEEeCCCCHH----HHHHHHHhhCCCEEEEechhh
Confidence            1  11112222    233333345789999999753

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=98.13  E-value=9.4e-05  Score=76.16  Aligned_cols=123  Identities=15%  Similarity=0.152  Sum_probs=77.9

Q ss_pred             HHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHH---------HHHH
Q 011624           94 AAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKI---------VRDE  164 (481)
Q Consensus        94 ~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~---------l~~~  164 (481)
                      ..+++|...+.-|-+++-..  .-.+.....|++..-+.++++...+....     +......+.+.         -...
T Consensus        42 ~~~~kL~~~g~~tv~~~~~~--~~~~L~~~~g~s~~~~~ki~~~a~~~~~~-----~~~ta~~~~~~~~~~~~isTG~~~  114 (344)
T PLN03187         42 GDVKKLQDAGIYTCNGLMMH--TKKNLTGIKGLSEAKVDKICEAAEKLLNQ-----GFITGSDALLKRKSVVRITTGSQA  114 (344)
T ss_pred             HHHHHHHHcCCCcHHHHHhC--CHHHHHHhcCCCHHHHHHHHHHHHHhhcc-----cCCcHHHHHhhhccCceecCCcHh
Confidence            45667766665555444221  11222345899999999999887765421     22222222211         1145


Q ss_pred             HHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH---c---CCeEEEEeccC-CchhHHHHH
Q 011624          165 LVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK---Q---GKSCMLVAGDV-YRPAAIDQL  230 (481)
Q Consensus       165 L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~---~---G~kVlLId~D~-~rp~aidql  230 (481)
                      |.++|+++..       ...|+-++|++|+|||+++..|+.....   .   +.+|++||..- |+|.-+.++
T Consensus       115 LD~lLgGGi~-------~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~i  180 (344)
T PLN03187        115 LDELLGGGIE-------TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPI  180 (344)
T ss_pred             HHhhcCCCCC-------CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHH
Confidence            7777776553       4579999999999999999999865431   2   26999999974 788755544

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=98.13  E-value=1.6e-05  Score=74.01  Aligned_cols=44  Identities=25%  Similarity=0.273  Sum_probs=37.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAID  228 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aid  228 (481)
                      ++++.|++|+|||+++..++....++|.+|++++.+.-.....+
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~~~~~~~   44 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEESPEELIE   44 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCHHHHHH
Confidence            36789999999999999999999899999999999865433333

A related protein is found in archaea.

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=98.09  E-value=8.4e-06  Score=74.59  Aligned_cols=37  Identities=30%  Similarity=0.429  Sum_probs=34.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      |+.++|++|+||||++.+|+..|..+|++|.+|..|.
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~~   37 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKARGYRVATIKHDH   37 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEeccc
Confidence            5788999999999999999999999999999998764

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.

>PTZ00035 Rad51 protein; Provisional

Probab=98.08  E-value=0.00015  Score=74.67  Aligned_cols=123  Identities=21%  Similarity=0.230  Sum_probs=74.6

Q ss_pred             HHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHH---------HHHH
Q 011624           94 AAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKI---------VRDE  164 (481)
Q Consensus        94 ~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~---------l~~~  164 (481)
                      ..+++|...+.-|-+++-..  .-.+.....|++..-+++|++..++....     +......+.+.         -...
T Consensus        34 ~~~~kL~~~g~~t~~~~~~~--~~~~L~~~~gis~~~~~~i~~~~~~~~~~-----~~~ta~~~~~~~~~~~~isTG~~~  106 (337)
T PTZ00035         34 ADIKKLKEAGICTVESVAYA--TKKDLCNIKGISEAKVEKIKEAASKLVPM-----GFISATEYLEARKNIIRITTGSTQ  106 (337)
T ss_pred             HHHHHHHHcCCCcHHHHHhC--CHHHHHHhhCCCHHHHHHHHHHHHHhccc-----CCCCHHHHHHhhccCccccCCcHH
Confidence            34455555454444433221  11222335888888888888877665321     12222222111         1246


Q ss_pred             HHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH------cCCeEEEEeccC-CchhHHHHH
Q 011624          165 LVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK------QGKSCMLVAGDV-YRPAAIDQL  230 (481)
Q Consensus       165 L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~------~G~kVlLId~D~-~rp~aidql  230 (481)
                      |.++|+++..       ...++.++|++|+||||++..|+.....      .+.+|++||... |+|..+.++
T Consensus       107 LD~lLgGGi~-------~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri~~i  172 (337)
T PTZ00035        107 LDKLLGGGIE-------TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQI  172 (337)
T ss_pred             HHHHhCCCCC-------CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHHHHH
Confidence            7777776554       4679999999999999999999865542      456898999874 677655444

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=98.06  E-value=2.9e-05  Score=75.02  Aligned_cols=59  Identities=27%  Similarity=0.435  Sum_probs=44.4

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHH
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQ  229 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidq  229 (481)
                      .|.++++++..       ++.++++.|++|+|||+++..++...+++ |.+|++++.+.-....+++
T Consensus         7 ~LD~~l~GGip-------~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~   66 (226)
T PF06745_consen    7 GLDELLGGGIP-------KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIEN   66 (226)
T ss_dssp             THHHHTTTSEE-------TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHH
T ss_pred             hHHHhhcCCCC-------CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHH
Confidence            46777766654       56799999999999999999999888888 9999999998543333333

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>PRK04328 hypothetical protein; Provisional

Probab=98.05  E-value=3.9e-05  Score=75.62  Aligned_cols=54  Identities=22%  Similarity=0.284  Sum_probs=44.9

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ..|.++++++..       ++.++++.|++|+|||+++..++....++|.++++++.+-..
T Consensus        10 ~~LD~lL~GGip-------~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~   63 (249)
T PRK04328         10 PGMDEILYGGIP-------ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHP   63 (249)
T ss_pred             hhHHHHhcCCCc-------CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCH
Confidence            356777776653       467999999999999999999998877889999999998643

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=98.05  E-value=0.00011  Score=73.42  Aligned_cols=105  Identities=23%  Similarity=0.339  Sum_probs=71.6

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC-CchhHHHHHHHhhhhcCCCee
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV-YRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~-~rp~aidql~~~~~~~gv~v~  242 (481)
                      .|.++||++..       +.+|+=+.|+.|+||||+|..++....+.|.+|.+||+.- ++|.++.++.... ..++.+.
T Consensus        48 ~LD~~LGGGl~-------~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~~l~p~r~~~l~~~~-~d~l~v~  119 (279)
T COG0468          48 ALDEALGGGLP-------RGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHALDPERAKQLGVDL-LDNLLVS  119 (279)
T ss_pred             hHHHHhcCCcc-------cceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeCCCCCCHHHHHHHHHhh-hcceeEe
Confidence            56667776554       5678889999999999999999999999999999999986 8999988874331 2334443


Q ss_pred             cCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCc
Q 011624          243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       243 ~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~  277 (481)
                      ..+......+.+.. +.....+.+|+||||+...+
T Consensus       120 ~~~~~e~q~~i~~~-~~~~~~~~i~LvVVDSvaa~  153 (279)
T COG0468         120 QPDTGEQQLEIAEK-LARSGAEKIDLLVVDSVAAL  153 (279)
T ss_pred             cCCCHHHHHHHHHH-HHHhccCCCCEEEEecCccc
Confidence            33222222222222 22222235999999997654

>PRK12739 elongation factor G; Reviewed

Probab=98.04  E-value=0.0001  Score=82.91  Aligned_cols=144  Identities=20%  Similarity=0.232  Sum_probs=72.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +.+-|+++|+.++||||++..|....... .+..-++..   ....|.+ ......|+.+-...             ..+
T Consensus         7 ~irni~iiGh~~~GKsTL~~~ll~~~g~~-~~~~~v~~~---~~~~D~~-~~E~~rgiti~~~~-------------~~~   68 (691)
T PRK12739          7 KTRNIGIMAHIDAGKTTTTERILYYTGKS-HKIGEVHDG---AATMDWM-EQEQERGITITSAA-------------TTC   68 (691)
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHhCCCc-cccccccCC---ccccCCC-hhHhhcCCCcccee-------------EEE
Confidence            45678999999999999999987543211 011101100   0000000 00011122111100             011


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH--HHHHHHHh-hhcCCeeEEEEcCCCCCC-c
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE--AAALVTTF-NIEIGITGAILTKLDGDS-R  337 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~--~~~~~~~f-~~~~~i~GvIlnKvD~~~-~  337 (481)
                      .++++.+++|||||...    .+.++......  .|.+++|+|+..+..  ....+... ..+.++ -+++||+|... .
T Consensus        69 ~~~~~~i~liDTPG~~~----f~~e~~~al~~--~D~~ilVvDa~~g~~~qt~~i~~~~~~~~~p~-iv~iNK~D~~~~~  141 (691)
T PRK12739         69 FWKGHRINIIDTPGHVD----FTIEVERSLRV--LDGAVAVFDAVSGVEPQSETVWRQADKYGVPR-IVFVNKMDRIGAD  141 (691)
T ss_pred             EECCEEEEEEcCCCHHH----HHHHHHHHHHH--hCeEEEEEeCCCCCCHHHHHHHHHHHHcCCCE-EEEEECCCCCCCC
Confidence            24678899999999743    33444433333  378999999965511  11222211 223444 48999999653 2


Q ss_pred             -hhHHHHHHHHhCC
Q 011624          338 -GGAALSVKEVSGK  350 (481)
Q Consensus       338 -~g~~~~~~~~~gl  350 (481)
                       ...+..+...++.
T Consensus       142 ~~~~~~~i~~~l~~  155 (691)
T PRK12739        142 FFRSVEQIKDRLGA  155 (691)
T ss_pred             HHHHHHHHHHHhCC
Confidence             2233444455554

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=98.04  E-value=0.0017  Score=68.78  Aligned_cols=117  Identities=20%  Similarity=0.292  Sum_probs=67.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHH--HHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQ--IAKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~--~l~~~  257 (481)
                      +..+++++|.+|+|||+++.++|..++ ++|++|++++.+.-.......  ..+...|++...... .....+  .+..+
T Consensus       193 ~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm~~~~l~~R--l~~~~~~v~~~~~~~~~l~~~~~~~~~~~  270 (421)
T TIGR03600       193 KGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMSAEQLGER--LLASKSGINTGNIRTGRFNDSDFNRLLNA  270 (421)
T ss_pred             CCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCHHHHHHH--HHHHHcCCCHHHHhcCCCCHHHHHHHHHH
Confidence            456999999999999999999998887 679999999998643222222  234445665432211 222232  23344


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +..+  .+..+.|-|+++.. . ..+...+..+.... +..-++|||.
T Consensus       271 ~~~l--~~~~l~i~d~~~~t-~-~~i~~~~r~~~~~~-~~~~lvvIDy  313 (421)
T TIGR03600       271 VDRL--SEKDLYIDDTGGLT-V-AQIRSIARRIKRKK-GGLDLIVVDY  313 (421)
T ss_pred             HHHH--hcCCEEEECCCCCC-H-HHHHHHHHHHHHhc-CCCCEEEEec
Confidence            4554  34567666766542 1 22333333332221 1223677776

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>PRK04296 thymidine kinase; Provisional

Probab=98.04  E-value=1.2e-05  Score=75.90  Aligned_cols=88  Identities=19%  Similarity=0.260  Sum_probs=56.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec--cCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG--DVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~--D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      ..+++++|+.|+||||.+..++..+..+|++|+++..  |. |.+.    .......|+++... ......+.... +..
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~-~~~~----~~i~~~lg~~~~~~-~~~~~~~~~~~-~~~   74 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDD-RYGE----GKVVSRIGLSREAI-PVSSDTDIFEL-IEE   74 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccc-cccC----CcEecCCCCcccce-EeCChHHHHHH-HHh
Confidence            3588999999999999999999999989999998843  43 2221    12233344433221 11222333322 222


Q ss_pred             HHcCCCcEEEEcCCCCcc
Q 011624          261 AKKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       261 ~~~~~~D~VIIDt~G~~~  278 (481)
                       ..+++|+|+||.+..+.
T Consensus        75 -~~~~~dvviIDEaq~l~   91 (190)
T PRK04296         75 -EGEKIDCVLIDEAQFLD   91 (190)
T ss_pred             -hCCCCCEEEEEccccCC
Confidence             34589999999997763

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.02  E-value=0.0001  Score=69.95  Aligned_cols=122  Identities=22%  Similarity=0.221  Sum_probs=65.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE--EeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCML--VAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlL--Id~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      -++++|..++||||++..|.....+.|..-..  -..|...         .....|+.+-....             .+.
T Consensus         4 ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~---------~E~~rg~Ti~~~~~-------------~~~   61 (195)
T cd01884           4 NVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAP---------EEKARGITINTAHV-------------EYE   61 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCCh---------hhhhcCccEEeeee-------------Eec
Confidence            47889999999999999998766555432110  0111110         01112332221110             112


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCe--eEEEEcCCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGI--TGAILTKLDGD  335 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i--~GvIlnKvD~~  335 (481)
                      .++..+++|||||...    +..++.....  ..+.+++|+|+..+  ......+... ...++  .-+++||+|..
T Consensus        62 ~~~~~i~~iDtPG~~~----~~~~~~~~~~--~~D~~ilVvda~~g~~~~~~~~~~~~-~~~~~~~iIvviNK~D~~  131 (195)
T cd01884          62 TANRHYAHVDCPGHAD----YIKNMITGAA--QMDGAILVVSATDGPMPQTREHLLLA-RQVGVPYIVVFLNKADMV  131 (195)
T ss_pred             CCCeEEEEEECcCHHH----HHHHHHHHhh--hCCEEEEEEECCCCCcHHHHHHHHHH-HHcCCCcEEEEEeCCCCC
Confidence            3566799999999742    3444322222  35888999999543  2222222222 12333  33678999974

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>TIGR00416 sms DNA repair protein RadA

Probab=98.02  E-value=1.9e-05  Score=84.40  Aligned_cols=99  Identities=22%  Similarity=0.379  Sum_probs=67.1

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      .+|.++++++..       +..++++.|.+|+||||++..++..+.++|.+|++++.+--    .+|+...+...|+..-
T Consensus        81 ~~LD~vLgGGi~-------~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs----~~qi~~ra~rlg~~~~  149 (454)
T TIGR00416        81 GELDRVLGGGIV-------PGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEES----LQQIKMRAIRLGLPEP  149 (454)
T ss_pred             HHHHHHhcCCcc-------CCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCC----HHHHHHHHHHcCCChH
Confidence            578888887654       46799999999999999999999999988999999998743    3455444444554321


Q ss_pred             cC--CCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCC
Q 011624          243 TA--GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGR  276 (481)
Q Consensus       243 ~~--~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~  276 (481)
                      ..  -...+.. .+   ...+...+++++|||.-..
T Consensus       150 ~l~~~~e~~~~-~I---~~~i~~~~~~~vVIDSIq~  181 (454)
T TIGR00416       150 NLYVLSETNWE-QI---CANIEEENPQACVIDSIQT  181 (454)
T ss_pred             HeEEcCCCCHH-HH---HHHHHhcCCcEEEEecchh
Confidence            11  1112222 22   2333335789999998543

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=98.00  E-value=4.2e-05  Score=71.72  Aligned_cols=128  Identities=22%  Similarity=0.252  Sum_probs=66.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      -+.|++.|+.|+||||++..|..........-. ..   ......+.. ......++..-.......          . .
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~-~~---~~~~~~~~~-~~e~~~~~ti~~~~~~~~----------~-~   66 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGI-EE---TKNAFLDKH-PEERERGITIDLSFISFE----------K-N   66 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHH-HH---HHHCHHHSS-HHHHHCTSSSSSEEEEEE----------B-T
T ss_pred             EEEEEEECCCCCCcEeechhhhhhccccccccc-cc---ccccccccc-chhhhccccccccccccc----------c-c
Confidence            367889999999999999999865532111000 00   000001100 001111221110000000          0 1


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--H---HHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--Q---EAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~---~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      ...+.+.+|||||...    ++.++.....  .++.+++|+|+..+  .   .....+..++  ++ .-|++||+|..
T Consensus        67 ~~~~~i~~iDtPG~~~----f~~~~~~~~~--~~D~ailvVda~~g~~~~~~~~l~~~~~~~--~p-~ivvlNK~D~~  135 (188)
T PF00009_consen   67 ENNRKITLIDTPGHED----FIKEMIRGLR--QADIAILVVDANDGIQPQTEEHLKILRELG--IP-IIVVLNKMDLI  135 (188)
T ss_dssp             ESSEEEEEEEESSSHH----HHHHHHHHHT--TSSEEEEEEETTTBSTHHHHHHHHHHHHTT---S-EEEEEETCTSS
T ss_pred             ccccceeecccccccc----eeecccceec--ccccceeeeecccccccccccccccccccc--cc-eEEeeeeccch
Confidence            3567899999999743    4555544433  45889999999544  2   2233333332  34 56899999976

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.00  E-value=4.2e-05  Score=70.49  Aligned_cols=125  Identities=16%  Similarity=0.136  Sum_probs=63.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCC
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKN  265 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~  265 (481)
                      |+++|.+|+||||++..|.......++.....+........ +      ...++.....             ...+...+
T Consensus         2 v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~-~------~~~~~~~~~~-------------~~~~~~~~   61 (189)
T cd00881           2 VGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKE-E------RERGITIKSG-------------VATFEWPD   61 (189)
T ss_pred             EEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHH-H------HHcCCCeecc-------------eEEEeeCC
Confidence            67889999999999999986544333333332211111110 0      1112211100             00011235


Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .+++++||||..........    ...  ..+.+++|+|+..+.  .....+......-...-+++||+|...
T Consensus        62 ~~~~liDtpG~~~~~~~~~~----~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~i~iv~nK~D~~~  128 (189)
T cd00881          62 RRVNFIDTPGHEDFSSEVIR----GLS--VSDGAILVVDANEGVQPQTREHLRIAREGGLPIIVAINKIDRVG  128 (189)
T ss_pred             EEEEEEeCCCcHHHHHHHHH----HHH--hcCEEEEEEECCCCCcHHHHHHHHHHHHCCCCeEEEEECCCCcc
Confidence            78999999996532111111    111  357889999985432  222222222221223458899999753

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.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.99  E-value=4.6e-05  Score=73.34  Aligned_cols=56  Identities=25%  Similarity=0.419  Sum_probs=43.9

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcC------CeEEEEeccC-Cchh
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQG------KSCMLVAGDV-YRPA  225 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G------~kVlLId~D~-~rp~  225 (481)
                      .+|.++++++..       ...++.++|++|+|||+++..+|......|      .+|++++++- +.+.
T Consensus         6 ~~lD~~l~GG~~-------~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~   68 (226)
T cd01393           6 KALDELLGGGIP-------TGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPE   68 (226)
T ss_pred             HHHHHHhCCCCc-------CCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHH
Confidence            356666765443       457999999999999999999998877777      8999999974 3443

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.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=97.99  E-value=7.4e-05  Score=72.09  Aligned_cols=52  Identities=29%  Similarity=0.395  Sum_probs=43.4

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .|.++++++..       ++.++++.|.+|+|||+++..++....++|.+|++++.+--
T Consensus         4 ~LD~~l~gGi~-------~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~~   55 (224)
T TIGR03880         4 GLDEMLGGGFP-------EGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEER   55 (224)
T ss_pred             hhHHHhcCCCC-------CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCC
Confidence            46667765543       46799999999999999999999888788999999999863

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK00007 elongation factor G; Reviewed

Probab=97.98  E-value=0.00011  Score=82.87  Aligned_cols=141  Identities=21%  Similarity=0.231  Sum_probs=72.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      -+-|+++|..++||||++..|....... .+..-++....-.+...+    ....|+.+-....             .+.
T Consensus        10 Irni~iiG~~~~GKsTL~~~ll~~~g~~-~~~g~v~~~~~~~D~~~~----E~~rg~ti~~~~~-------------~~~   71 (693)
T PRK00007         10 YRNIGIMAHIDAGKTTTTERILFYTGVN-HKIGEVHDGAATMDWMEQ----EQERGITITSAAT-------------TCF   71 (693)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHhcCCc-cccccccCCcccCCCCHH----HHhCCCCEeccEE-------------EEE
Confidence            4678999999999999999987543321 011101100000010000    1112222211110             112


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCCCCCC-
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKLDGDS-  336 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKvD~~~-  336 (481)
                      +.++.+.+|||||...    .+.++...+...  +.+++|+|+..+   +  .....+...  ..+. -+++||+|... 
T Consensus        72 ~~~~~~~liDTPG~~~----f~~ev~~al~~~--D~~vlVvda~~g~~~qt~~~~~~~~~~--~~p~-iv~vNK~D~~~~  142 (693)
T PRK00007         72 WKDHRINIIDTPGHVD----FTIEVERSLRVL--DGAVAVFDAVGGVEPQSETVWRQADKY--KVPR-IAFVNKMDRTGA  142 (693)
T ss_pred             ECCeEEEEEeCCCcHH----HHHHHHHHHHHc--CEEEEEEECCCCcchhhHHHHHHHHHc--CCCE-EEEEECCCCCCC
Confidence            4678899999999753    334444444433  788999998544   2  122222222  2343 48999999643 


Q ss_pred             ch-hHHHHHHHHhCC
Q 011624          337 RG-GAALSVKEVSGK  350 (481)
Q Consensus       337 ~~-g~~~~~~~~~gl  350 (481)
                      .. ..+..+.+.++.
T Consensus       143 ~~~~~~~~i~~~l~~  157 (693)
T PRK00007        143 DFYRVVEQIKDRLGA  157 (693)
T ss_pred             CHHHHHHHHHHHhCC
Confidence            22 233445555554

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=97.98  E-value=7e-05  Score=83.46  Aligned_cols=143  Identities=22%  Similarity=0.244  Sum_probs=82.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCC--eEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGK--SCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~--kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~  259 (481)
                      +-+-|.+.++-.+||||++-.|.++-..-.+  +|.  +++++ .+..+|    ...-|+.+-.....            
T Consensus         9 ~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~--~g~~~-~D~~e~----EqeRGITI~saa~s------------   69 (697)
T COG0480           9 RIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVH--DGAAT-MDWMEQ----EQERGITITSAATT------------   69 (697)
T ss_pred             cceEEEEEeccCCChHHHHHHHHHHcCCcCCCcccc--CCCcc-CCCcHH----HHhcCCEEeeeeeE------------
Confidence            4578999999999999999998654322111  111  00000 111111    12234444322111            


Q ss_pred             HHHcC-CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch-----HHHHHHHHHhhhcCCeeEEEEcCCC
Q 011624          260 EAKKK-NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG-----QEAAALVTTFNIEIGITGAILTKLD  333 (481)
Q Consensus       260 ~~~~~-~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~-----~~~~~~~~~f~~~~~i~GvIlnKvD  333 (481)
                       +.|+ ++.+.||||||..+    ++.|+...++++  |.+++|+|+..|     ....+++..++  + ..-+++||+|
T Consensus        70 -~~~~~~~~iNlIDTPGHVD----Ft~EV~rslrvl--DgavvVvdaveGV~~QTEtv~rqa~~~~--v-p~i~fiNKmD  139 (697)
T COG0480          70 -LFWKGDYRINLIDTPGHVD----FTIEVERSLRVL--DGAVVVVDAVEGVEPQTETVWRQADKYG--V-PRILFVNKMD  139 (697)
T ss_pred             -EEEcCceEEEEeCCCCccc----cHHHHHHHHHhh--cceEEEEECCCCeeecHHHHHHHHhhcC--C-CeEEEEECcc
Confidence             1245 48999999999875    666776666665  788999999655     23334444332  2 2458899999


Q ss_pred             CC-Cchh-HHHHHHHHhCCCeE
Q 011624          334 GD-SRGG-AALSVKEVSGKPIK  353 (481)
Q Consensus       334 ~~-~~~g-~~~~~~~~~glPV~  353 (481)
                      .. .... ....+...++.++.
T Consensus       140 R~~a~~~~~~~~l~~~l~~~~~  161 (697)
T COG0480         140 RLGADFYLVVEQLKERLGANPV  161 (697)
T ss_pred             ccccChhhhHHHHHHHhCCCce
Confidence            53 3333 33556666766443

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.98  E-value=4.3e-05  Score=66.67  Aligned_cols=106  Identities=19%  Similarity=0.339  Sum_probs=63.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-----CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-----GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQ  256 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-----G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~  256 (481)
                      ..+++++.|++|+|||+++..++..+...     ..+|+.+++.... ...+-........+.+...   .....+....
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~~~l~~~~~~---~~~~~~l~~~   78 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSR-TPRDFAQEILEALGLPLKS---RQTSDELRSL   78 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHS-SHHHHHHHHHHHHT-SSSS---TS-HHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCC-CHHHHHHHHHHHhCccccc---cCCHHHHHHH
Confidence            35689999999999999999999988754     6788888887665 1111222334444544433   2344555544


Q ss_pred             HHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhh
Q 011624          257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKR  292 (481)
Q Consensus       257 ~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~  292 (481)
                      ..+.+......++|||-+-.+. +...+..+..+.+
T Consensus        79 ~~~~l~~~~~~~lviDe~~~l~-~~~~l~~l~~l~~  113 (131)
T PF13401_consen   79 LIDALDRRRVVLLVIDEADHLF-SDEFLEFLRSLLN  113 (131)
T ss_dssp             HHHHHHHCTEEEEEEETTHHHH-THHHHHHHHHHTC
T ss_pred             HHHHHHhcCCeEEEEeChHhcC-CHHHHHHHHHHHh
Confidence            4444443344589999987653 4556666655555

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=97.95  E-value=0.00032  Score=69.48  Aligned_cols=118  Identities=18%  Similarity=0.200  Sum_probs=67.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~l~~~l~  259 (481)
                      +..+++++|++|+||||++..++..++.+ |.+|++++++.-.......+  .+...++++...+. .....+.+...+.
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~~~~~~~r~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPVVRTARRL--LGQYAGKRLHLPDTVFIYTLEEFDAAFD  106 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccCHHHHHHHH--HHHHhCCCcccCCccccccHHHHHHHHH
Confidence            35689999999999999999999988877 99999999986322222221  12223444322111 1111223334444


Q ss_pred             HHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          260 EAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      .+. ..-.+.++|.++... -..+...+..+....  ..-++|+|.
T Consensus       107 ~~~-~~~~l~i~d~~~~~~-~~~i~~~i~~~~~~~--~~~~vvID~  148 (271)
T cd01122         107 EFE-GTGRLFMYDSFGEYS-MDSVLEKVRYMAVSH--GIQHIIIDN  148 (271)
T ss_pred             Hhc-CCCcEEEEcCCCccC-HHHHHHHHHHHHhcC--CceEEEECC
Confidence            442 223467778776532 223444444333322  233788887

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK08760 replicative DNA helicase; Provisional

Probab=97.94  E-value=0.0028  Score=68.34  Aligned_cols=116  Identities=20%  Similarity=0.269  Sum_probs=68.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHH--HHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQI--AKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~--l~~~  257 (481)
                      +..+++++|.+|+||||++.++|...+ +.|++|++++.+.-.......+  .+...+++...... .+...++  +..+
T Consensus       228 ~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~~ql~~Rl--~a~~s~i~~~~i~~g~l~~~e~~~~~~a  305 (476)
T PRK08760        228 PTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSASQLAMRL--ISSNGRINAQRLRTGALEDEDWARVTGA  305 (476)
T ss_pred             CCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCHHHHHHHH--HHhhCCCcHHHHhcCCCCHHHHHHHHHH
Confidence            457999999999999999999998876 4599999998886544433322  22333444322221 2233332  3345


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +..+.  +..+.|-|+++..  -..+...+..+.....  .-++|+|.
T Consensus       306 ~~~l~--~~~l~I~d~~~~t--~~~I~~~~r~l~~~~~--~~lVvIDy  347 (476)
T PRK08760        306 IKMLK--ETKIFIDDTPGVS--PEVLRSKCRRLKREHD--LGLIVIDY  347 (476)
T ss_pred             HHHHh--cCCEEEeCCCCCC--HHHHHHHHHHHHHhcC--CCEEEEec
Confidence            55543  4567777777643  2233344444433222  23677776

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.93  E-value=2.9e-05  Score=72.21  Aligned_cols=38  Identities=29%  Similarity=0.297  Sum_probs=35.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      .+.++.++|++|+||||++.+|...|..+|++|..|-.
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~   42 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKH   42 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEE
Confidence            56699999999999999999999999999999999965

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=97.93  E-value=0.00025  Score=68.91  Aligned_cols=41  Identities=22%  Similarity=0.417  Sum_probs=37.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~  222 (481)
                      +..+++++|++|+||||++..++..++.+ |.+|++++++--
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~   53 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMS   53 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCC
Confidence            45799999999999999999999988877 999999999864

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK06696 uridine kinase; Validated

Probab=97.92  E-value=3.6e-05  Score=74.46  Aligned_cols=44  Identities=30%  Similarity=0.526  Sum_probs=39.8

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      .+|.+|+++|.+|+||||++..|+..|...|.+|..+..|-|-.
T Consensus        20 ~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~~   63 (223)
T PRK06696         20 TRPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFHN   63 (223)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeccccccC
Confidence            36789999999999999999999999998899999999998753

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.91  E-value=0.00023  Score=68.85  Aligned_cols=53  Identities=25%  Similarity=0.367  Sum_probs=43.3

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..|.++++++..       +..++++.|++|+||||++..++....++|.+|++++.+..
T Consensus         7 ~~LD~~l~GGi~-------~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~~   59 (229)
T TIGR03881         7 EGLDKLLEGGIP-------RGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEES   59 (229)
T ss_pred             hhHHHhhcCCCc-------CCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccCC
Confidence            356667765543       46799999999999999999999877778999999998754

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=97.90  E-value=1.8e-05  Score=75.87  Aligned_cols=38  Identities=24%  Similarity=0.387  Sum_probs=35.0

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      -+++||+|+||||-+..+...|...|++|++|..||-.
T Consensus         5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaN   42 (290)
T KOG1533|consen    5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPAN   42 (290)
T ss_pred             eEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCcc
Confidence            46789999999999999999999999999999999853

>PRK05439 pantothenate kinase; Provisional

Probab=97.90  E-value=5.9e-05  Score=76.52  Aligned_cols=42  Identities=31%  Similarity=0.414  Sum_probs=37.7

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEEeccCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKK--QGKSCMLVAGDVY  222 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~--~G~kVlLId~D~~  222 (481)
                      +.|.+|.++|++||||||++..|+..|.+  .|.+|.+|..|-|
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdF  127 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGF  127 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEecccc
Confidence            46889999999999999999999998876  3789999999987

>cd01894 EngA1 EngA1 subfamily

Probab=97.90  E-value=0.00023  Score=63.29  Aligned_cols=75  Identities=16%  Similarity=0.252  Sum_probs=39.1

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhh--hhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCCCCch
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDV--KRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDGDSRG  338 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i--~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~  338 (481)
                      .++++.|+||||...........+...  ......+.+++|+|+...  .......+.....-...-+|+||+|.....
T Consensus        43 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~  121 (157)
T cd01894          43 GGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGLTPADEEIAKYLRKSKKPVILVVNKVDNIKEE  121 (157)
T ss_pred             CCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHHHHHHHHHhcCCCEEEEEECcccCChH
Confidence            357799999999865322111111111  111234788999998432  111122222221112356899999976543

This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.89  E-value=0.00017  Score=74.39  Aligned_cols=120  Identities=14%  Similarity=0.222  Sum_probs=67.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhc---CCCeecCCC---CCCHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQV---GVPVYTAGT---EVKPSQIAKQG  257 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~---gv~v~~~~~---~~~~~~~l~~~  257 (481)
                      .|.+++|--|+||||+..+|...  .+|.++++|-.|.-..+.-..+..-....   .-.++.+..   .....+-+...
T Consensus         5 pv~iltGFLGaGKTTll~~ll~~--~~~~~iavi~Ne~G~~~ID~~ll~~~~~~~~~~~~v~el~nGCiCCs~~~dl~~~   82 (341)
T TIGR02475         5 PVTIVTGFLGAGKTTLIRHLLQN--AAGRRIAVIVNEFGDLGIDGEILKACGIEGCSEENIVELANGCICCTVADDFIPT   82 (341)
T ss_pred             CEEEEEECCCCCHHHHHHHHHhc--cCCCcEEEEECCCccccchHHHHhccccccCCcceEEEeCCCCccccCcHHHHHH
Confidence            38899999999999999999753  46899999999865433212221110000   002222221   11112223344


Q ss_pred             HHHHH--cCCCcEEEEcCCCCccccHHHHHHHH--hhhhccCCceEEEEEeCc
Q 011624          258 LEEAK--KKNVDVVIVDTAGRLQIDKAMMDELK--DVKRVLNPTEVLLVVDAM  306 (481)
Q Consensus       258 l~~~~--~~~~D~VIIDt~G~~~~d~~~~~el~--~i~~~~~p~~vvLVvda~  306 (481)
                      +..+.  ...+|+|||+|.|... ...+...+.  .+...+.-+.++.|||+.
T Consensus        83 l~~l~~~~~~~d~IvIEtsG~a~-P~~i~~~~~~~~l~~~~~l~~vvtvVDa~  134 (341)
T TIGR02475        83 MTKLLARRQRPDHILIETSGLAL-PKPLVQAFQWPEIRSRVTVDGVVTVVDGP  134 (341)
T ss_pred             HHHHHhccCCCCEEEEeCCCCCC-HHHHHHHhcCccccceEEeeeEEEEEECc
Confidence            44442  2568999999999863 223333321  111222336789999985

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PRK05973 replicative DNA helicase; Provisional

Probab=97.88  E-value=0.00011  Score=71.82  Aligned_cols=48  Identities=23%  Similarity=0.288  Sum_probs=39.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQ  229 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidq  229 (481)
                      +..++++.|.+|+||||++..++...+++|.+|++++.+--.....+.
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes~~~i~~R  110 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYTEQDVRDR  110 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCCHHHHHHH
Confidence            456899999999999999999999888889999999998654333333

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.87  E-value=0.00019  Score=73.17  Aligned_cols=98  Identities=21%  Similarity=0.298  Sum_probs=60.5

Q ss_pred             HCCCChHHHHHHHHHHHHHHhhccccCCCChhHHH--------HHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCC
Q 011624          123 EADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQL--------VKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGV  194 (481)
Q Consensus       123 ~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~--------~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~Gv  194 (481)
                      ..|++.+.+.++.+.........   ...++.+..        .......+..+++++..       .+.++.++|++|+
T Consensus        44 ~~g~~~~~a~~l~~~a~~~~~~~---~~~t~~~l~~~~ks~~~~~Tg~~~lD~~l~GGi~-------~g~vtei~G~~Gs  113 (317)
T PRK04301         44 AAGIGESTAAKIIEAAREAADIG---GFETALEVLERRKNVGKITTGSKELDELLGGGIE-------TQSITEFYGEFGS  113 (317)
T ss_pred             hcCCCHHHHHHHHHHHHHhhccc---cCccHHHHHHhhccCCccCCCCHHHHHHhcCCcc-------CCcEEEEECCCCC
Confidence            34777788888877765432110   001111100        11112455666665443       4679999999999


Q ss_pred             CHHHHHHHHHHHHHHc------CCeEEEEeccC-CchhHHHHH
Q 011624          195 GKTTVSAKLANYLKKQ------GKSCMLVAGDV-YRPAAIDQL  230 (481)
Q Consensus       195 GKTTta~~LA~~L~~~------G~kVlLId~D~-~rp~aidql  230 (481)
                      |||+++..++......      +.+|++||++- |++..+.+.
T Consensus       114 GKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~  156 (317)
T PRK04301        114 GKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQM  156 (317)
T ss_pred             CHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHH
Confidence            9999999999766532      35899999985 677655443

>KOG0635 consensus Adenosine 5'-phosphosulfate kinase [Inorganic ion transport and metabolism]

Probab=97.87  E-value=7.2e-05  Score=67.22  Aligned_cols=46  Identities=33%  Similarity=0.543  Sum_probs=41.8

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      ++.-+|.++|.+|+||||+++.|..+|.++|+-...+|+|..|-+.
T Consensus        29 qkGcviWiTGLSgSGKStlACaL~q~L~qrgkl~Y~LDGDNvRhGL   74 (207)
T KOG0635|consen   29 QKGCVIWITGLSGSGKSTLACALSQALLQRGKLTYILDGDNVRHGL   74 (207)
T ss_pred             CCCcEEEEeccCCCCchhHHHHHHHHHHhcCceEEEecCccccccc
Confidence            3567999999999999999999999999999999999999877554

>TIGR00665 DnaB replicative DNA helicase

Probab=97.85  E-value=0.008  Score=63.94  Aligned_cols=116  Identities=18%  Similarity=0.209  Sum_probs=67.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHH--HHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQI--AKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~--l~~~  257 (481)
                      ++.+++++|.+|+||||++.++|..++. .|++|++++.+.-.......+  .+...+++...... .+...+.  +..+
T Consensus       194 ~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~~~i~~R~--~~~~~~v~~~~~~~g~l~~~~~~~~~~a  271 (434)
T TIGR00665       194 PSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSAEQLAMRM--LSSESRVDSQKLRTGKLSDEDWEKLTSA  271 (434)
T ss_pred             CCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCHHHHHHHH--HHHhcCCCHHHhccCCCCHHHHHHHHHH
Confidence            4579999999999999999999998775 699999999997544433332  23334555322211 2233332  3344


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      ...+.  +..+.|-|+++..  -..+...+..+.....  .-++|+|.
T Consensus       272 ~~~l~--~~~l~i~d~~~~~--~~~i~~~i~~~~~~~~--~~~vvID~  313 (434)
T TIGR00665       272 AGKLS--EAPLYIDDTPGLT--ITELRAKARRLKREHG--LGLIVIDY  313 (434)
T ss_pred             HHHHh--cCCEEEECCCCCC--HHHHHHHHHHHHHhcC--CCEEEEcc
Confidence            44442  3456666766532  1223333333333222  23677776

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.85  E-value=0.00011  Score=72.07  Aligned_cols=40  Identities=38%  Similarity=0.648  Sum_probs=36.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      +|+++|.+||||||++..|+.+|...|.+|.+++.|..|.
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~D~lr~   40 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDLIRE   40 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEccHHHHH
Confidence            4789999999999999999999998899999999887653

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.85  E-value=0.00012  Score=74.81  Aligned_cols=148  Identities=20%  Similarity=0.198  Sum_probs=81.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCC-------CCCCHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAG-------TEVKPSQIAKQG  257 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~-------~~~~~~~~l~~~  257 (481)
                      |.+++|-=|+||||+..+|.....  |+|+++|-.+.--.+ +|. ...-...+.+++...       -..+....+.+.
T Consensus         3 VtvitGFLGsGKTTlL~~lL~~~~--g~kiAVIVNEfGEvg-ID~-~~~l~~~~e~~~El~nGCICCT~r~dl~~~~~~L   78 (323)
T COG0523           3 VTVITGFLGSGKTTLLNHLLANRD--GKKIAVIVNEFGEVG-IDG-GALLSDTGEEVVELTNGCICCTVRDDLLPALERL   78 (323)
T ss_pred             EEEEeecCCCCHHHHHHHHHhccC--CCcEEEEEecCcccc-ccC-CCccccCCccEEEeCCceEEEeccchhHHHHHHH
Confidence            788999999999999999976555  899999887743222 221 000111122222111       111233334444


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHh---hhhccCCceEEEEEeCcchHH-HHHHHHHhhhcCCe-eEEEEcCC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKD---VKRVLNPTEVLLVVDAMTGQE-AAALVTTFNIEIGI-TGAILTKL  332 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~---i~~~~~p~~vvLVvda~~~~~-~~~~~~~f~~~~~i-~GvIlnKv  332 (481)
                      .. . .+.+|+|||+|.|..+. ......+..   +...+.-+.++-|||+..... .......+...+.. .-||+||.
T Consensus        79 ~~-~-~~~~D~ivIEtTGlA~P-~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~AD~ivlNK~  155 (323)
T COG0523          79 LR-R-RDRPDRLVIETTGLADP-APVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAFADVIVLNKT  155 (323)
T ss_pred             Hh-c-cCCCCEEEEeCCCCCCC-HHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHhCcEEEEecc
Confidence            44 3 35699999999998653 122222211   112222367899999943321 11122222222222 34899999


Q ss_pred             CCCCchh
Q 011624          333 DGDSRGG  339 (481)
Q Consensus       333 D~~~~~g  339 (481)
                      |......
T Consensus       156 Dlv~~~~  162 (323)
T COG0523         156 DLVDAEE  162 (323)
T ss_pred             cCCCHHH
Confidence            9765543

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.85  E-value=0.00025  Score=72.02  Aligned_cols=61  Identities=28%  Similarity=0.476  Sum_probs=44.4

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH------cCCeEEEEeccC-CchhHHHHH
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK------QGKSCMLVAGDV-YRPAAIDQL  230 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~------~G~kVlLId~D~-~rp~aidql  230 (481)
                      ..+.++|+++..       .+.++.++|++|+||||++..+|...+.      .+.+|++||++- |++..+.++
T Consensus        82 ~~lD~~l~GGi~-------~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~  149 (310)
T TIGR02236        82 KELDELLGGGIE-------TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQM  149 (310)
T ss_pred             HHHHHHhcCCCC-------CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHH
Confidence            345566666543       4679999999999999999999876542      123899999885 676654433

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>COG1160 Predicted GTPases [General function prediction only]

Probab=97.85  E-value=0.0003  Score=73.70  Aligned_cols=117  Identities=19%  Similarity=0.308  Sum_probs=72.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      .+|+++|.+.|||||+-..|+      |.++++|+-=+   +.     +.     -.++.                .+++
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~------g~r~AIV~D~p---Gv-----TR-----Dr~y~----------------~~~~   48 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLT------GRRIAIVSDTP---GV-----TR-----DRIYG----------------DAEW   48 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHh------CCeeeEeecCC---CC-----cc-----CCccc----------------eeEE
Confidence            478999999999999999998      88888664322   21     00     01111                1134


Q ss_pred             CCCcEEEEcCCCCcccc-HHHHHHHHhhhh--ccCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQID-KAMMDELKDVKR--VLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d-~~~~~el~~i~~--~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      .+..+.+|||+|.-..+ ..+..++.+-..  .-..|-++||+|+..|  ..-...++.+...-...-+++||+|..
T Consensus        49 ~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~~kpviLvvNK~D~~  125 (444)
T COG1160          49 LGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRSKKPVILVVNKIDNL  125 (444)
T ss_pred             cCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEEcccCc
Confidence            66779999999987544 334444332221  2235888999999554  111223333333324566899999986

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=97.84  E-value=0.0012  Score=67.83  Aligned_cols=161  Identities=19%  Similarity=0.245  Sum_probs=97.1

Q ss_pred             CCEEEEEE-cCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCc-hh--------------------HHHHHH----Hhh
Q 011624          182 RPTVILLA-GLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYR-PA--------------------AIDQLV----ILG  234 (481)
Q Consensus       182 ~~~VI~i~-G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~r-p~--------------------aidql~----~~~  234 (481)
                      +.+++.|. .++|+|=||+|.++|..++. .+..|.|+|.|.+- .+                    -.||.-    ...
T Consensus       103 ~~r~iafl~akgg~g~stlA~n~a~~l~~~~~~~v~L~DL~~~~G~~~~~l~~~~a~~i~~~~~~peRLDq~lld~~~~~  182 (366)
T COG4963         103 QGRELAFLGAKGGVGTSTLAHNLAKGLAILSGAAVLLVDLDLQGGTAALYLDQDPAFGIAEAVKQPERLDQVLLDSLLTR  182 (366)
T ss_pred             hceEEEEEeecCCcchHHHHHHHHHHHhhhcCCcEEEEEcCCCCcchhhhcCCCchhhHHHHhcCHHHhhHHHHHHHHhc
Confidence            45677775 55999999999999999985 48999999999642 11                    111110    000


Q ss_pred             hhcCCCeecCCCCCCH-----HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch-
Q 011624          235 EQVGVPVYTAGTEVKP-----SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG-  308 (481)
Q Consensus       235 ~~~gv~v~~~~~~~~~-----~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~-  308 (481)
                      -..|..++........     .......++.++ ..||+||+|-|   +.+......+   +.  ..+++++|++.+.. 
T Consensus       183 ~~~~l~ll~a~~~~~~~~d~~~~~~~~Ll~~~~-~~~~~vV~Dlp---~~~~~~t~~v---L~--~Sd~iviv~e~sl~s  253 (366)
T COG4963         183 LASGLKLLAAPTELAKNYDLKTGAVERLLDLLR-GSFDFVVVDLP---NIWTDWTRQV---LS--GSDEIVIVAEPSLAS  253 (366)
T ss_pred             cCCCceeecCCcchhhhcccccchHHHHHHHhh-ccCCeEEEcCC---CccchHHHHH---Hh--cCCeEEEEecccHHH
Confidence            1123334333221111     112344555553 68999999999   2333333332   22  24889999887432 


Q ss_pred             ----HHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCe
Q 011624          309 ----QEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPI  352 (481)
Q Consensus       309 ----~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV  352 (481)
                          .+..+.+++++.+-...-.|+||++...... ...+.+.+|++-
T Consensus       254 lR~ak~lld~l~~~r~~~~~p~lv~n~~~~~~~~~-~~dl~~~~~i~~  300 (366)
T COG4963         254 LRNAKELLDELKRLRPNDPKPILVLNRVGVPKRPE-PSDLEEILGIES  300 (366)
T ss_pred             HHHHHHHHHHHHHhCCCCCCceEEeeecCCCCCCC-HHHHHHHhCCch
Confidence                4555666777665556668999998665544 445666667665

>TIGR00484 EF-G translation elongation factor EF-G

Probab=97.84  E-value=0.00048  Score=77.60  Aligned_cols=143  Identities=21%  Similarity=0.231  Sum_probs=71.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe-ccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA-GDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId-~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      +-+-|+++|+.++||||++..|....... .+..-++ .+.+ -+...+    ....|+.+-...             ..
T Consensus         9 ~irni~iiG~~~~GKsTL~~~ll~~~g~~-~~~~~~~~g~~~-~D~~~~----e~~rgiti~~~~-------------~~   69 (689)
T TIGR00484         9 RFRNIGISAHIDAGKTTTTERILFYTGRI-HKIGEVHDGAAT-MDWMEQ----EKERGITITSAA-------------TT   69 (689)
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhCCCc-cccccccCCccc-cCCCHH----HHhcCCCEecce-------------EE
Confidence            34688999999999999999987532211 0111000 0000 000000    011222221110             01


Q ss_pred             HHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHh-hhcCCeeEEEEcCCCCCC-
Q 011624          261 AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTF-NIEIGITGAILTKLDGDS-  336 (481)
Q Consensus       261 ~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f-~~~~~i~GvIlnKvD~~~-  336 (481)
                      +.++++.+.+|||||....    ..++......  .+.+++|+|+..+.  .....+... ....+ .-+++||+|... 
T Consensus        70 ~~~~~~~i~liDTPG~~~~----~~~~~~~l~~--~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p-~ivviNK~D~~~~  142 (689)
T TIGR00484        70 VFWKGHRINIIDTPGHVDF----TVEVERSLRV--LDGAVAVLDAVGGVQPQSETVWRQANRYEVP-RIAFVNKMDKTGA  142 (689)
T ss_pred             EEECCeEEEEEECCCCcch----hHHHHHHHHH--hCEEEEEEeCCCCCChhHHHHHHHHHHcCCC-EEEEEECCCCCCC
Confidence            1246788999999998542    2233222332  37889999996542  111222211 12233 347899999643 


Q ss_pred             chh-HHHHHHHHhCC
Q 011624          337 RGG-AALSVKEVSGK  350 (481)
Q Consensus       337 ~~g-~~~~~~~~~gl  350 (481)
                      ... .+..+...++.
T Consensus       143 ~~~~~~~~i~~~l~~  157 (689)
T TIGR00484       143 NFLRVVNQIKQRLGA  157 (689)
T ss_pred             CHHHHHHHHHHHhCC
Confidence            323 33445555554

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>PRK13351 elongation factor G; Reviewed

Probab=97.84  E-value=0.0004  Score=78.25  Aligned_cols=145  Identities=20%  Similarity=0.205  Sum_probs=72.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      -+-|++.|..|+||||++..|......- .+..-++...+-.+....    ....++.+....             ..+.
T Consensus         8 irni~iiG~~~~GKTtL~~~ll~~~g~~-~~~~~v~~~~~~~d~~~~----e~~r~~ti~~~~-------------~~~~   69 (687)
T PRK13351          8 IRNIGILAHIDAGKTTLTERILFYTGKI-HKMGEVEDGTTVTDWMPQ----EQERGITIESAA-------------TSCD   69 (687)
T ss_pred             ccEEEEECCCCCcchhHHHHHHHhcCCc-cccccccCCcccCCCCHH----HHhcCCCcccce-------------EEEE
Confidence            4678899999999999999887532110 011101100000010000    011112111000             0112


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHhh-hcCCeeEEEEcCCCCCC-ch
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFN-IEIGITGAILTKLDGDS-RG  338 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~-~~~~i~GvIlnKvD~~~-~~  338 (481)
                      +.++.+.++||||...    ...+.......  .+.+++|+|+..+.  .......... ..+++ -+++||+|... ..
T Consensus        70 ~~~~~i~liDtPG~~d----f~~~~~~~l~~--aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~p~-iiviNK~D~~~~~~  142 (687)
T PRK13351         70 WDNHRINLIDTPGHID----FTGEVERSLRV--LDGAVVVFDAVTGVQPQTETVWRQADRYGIPR-LIFINKMDRVGADL  142 (687)
T ss_pred             ECCEEEEEEECCCcHH----HHHHHHHHHHh--CCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCE-EEEEECCCCCCCCH
Confidence            3577899999999753    22333333332  37889999995542  2222222222 23333 47999999543 33


Q ss_pred             h-HHHHHHHHhCCCe
Q 011624          339 G-AALSVKEVSGKPI  352 (481)
Q Consensus       339 g-~~~~~~~~~glPV  352 (481)
                      . .+..+...++.++
T Consensus       143 ~~~~~~i~~~l~~~~  157 (687)
T PRK13351        143 FKVLEDIEERFGKRP  157 (687)
T ss_pred             HHHHHHHHHHHCCCe
Confidence            3 3355666677654

>PRK06526 transposase; Provisional

Probab=97.83  E-value=6.4e-05  Score=74.33  Aligned_cols=80  Identities=19%  Similarity=0.314  Sum_probs=53.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      +.-++++|++|+|||+++.+|+..+.++|++|.++.+.    ..++++... .       ..+   .    ....+..+ 
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~----~l~~~l~~~-~-------~~~---~----~~~~l~~l-  157 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAA----QWVARLAAA-H-------HAG---R----LQAELVKL-  157 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHH----HHHHHHHHH-H-------hcC---c----HHHHHHHh-
Confidence            34588999999999999999999999999999864442    233333211 0       000   1    11223343 


Q ss_pred             cCCCcEEEEcCCCCccccHHH
Q 011624          263 KKNVDVVIVDTAGRLQIDKAM  283 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~  283 (481)
                       .++|++|||..|....+...
T Consensus       158 -~~~dlLIIDD~g~~~~~~~~  177 (254)
T PRK06526        158 -GRYPLLIVDEVGYIPFEPEA  177 (254)
T ss_pred             -ccCCEEEEcccccCCCCHHH
Confidence             57899999999987654433

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.82  E-value=5.7e-05  Score=73.29  Aligned_cols=140  Identities=19%  Similarity=0.133  Sum_probs=67.1

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHH---hhhhcCCC----eecCCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVI---LGEQVGVP----VYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~---~~~~~gv~----v~~~~~~~~~~~~l~~~l  258 (481)
                      ++++|..|+||||++..+.......|.-......|.++-.. +...+   .....|..    +.+...... ..   ...
T Consensus         2 v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~-~~g~t~~~~~~~~g~~~~~~~~~~~~~~~-~~---~~~   76 (224)
T cd04165           2 VAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEV-ESGRTSSVSNEILGFDSDGEVVNYPDNHL-SE---SDI   76 (224)
T ss_pred             EEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhh-hcCchhhhhhhhcccCCCCceecCCCCcc-cc---ccc
Confidence            56779999999999999986444445555544444332110 00000   00011111    011000000 00   000


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHh-hhcCCeeEEEEcCCCCC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTF-NIEIGITGAILTKLDGD  335 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f-~~~~~i~GvIlnKvD~~  335 (481)
                      +.....++.+.+|||||.-.    ...++........++.+++|+|+..+  ......+... ..+.+ .-+++||+|..
T Consensus        77 ~~~~~~~~~i~liDtpG~~~----~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip-~ivvvNK~D~~  151 (224)
T cd04165          77 EICEKSSKLVTFIDLAGHER----YLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIP-VFVVVTKIDLA  151 (224)
T ss_pred             eeeeeCCcEEEEEECCCcHH----HHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCC-EEEEEECcccc
Confidence            11122467789999999632    33333222221246888999998433  2212222211 12234 45889999964

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>PRK09165 replicative DNA helicase; Provisional

Probab=97.81  E-value=0.0045  Score=67.10  Aligned_cols=144  Identities=22%  Similarity=0.252  Sum_probs=80.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc---------------CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ---------------GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT  246 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~---------------G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~  246 (481)
                      +..+++++|.+|+||||++.++|...+++               |.+|+++....-.......  ..+...+++......
T Consensus       216 ~g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~~ql~~R--~la~~s~v~~~~i~~  293 (497)
T PRK09165        216 PSDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSAEQLATR--ILSEQSEISSSKIRR  293 (497)
T ss_pred             CCceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCHHHHHHH--HHHHhcCCCHHHHhc
Confidence            45689999999999999999999877643               7899999888654443332  234445665533222


Q ss_pred             -CCCHHHH--HHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc---c------h----HH
Q 011624          247 -EVKPSQI--AKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM---T------G----QE  310 (481)
Q Consensus       247 -~~~~~~~--l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~---~------~----~~  310 (481)
                       .+...+.  +.++...+  ....+.|-|+++..  -..+...+.++.....  .-++|||..   .      .    +.
T Consensus       294 ~~l~~~e~~~l~~a~~~l--~~~~l~I~d~~~~t--i~~i~~~ir~l~~~~~--~~lvvIDyLqli~~~~~~~~~~r~~e  367 (497)
T PRK09165        294 GKISEEDFEKLVDASQEL--QKLPLYIDDTPALS--ISQLRARARRLKRQHG--LDLLVVDYLQLIRGSSKRSSDNRVQE  367 (497)
T ss_pred             CCCCHHHHHHHHHHHHHH--hcCCeEEeCCCCCC--HHHHHHHHHHHHHhcC--CCEEEEcchHhccCCCCCCCCchHHH
Confidence             2233332  23344444  34556666666542  1233333333333222  125666641   0      0    11


Q ss_pred             ---HHHHHHHhhhcCCeeEEEEcCCC
Q 011624          311 ---AAALVTTFNIEIGITGAILTKLD  333 (481)
Q Consensus       311 ---~~~~~~~f~~~~~i~GvIlnKvD  333 (481)
                         ....++.+....++.-+++..+.
T Consensus       368 v~~is~~LK~lAkel~ipVi~lsQLn  393 (497)
T PRK09165        368 ISEITQGLKALAKELNIPVIALSQLS  393 (497)
T ss_pred             HHHHHHHHHHHHHHhCCeEEEeeccc
Confidence               22333556667778778877765

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=97.80  E-value=0.00029  Score=66.51  Aligned_cols=72  Identities=22%  Similarity=0.276  Sum_probs=41.1

Q ss_pred             CCCcEEEEcCCCCcccc---HHHHHHHHhhhhc--cCCceEEEEEeCcc-hHH---HHHHHH-Hhhhc-CCeeEEEEcCC
Q 011624          264 KNVDVVIVDTAGRLQID---KAMMDELKDVKRV--LNPTEVLLVVDAMT-GQE---AAALVT-TFNIE-IGITGAILTKL  332 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d---~~~~~el~~i~~~--~~p~~vvLVvda~~-~~~---~~~~~~-~f~~~-~~i~GvIlnKv  332 (481)
                      .+..+.||||||.....   .....++......  ..++.+++|+++.. .++   +++.++ .|.+. ....-+++|+.
T Consensus        47 ~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~  126 (196)
T cd01852          47 DGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGRFTEEEEQAVETLQELFGEKVLDHTIVLFTRG  126 (196)
T ss_pred             CCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCCcCHHHHHHHHHHHHHhChHhHhcEEEEEECc
Confidence            45679999999987542   2334444433322  24577899998742 222   222222 23322 23456889999


Q ss_pred             CCC
Q 011624          333 DGD  335 (481)
Q Consensus       333 D~~  335 (481)
                      |.-
T Consensus       127 d~l  129 (196)
T cd01852         127 DDL  129 (196)
T ss_pred             ccc
Confidence            964

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>PRK08233 hypothetical protein; Provisional

Probab=97.79  E-value=6.8e-05  Score=69.35  Aligned_cols=38  Identities=26%  Similarity=0.426  Sum_probs=29.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ++.+|+++|++|+||||++..|+..|.  +..+...|.+-
T Consensus         2 ~~~iI~I~G~~GsGKtTla~~L~~~l~--~~~~~~~d~~~   39 (182)
T PRK08233          2 KTKIITIAAVSGGGKTTLTERLTHKLK--NSKALYFDRYD   39 (182)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhCC--CCceEEECCEE
Confidence            357999999999999999999998774  23555555553

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.78  E-value=0.00013  Score=70.69  Aligned_cols=51  Identities=22%  Similarity=0.335  Sum_probs=40.1

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc------CCeEEEEeccC
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ------GKSCMLVAGDV  221 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~------G~kVlLId~D~  221 (481)
                      .|.++++++..       +..++.++|++|+||||++..++......      +.+|++++++.
T Consensus         7 ~lD~~l~GGi~-------~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~   63 (235)
T cd01123           7 ALDELLGGGIE-------TGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG   63 (235)
T ss_pred             hhHhhccCCCC-------CCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence            45666776553       46799999999999999999998765433      47999999975

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 .

>PRK07667 uridine kinase; Provisional

Probab=97.77  E-value=6.2e-05  Score=71.22  Aligned_cols=41  Identities=29%  Similarity=0.403  Sum_probs=38.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+.+|.++|.+|+||||++..|+..|.+.|.+|.+++.|-|
T Consensus        16 ~~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~   56 (193)
T PRK07667         16 NRFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDY   56 (193)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCcc
Confidence            34799999999999999999999999999999999999975

>PRK05748 replicative DNA helicase; Provisional

Probab=97.77  E-value=0.0043  Score=66.39  Aligned_cols=117  Identities=14%  Similarity=0.187  Sum_probs=67.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCC-CCCCHHH--HHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAG-TEVKPSQ--IAKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~-~~~~~~~--~l~~~  257 (481)
                      +..+++++|.+|+||||++.++|...+ +.|++|++++.+.-.......+  .+...+++..... ..+...+  .+..+
T Consensus       202 ~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms~~~l~~R~--l~~~~~v~~~~i~~~~l~~~e~~~~~~a  279 (448)
T PRK05748        202 PNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGAESLVMRM--LCAEGNIDAQRLRTGQLTDDDWPKLTIA  279 (448)
T ss_pred             CCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCCHHHHHHHH--HHHhcCCCHHHhhcCCCCHHHHHHHHHH
Confidence            456999999999999999999998876 4699999999887544333322  2223344432211 1223333  23445


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +..+  .+..+.|-|+++.. . ..+...+..+.... +..-++|||.
T Consensus       280 ~~~l--~~~~~~i~d~~~~t-i-~~i~~~~r~~~~~~-~~~~~vvIDy  322 (448)
T PRK05748        280 MGSL--SDAPIYIDDTPGIK-V-TEIRARCRRLAQEH-GGLGLILIDY  322 (448)
T ss_pred             HHHH--hcCCEEEECCCCCC-H-HHHHHHHHHHHHhc-CCCCEEEEcc
Confidence            5554  34556666776642 1 23334444443322 1123677776

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=97.76  E-value=9.9e-05  Score=70.07  Aligned_cols=89  Identities=22%  Similarity=0.385  Sum_probs=47.5

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc---hhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR---PAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQG  257 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r---p~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~  257 (481)
                      ..|.++++.|.+|+||||++..+...+.  +....+|++|.+|   |.+.+-... ... ......   ......+....
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~--~~~~v~i~~D~~r~~~p~~~~~~~~-~~~-~~~~~~---~~~a~~~~~~~   85 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFG--GGGIVVIDADEFRQFHPDYDELLKA-DPD-EASELT---QKEASRLAEKL   85 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT---TT-SEEE-GGGGGGGSTTHHHHHHH-HCC-CTHHHH---HHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhcc--CCCeEEEehHHHHHhccchhhhhhh-hhh-hhHHHH---HHHHHHHHHHH
Confidence            5799999999999999999998876665  6677889999998   444332211 100 000000   00112234455


Q ss_pred             HHHHHcCCCcEEEEcCCCCc
Q 011624          258 LEEAKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~  277 (481)
                      ++.+...++++| +||....
T Consensus        86 ~~~a~~~~~nii-~E~tl~~  104 (199)
T PF06414_consen   86 IEYAIENRYNII-FEGTLSN  104 (199)
T ss_dssp             HHHHHHCT--EE-EE--TTS
T ss_pred             HHHHHHcCCCEE-EecCCCC
Confidence            666655677654 5887653

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PLN02974 adenosylmethionine-8-amino-7-oxononanoate transaminase

Probab=97.76  E-value=0.001  Score=75.79  Aligned_cols=87  Identities=14%  Similarity=0.137  Sum_probs=51.4

Q ss_pred             CCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHh-hhcCCeeEEEEcCCCCCCch
Q 011624          265 NVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTF-NIEIGITGAILTKLDGDSRG  338 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f-~~~~~i~GvIlnKvD~~~~~  338 (481)
                      .+|++||+|+|.+..   +..++..+.+-.+    .+++||++...|  ...+-.++.. ...+.+.|||+|.-+    +
T Consensus       184 ~~d~vlVEGAGGl~vPl~~~~~~~Dl~~~l~----lPvILV~~~~LG~INhtllt~eaL~~rGi~v~gii~~~~~----~  255 (817)
T PLN02974        184 GRVLALVETAGGVASPGPSGTLQCDLYRPLR----LPAILVGDGRLGGISATLAAYESLLLRGYDVVAVVIEDHG----L  255 (817)
T ss_pred             cCCeEEEECCCcccccCCCCCCHHHHHHHhC----CCEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEEeCCc----c
Confidence            579999999988754   2334444443333    789999998544  2332222222 346789999999432    2


Q ss_pred             hHHHHHHHH--hCCCeEEeecCC
Q 011624          339 GAALSVKEV--SGKPIKLVGRGE  359 (481)
Q Consensus       339 g~~~~~~~~--~glPV~~ig~g~  359 (481)
                      .....+...  .++||.-++..|
T Consensus       256 ~N~~~l~~~~~~~~pv~~lp~~p  278 (817)
T PLN02974        256 SNEKALLSYLSNRVPVFVLPPVP  278 (817)
T ss_pred             chHHHHHHHHhcCCcEEeCCCCC
Confidence            222222232  399995554433

>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional

Probab=97.76  E-value=3.8e-05  Score=74.62  Aligned_cols=35  Identities=29%  Similarity=0.388  Sum_probs=33.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      +++.++|.+|+||||++.+|+..|.++|++|.++.
T Consensus         2 ~vi~ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK   36 (229)
T PRK14494          2 RAIGVIGFKDSGKTTLIEKILKNLKERGYRVATAK   36 (229)
T ss_pred             eEEEEECCCCChHHHHHHHHHHHHHhCCCeEEEEE
Confidence            48899999999999999999999999999999994

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=97.74  E-value=0.00029  Score=69.64  Aligned_cols=60  Identities=22%  Similarity=0.417  Sum_probs=48.2

Q ss_pred             HHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH
Q 011624          165 LVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV  231 (481)
Q Consensus       165 L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~  231 (481)
                      |.++++++..       +..+++++|.+|+|||+++.+.+...++.|.+|++|+.|--.....+++.
T Consensus        12 lD~~l~GG~p-------~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~~l~~~~~   71 (260)
T COG0467          12 LDEILGGGLP-------RGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPEELLENAR   71 (260)
T ss_pred             hHHHhcCCCc-------CCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHHHHHHHHH
Confidence            4555555443       46799999999999999999999999999999999999976555555443

>PRK05595 replicative DNA helicase; Provisional

Probab=97.74  E-value=0.0065  Score=64.95  Aligned_cols=116  Identities=20%  Similarity=0.261  Sum_probs=67.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHH--HHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQ--IAKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~--~l~~~  257 (481)
                      +..+++++|.+|+||||++.++|..++ ++|++|++++.+.-......  +..+...+++...... .....+  .+.++
T Consensus       200 ~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fSlEms~~~l~~--R~~a~~~~v~~~~~~~~~l~~~e~~~~~~~  277 (444)
T PRK05595        200 KGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLEMSKEQLAY--KLLCSEANVDMLRLRTGNLEDKDWENIARA  277 (444)
T ss_pred             CCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEecCCCHHHHHH--HHHHHhcCCCHHHHhcCCCCHHHHHHHHHH
Confidence            356889999999999999999998766 67999999988864332222  2334555666543322 122222  23344


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      ...+  .+..+-|-|+++..  -..+...+..+.....  .-++|||.
T Consensus       278 ~~~l--~~~~l~i~d~~~~t--~~~i~~~~r~~~~~~~--~~~vvIDy  319 (444)
T PRK05595        278 SGPL--AAAKIFIDDTAGVS--VMEMRSKCRRLKIEHG--IDMILIDY  319 (444)
T ss_pred             HHHH--hcCCEEEECCCCCC--HHHHHHHHHHHHHhcC--CCEEEEeH
Confidence            4444  23456666776642  1233444444433222  22667775

>cd01878 HflX HflX subfamily

Probab=97.73  E-value=0.0004  Score=65.65  Aligned_cols=21  Identities=29%  Similarity=0.476  Sum_probs=18.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..|+++|.+||||||+...|.
T Consensus        42 ~~I~iiG~~g~GKStLl~~l~   62 (204)
T cd01878          42 PTVALVGYTNAGKSTLFNALT   62 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHh
Confidence            478888999999999998775

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=97.72  E-value=0.00021  Score=77.86  Aligned_cols=147  Identities=18%  Similarity=0.194  Sum_probs=75.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec---cCCc-hhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG---DVYR-PAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~---D~~r-p~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~  257 (481)
                      +.+-|+++|+.|+||||++-+|..+-.. -.+..-++.   +... .++.+    .....|+.+....            
T Consensus         9 ~~Rni~IiGh~daGKTTL~e~Ll~~~g~-i~~~g~v~~~~~~~~~~~D~~~----~E~~rgiSi~~~~------------   71 (526)
T PRK00741          9 KRRTFAIISHPDAGKTTLTEKLLLFGGA-IQEAGTVKGRKSGRHATSDWME----MEKQRGISVTSSV------------   71 (526)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhCCC-ccccceeeccccCccccCCCcH----HHHhhCCceeeee------------
Confidence            4568999999999999999998643211 011222221   0000 11110    0111222221110            


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-HHHHHHHHhh--hcCCeeEEEEcCCCC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-EAAALVTTFN--IEIGITGAILTKLDG  334 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-~~~~~~~~f~--~~~~i~GvIlnKvD~  334 (481)
                       ..+.++++.+.++||||...    ...+....+.  ..+.+++|+|+..+. .....+..+.  .+++ .-+++||+|.
T Consensus        72 -~~~~~~~~~inliDTPG~~d----f~~~~~~~l~--~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iP-iiv~iNK~D~  143 (526)
T PRK00741         72 -MQFPYRDCLINLLDTPGHED----FSEDTYRTLT--AVDSALMVIDAAKGVEPQTRKLMEVCRLRDTP-IFTFINKLDR  143 (526)
T ss_pred             -EEEEECCEEEEEEECCCchh----hHHHHHHHHH--HCCEEEEEEecCCCCCHHHHHHHHHHHhcCCC-EEEEEECCcc
Confidence             01123577899999999753    2222222222  248899999996542 1111221221  2333 4578999996


Q ss_pred             CC-chhH-HHHHHHHhCCCeE
Q 011624          335 DS-RGGA-ALSVKEVSGKPIK  353 (481)
Q Consensus       335 ~~-~~g~-~~~~~~~~glPV~  353 (481)
                      .. .... +..+...++.++.
T Consensus       144 ~~a~~~~~l~~i~~~l~~~~~  164 (526)
T PRK00741        144 DGREPLELLDEIEEVLGIACA  164 (526)
T ss_pred             cccCHHHHHHHHHHHhCCCCe
Confidence            43 3333 3556666777653

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=97.71  E-value=0.00021  Score=64.59  Aligned_cols=65  Identities=20%  Similarity=0.190  Sum_probs=35.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhh-hcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFN-IEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~-~~~~i~GvIlnKvD~~  335 (481)
                      .++++.++||||..... .....   .  ....+.+++|+|+..+  ......+.... .+. ..-+|+||+|..
T Consensus        48 ~~~~~~iiDtpG~~~~~-~~~~~---~--~~~~d~il~v~d~~~~~~~~~~~~~~~~~~~~~-p~ivv~NK~Dl~  115 (168)
T cd01887          48 KIPGITFIDTPGHEAFT-NMRAR---G--ASLTDIAILVVAADDGVMPQTIEAIKLAKAANV-PFIVALNKIDKP  115 (168)
T ss_pred             CcceEEEEeCCCcHHHH-HHHHH---H--HhhcCEEEEEEECCCCccHHHHHHHHHHHHcCC-CEEEEEEceecc
Confidence            46789999999964211 11111   1  1234778999998543  22222222221 122 346889999964

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.71  E-value=0.00026  Score=69.52  Aligned_cols=76  Identities=24%  Similarity=0.422  Sum_probs=51.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      .-+++.|++|+|||+++.++|.++.++|++|+++++.    .....++.   ..     . ......    .+.++.+  
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~----~l~~~l~~---~~-----~-~~~~~~----~~~l~~l--  160 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVA----DIMSAMKD---TF-----S-NSETSE----EQLLNDL--  160 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHH----HHHHHHHH---HH-----h-hccccH----HHHHHHh--
Confidence            3688999999999999999999999999999988652    22222211   00     0 001111    1334444  


Q ss_pred             CCCcEEEEcCCCCcc
Q 011624          264 KNVDVVIVDTAGRLQ  278 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~  278 (481)
                      ..+|++|||..|...
T Consensus       161 ~~~dlLvIDDig~~~  175 (244)
T PRK07952        161 SNVDLLVIDEIGVQT  175 (244)
T ss_pred             ccCCEEEEeCCCCCC
Confidence            479999999998764

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=97.70  E-value=0.00018  Score=67.40  Aligned_cols=41  Identities=27%  Similarity=0.355  Sum_probs=32.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHH----------cCCeEEEEeccCCc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKK----------QGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~----------~G~kVlLId~D~~r  223 (481)
                      ..+.+++|++|+||||++..++..+..          ++.+|+++++|--.
T Consensus        32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~   82 (193)
T PF13481_consen   32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSE   82 (193)
T ss_dssp             TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-H
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCH
Confidence            458999999999999999999998886          57899999999653

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=97.70  E-value=0.00016  Score=66.54  Aligned_cols=39  Identities=33%  Similarity=0.410  Sum_probs=35.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +++.++|.+|+||||++.+|+..|..+|++|.+|..|..
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~~~g~~V~~iK~~~~   40 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALSARGLRVAVIKHDHH   40 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEecCC
Confidence            589999999999999999999999999999999887654

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=97.69  E-value=0.00077  Score=63.32  Aligned_cols=65  Identities=26%  Similarity=0.384  Sum_probs=36.7

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHh-hhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTF-NIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f-~~~~~i~GvIlnKvD~~  335 (481)
                      +++.+.++||||...    +.........  ..+.+++|+|+..+  .......... ....+ .-+++||+|..
T Consensus        63 ~~~~~~l~DtpG~~~----~~~~~~~~~~--~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p-~iiv~NK~Dl~  130 (194)
T cd01891          63 KDTKINIVDTPGHAD----FGGEVERVLS--MVDGVLLLVDASEGPMPQTRFVLKKALELGLK-PIVVINKIDRP  130 (194)
T ss_pred             CCEEEEEEECCCcHH----HHHHHHHHHH--hcCEEEEEEECCCCccHHHHHHHHHHHHcCCC-EEEEEECCCCC
Confidence            467789999999743    2222222222  34788999998543  1111222222 22333 45789999974

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>TIGR00503 prfC peptide chain release factor 3

Probab=97.69  E-value=0.00022  Score=77.59  Aligned_cols=148  Identities=19%  Similarity=0.194  Sum_probs=74.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC-CchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV-YRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~-~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      +.+-++++|++|+||||++.+|..+...- .+..-++.+. .+....|.. ......|+.+.....             .
T Consensus        10 ~~RniaiiGh~~aGKTTL~e~Ll~~~g~i-~~~g~v~~~g~~~~t~~D~~-~~E~~rgisi~~~~~-------------~   74 (527)
T TIGR00503        10 KRRTFAIISHPDAGKTTITEKVLLYGGAI-QTAGAVKGRGSQRHAKSDWM-EMEKQRGISITTSVM-------------Q   74 (527)
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHhCCCc-cccceeccccccccccCCCC-HHHHhcCCcEEEEEE-------------E
Confidence            45689999999999999999886432110 1122222111 000111100 111112333221100             0


Q ss_pred             HHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch-HHHHHHHHHh-h-hcCCeeEEEEcCCCCC-C
Q 011624          261 AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG-QEAAALVTTF-N-IEIGITGAILTKLDGD-S  336 (481)
Q Consensus       261 ~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~-~~~~~~~~~f-~-~~~~i~GvIlnKvD~~-~  336 (481)
                      +.++++.+.|+||||...    +..+....+.  ..+.+++|+|+..+ ......+... . ... ..-+++||+|.. .
T Consensus        75 ~~~~~~~inliDTPG~~d----f~~~~~~~l~--~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~-PiivviNKiD~~~~  147 (527)
T TIGR00503        75 FPYRDCLVNLLDTPGHED----FSEDTYRTLT--AVDNCLMVIDAAKGVETRTRKLMEVTRLRDT-PIFTFMNKLDRDIR  147 (527)
T ss_pred             EeeCCeEEEEEECCChhh----HHHHHHHHHH--hCCEEEEEEECCCCCCHHHHHHHHHHHhcCC-CEEEEEECccccCC
Confidence            123578899999999742    2233322222  34889999999654 1111122111 1 123 355789999964 3


Q ss_pred             chhHH-HHHHHHhCCC
Q 011624          337 RGGAA-LSVKEVSGKP  351 (481)
Q Consensus       337 ~~g~~-~~~~~~~glP  351 (481)
                      ....+ ..+....+.+
T Consensus       148 ~~~~ll~~i~~~l~~~  163 (527)
T TIGR00503       148 DPLELLDEVENELKIN  163 (527)
T ss_pred             CHHHHHHHHHHHhCCC
Confidence            44344 4455556654

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>PRK06762 hypothetical protein; Provisional

Probab=97.68  E-value=0.00015  Score=66.35  Aligned_cols=38  Identities=42%  Similarity=0.711  Sum_probs=32.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      |++|+++|++|+||||++..|+..+   |..+.+++.|.+|
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l---~~~~~~i~~D~~r   39 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL---GRGTLLVSQDVVR   39 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh---CCCeEEecHHHHH
Confidence            6799999999999999999999877   4568888877654

>PRK15453 phosphoribulokinase; Provisional

Probab=97.67  E-value=0.00023  Score=71.04  Aligned_cols=43  Identities=23%  Similarity=0.513  Sum_probs=39.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      ++.+|+++|.+||||||++..|+..|...|.++.+++.|.|..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~~~~~~~~vi~~D~yh~   46 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFRRENINAAVVEGDSFHR   46 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEEecccccc
Confidence            4679999999999999999999999988888999999999864

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=97.67  E-value=0.00029  Score=76.49  Aligned_cols=52  Identities=33%  Similarity=0.614  Sum_probs=42.0

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ..|.++++++..       ++.++++.|++|+|||+++..++...+++|.+|++++.+-
T Consensus       260 ~~lD~~l~GG~~-------~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~  311 (509)
T PRK09302        260 PDLDEMLGGGFF-------RGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEE  311 (509)
T ss_pred             HHHHHhhcCCCC-------CCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence            345555544332       4578999999999999999999998889999999998874

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=97.67  E-value=0.00017  Score=71.47  Aligned_cols=40  Identities=30%  Similarity=0.530  Sum_probs=37.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      ||.++|.+||||||++.+|+..|.+.|.+|.+|+.|.|..
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~~g~~v~vI~~D~yyr   40 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFAREGIHPAVVEGDSFHR   40 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhcCCceEEEecccccc
Confidence            5789999999999999999999999999999999999865

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=97.66  E-value=0.00028  Score=74.03  Aligned_cols=20  Identities=30%  Similarity=0.393  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      =|+++|.++|||||+...|.
T Consensus       161 dValVG~PNaGKSTLln~Lt  180 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVS  180 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHh
Confidence            47889999999999999886

>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]

Probab=97.66  E-value=0.00017  Score=70.04  Aligned_cols=99  Identities=25%  Similarity=0.406  Sum_probs=67.4

Q ss_pred             HHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCcccc----c--cccCCCCEEEEEEc
Q 011624          117 IRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSE----L--VFAKSRPTVILLAG  190 (481)
Q Consensus       117 i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~----~--~~~~~~~~VI~i~G  190 (481)
                      +.+.|..+||.+.++-.+.-.+++.+.+.+..  +-..+++.+ ++..+.+--+++...    |  -.....|.||++.|
T Consensus        20 L~rSlta~g~~p~~Ay~iA~~i~e~L~~~~~~--~v~~~eir~-~~~~l~~k~~~e~a~rY~lwR~ir~~~~p~IILIGG   96 (299)
T COG2074          20 LARSLTAAGVDPDLAYSIAIEIQEELKKEGIR--LVTKDEIRE-VYQKLLEKGDPEVAKRYLLWRRIRKMKRPLIILIGG   96 (299)
T ss_pred             HHHHHHhcccChhHHHHHHHHHHHHHHhCCCe--EeeHHHHHH-HHHHHHHhcCHHHHHHHHHHHHHhccCCCeEEEecC
Confidence            56789999999999999999998888765532  233455555 444444433332211    1  11234589999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          191 LQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       191 ~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+||||||++.-||..|   |.+- ++.+|.-
T Consensus        97 asGVGkStIA~ElA~rL---gI~~-visTD~I  124 (299)
T COG2074          97 ASGVGKSTIAGELARRL---GIRS-VISTDSI  124 (299)
T ss_pred             CCCCChhHHHHHHHHHc---CCce-eecchHH
Confidence            99999999999998766   5443 4677754

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=97.66  E-value=0.00031  Score=79.72  Aligned_cols=136  Identities=21%  Similarity=0.151  Sum_probs=74.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..|+++|.++|||||+..+|.      |.+..        .         ++..|+.+......             ...
T Consensus         4 ~~IaLvG~pNvGKSTLfN~Lt------g~~~~--------v---------gn~pGvTve~k~g~-------------~~~   47 (772)
T PRK09554          4 LTIGLIGNPNSGKTTLFNQLT------GARQR--------V---------GNWAGVTVERKEGQ-------------FST   47 (772)
T ss_pred             eEEEEECCCCCCHHHHHHHHh------CCCCc--------c---------CCCCCceEeeEEEE-------------EEc
Confidence            468899999999999999884      32211        0         01122222100000             012


Q ss_pred             CCCcEEEEcCCCCccccH----HHHHHH-H-hhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDK----AMMDEL-K-DVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~----~~~~el-~-~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      .++++.++||||......    ...+|. . .....-.++-+++|+|++..+..........+.-...-+++||+|...+
T Consensus        48 ~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~ler~l~l~~ql~e~giPvIvVlNK~Dl~~~  127 (772)
T PRK09554         48 TDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLYLTLQLLELGIPCIVALNMLDIAEK  127 (772)
T ss_pred             CceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcchhhHHHHHHHHHcCCCEEEEEEchhhhhc
Confidence            467899999999754311    122222 1 1111225688999999965543332222222211235689999997533


Q ss_pred             hh---HHHHHHHHhCCCeEEe
Q 011624          338 GG---AALSVKEVSGKPIKLV  355 (481)
Q Consensus       338 ~g---~~~~~~~~~glPV~~i  355 (481)
                      .+   ....+.+..|.|+..+
T Consensus       128 ~~i~id~~~L~~~LG~pVvpi  148 (772)
T PRK09554        128 QNIRIDIDALSARLGCPVIPL  148 (772)
T ss_pred             cCcHHHHHHHHHHhCCCEEEE
Confidence            22   2345667789998643

>cd00880 Era_like Era (E

Probab=97.65  E-value=9e-05  Score=65.10  Aligned_cols=71  Identities=20%  Similarity=0.090  Sum_probs=38.5

Q ss_pred             CCcEEEEcCCCCccccHHH---HHHHHhhhhccCCceEEEEEeCcchHHHHHH--HHHhhhcCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAM---MDELKDVKRVLNPTEVLLVVDAMTGQEAAAL--VTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~---~~el~~i~~~~~p~~vvLVvda~~~~~~~~~--~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      .++++++||||........   ........  ..++.+++|+|+.........  ...+.......-+++||+|....
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~--~~~d~il~v~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nK~D~~~~  119 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVL--ERADLILFVVDADLRADEEEEKLLELLRERGKPVLLVLNKIDLLPE  119 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHH--HhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCeEEEEEEccccCCh
Confidence            6789999999975431111   11111122  235788999998544221111  22222122234589999997654

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>cd01895 EngA2 EngA2 subfamily

Probab=97.64  E-value=0.00075  Score=60.76  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=18.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +..++++|.+|+||||++..|.
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~   23 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALL   23 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHh
Confidence            4468899999999999998885

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>cd04167 Snu114p Snu114p subfamily

Probab=97.64  E-value=0.00024  Score=68.01  Aligned_cols=23  Identities=26%  Similarity=0.255  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      -++++|..|+||||++..|....
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~   24 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQT   24 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhc
Confidence            47788999999999999997644

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=97.62  E-value=0.00032  Score=60.22  Aligned_cols=67  Identities=18%  Similarity=0.231  Sum_probs=36.6

Q ss_pred             CCCcEEEEcCCCCccccHHHH--HHHHhhhhc-cCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMM--DELKDVKRV-LNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTK  331 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~--~el~~i~~~-~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnK  331 (481)
                      .+..+.|+||||.........  ....++.+. ...+-+++|+|+...  .+....++.+. .-...-+|+||
T Consensus        45 ~~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vv~~~~~~~~~~~~~~~~l~-~~~~~i~v~NK  116 (116)
T PF01926_consen   45 NNKKFILVDTPGINDGESQDNDGKEIRKFLEQISKSDLIIYVVDASNPITEDDKNILRELK-NKKPIILVLNK  116 (116)
T ss_dssp             TTEEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEEEEEETTSHSHHHHHHHHHHHH-TTSEEEEEEES
T ss_pred             ceeeEEEEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHh-cCCCEEEEEcC
Confidence            355679999999865422111  112222222 234778999998443  22334444443 33455688887

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=97.62  E-value=0.00017  Score=73.44  Aligned_cols=100  Identities=25%  Similarity=0.374  Sum_probs=62.7

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC-CchhHHHHHHHhhhhcCCC
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV-YRPAAIDQLVILGEQVGVP  240 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~-~rp~aidql~~~~~~~gv~  240 (481)
                      ..|...|+ ++..       +.+++-+.|++|+||||++..+.+.+.+.|..+++||++- +-|.+       ....|++
T Consensus        39 ~~LD~aLg~GG~p-------~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~ld~~~-------a~~lGvd  104 (322)
T PF00154_consen   39 PALDYALGIGGLP-------RGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDAEHALDPEY-------AESLGVD  104 (322)
T ss_dssp             HHHHHHTSSSSEE-------TTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEESSS---HHH-------HHHTT--
T ss_pred             cccchhhccCccc-------cCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEecCcccchhhH-------HHhcCcc
Confidence            45666676 4332       4579999999999999999999999888999999999963 22332       3334543


Q ss_pred             e---ecCCCCCCHHHHHHHHHHHH-HcCCCcEEEEcCCCCcc
Q 011624          241 V---YTAGTEVKPSQIAKQGLEEA-KKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       241 v---~~~~~~~~~~~~l~~~l~~~-~~~~~D~VIIDt~G~~~  278 (481)
                      +   +...  .+..+.+.+.++.+ +.+.+|+||||..+.+.
T Consensus       105 l~rllv~~--P~~~E~al~~~e~lirsg~~~lVVvDSv~al~  144 (322)
T PF00154_consen  105 LDRLLVVQ--PDTGEQALWIAEQLIRSGAVDLVVVDSVAALV  144 (322)
T ss_dssp             GGGEEEEE---SSHHHHHHHHHHHHHTTSESEEEEE-CTT-B
T ss_pred             ccceEEec--CCcHHHHHHHHHHHhhcccccEEEEecCcccC
Confidence            2   1111  12233333444443 45678999999988775

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>COG4240 Predicted kinase [General function prediction only]

Probab=97.62  E-value=0.00048  Score=66.11  Aligned_cols=72  Identities=24%  Similarity=0.386  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcC-CeEEEEeccCCchhHHHHH
Q 011624          158 VKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQG-KSCMLVAGDVYRPAAIDQL  230 (481)
Q Consensus       158 ~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G-~kVlLId~D~~rp~aidql  230 (481)
                      .+.+.+....++. ...++.+..++|.|+.++|++|+||||+++.|-..|..+| .+++-...|-+=-...+++
T Consensus        26 ~~~~~dl~Lpll~-Kiap~~qe~grPli~gisGpQGSGKStls~~i~~~L~~kg~ert~~lSLDDlYlthadrl   98 (300)
T COG4240          26 AALAQDLHLPLLA-KIAPWAQERGRPLIVGISGPQGSGKSTLSALIVRLLAAKGLERTATLSLDDLYLTHADRL   98 (300)
T ss_pred             HHHHHHHHHHHHH-hhhhhhhhcCCceEEEeecCCCCchhhHHHHHHHHHHHhcccceEEeehhhhhcchHHHH
Confidence            3444444444433 2333444556799999999999999999999999999888 7999999986543334555

>PRK09866 hypothetical protein; Provisional

Probab=97.61  E-value=0.0016  Score=71.31  Aligned_cols=69  Identities=14%  Similarity=0.131  Sum_probs=39.8

Q ss_pred             CCcEEEEcCCCCcccc-HHHHHHHHhhhhccCCceEEEEEeCcc--hHHHHHHHHHhhhcC--CeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQID-KAMMDELKDVKRVLNPTEVLLVVDAMT--GQEAAALVTTFNIEI--GITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d-~~~~~el~~i~~~~~p~~vvLVvda~~--~~~~~~~~~~f~~~~--~i~GvIlnKvD~~  335 (481)
                      .+.+|+|||||..... ..+...+.+.  .-..+-+++|+|+..  +.+-...++.....-  ...-+|+||+|..
T Consensus       229 ~~QIIFVDTPGIhk~~~~~L~k~M~eq--L~eADvVLFVVDat~~~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl~  302 (741)
T PRK09866        229 PGQLTLLDTPGPNEAGQPHLQKMLNQQ--LARASAVLAVLDYTQLKSISDEEVREAILAVGQSVPLYVLVNKFDQQ  302 (741)
T ss_pred             cCCEEEEECCCCCCccchHHHHHHHHH--HhhCCEEEEEEeCCCCCChhHHHHHHHHHhcCCCCCEEEEEEcccCC
Confidence            5789999999997542 2232333332  223588999999954  222222222222111  1455899999974

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=97.61  E-value=0.00081  Score=71.19  Aligned_cols=114  Identities=22%  Similarity=0.333  Sum_probs=60.0

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCC
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKN  265 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~  265 (481)
                      |+++|.+||||||+...|.      |.+..+++..   |+..           .....               ....+.+
T Consensus         2 i~ivG~~nvGKStL~n~l~------~~~~~~v~~~---~g~t-----------~d~~~---------------~~~~~~~   46 (429)
T TIGR03594         2 VAIVGRPNVGKSTLFNRLT------GKRDAIVSDT---PGVT-----------RDRKY---------------GDAEWGG   46 (429)
T ss_pred             EEEECCCCCCHHHHHHHHh------CCCcceecCC---CCcc-----------cCceE---------------EEEEECC
Confidence            7889999999999998885      3333322111   1100           00000               0001245


Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhh--hccCCceEEEEEeCcchH-----HHHHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVK--RVLNPTEVLLVVDAMTGQ-----EAAALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~--~~~~p~~vvLVvda~~~~-----~~~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.|+||||.......+..++....  ..-.++.+++|+|+..+.     .....++..  . ...-+|+||+|....
T Consensus        47 ~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~--~-~piilVvNK~D~~~~  122 (429)
T TIGR03594        47 REFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWLRKS--G-KPVILVANKIDGKKE  122 (429)
T ss_pred             eEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHh--C-CCEEEEEECccCCcc
Confidence            56899999997433222222221111  112357889999995431     122333322  2 234578999997543

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=97.60  E-value=0.00076  Score=66.51  Aligned_cols=23  Identities=30%  Similarity=0.440  Sum_probs=19.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .+..|++.|++||||||++..|.
T Consensus        30 ~~~~IllvG~tGvGKSSliNaLl   52 (249)
T cd01853          30 FSLTILVLGKTGVGKSSTINSIF   52 (249)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHh
Confidence            45678889999999999998876

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.59  E-value=0.0004  Score=75.01  Aligned_cols=101  Identities=16%  Similarity=0.160  Sum_probs=65.3

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHHHHHhhhhcCCC-
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVP-  240 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidql~~~~~~~gv~-  240 (481)
                      ..|.++++++..       +++++++.|++|+||||++..++..-+++ |.++++|+.+--......+    +...|.+ 
T Consensus         8 ~gLD~il~GGlp-------~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~eE~~~~l~~~----~~~~G~~~   76 (484)
T TIGR02655         8 EGFDDISHGGLP-------IGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFEESPQDIIKN----ARSFGWDL   76 (484)
T ss_pred             hhHHHhcCCCCC-------CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEecCHHHHHHH----HHHcCCCH
Confidence            356777776654       57899999999999999999998765555 9999999998432222222    2222221 


Q ss_pred             ----------eecCC---------CCCCHHHHHHHHHHHHHcCCCcEEEEcCC
Q 011624          241 ----------VYTAG---------TEVKPSQIAKQGLEEAKKKNVDVVIVDTA  274 (481)
Q Consensus       241 ----------v~~~~---------~~~~~~~~l~~~l~~~~~~~~D~VIIDt~  274 (481)
                                ++...         ...+..+.+......+...+.+.|+||..
T Consensus        77 ~~~~~~g~l~~~~~~~~~~~~~~~~~~~l~~~l~~i~~~ls~g~~qRVvIDSl  129 (484)
T TIGR02655        77 QKLVDEGKLFILDASPDPEGQDVVGGFDLSALIERINYAIRKYKAKRVSIDSV  129 (484)
T ss_pred             HHHhhcCceEEEecCchhccccccccCCHHHHHHHHHHHHHHhCCcEEEEeeh
Confidence                      11110         12344455555555655567899999953

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=97.59  E-value=0.002  Score=66.46  Aligned_cols=95  Identities=22%  Similarity=0.292  Sum_probs=59.1

Q ss_pred             CCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHH---------HHHHHHHHHhcCccccccccCCCCEEEEEEcCCCC
Q 011624          124 ADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVK---------IVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGV  194 (481)
Q Consensus       124 ~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~---------~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~Gv  194 (481)
                      .+++..-++++...+.+...     .+......+.+         .-...|.++|+++..       ...++.+.|.+|+
T Consensus        67 ~~is~~~~~~~~~~~~~~~~-----~~~~ta~~~~~~~~~~~~i~tG~~~LD~lL~GG~~-------~g~i~~i~G~~g~  134 (342)
T PLN03186         67 KGISEAKVEKILEAASKLVP-----LGFTTASQLHAQRQEIIQITTGSRELDKILEGGIE-------TGSITEIYGEFRT  134 (342)
T ss_pred             cCCCHHHHHHHHHHHHHhcc-----cccchHHHHhhcccCcceeCCCCHHHHHhhcCCCc-------CceEEEEECCCCC
Confidence            67777777777666644321     11111111111         111456666666543       4578999999999


Q ss_pred             CHHHHHHHHHHHHH---Hc---CCeEEEEeccC-CchhHHHHH
Q 011624          195 GKTTVSAKLANYLK---KQ---GKSCMLVAGDV-YRPAAIDQL  230 (481)
Q Consensus       195 GKTTta~~LA~~L~---~~---G~kVlLId~D~-~rp~aidql  230 (481)
                      |||+++..|+....   .+   +.+|++||++- |+|.-+.++
T Consensus       135 GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~qi  177 (342)
T PLN03186        135 GKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQI  177 (342)
T ss_pred             CccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHHH
Confidence            99999999986433   12   24899999985 777755554

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.59  E-value=0.001  Score=63.43  Aligned_cols=109  Identities=26%  Similarity=0.362  Sum_probs=73.9

Q ss_pred             HHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhc----
Q 011624          162 RDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQV----  237 (481)
Q Consensus       162 ~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~----  237 (481)
                      .++|.+-||+++.       -|.++++-|..|.|||-++..+++-+..+|++|.++....---.++.|+....-..    
T Consensus        14 ndelDkrLGGGiP-------~GsL~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~~   86 (235)
T COG2874          14 NDELDKRLGGGIP-------VGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTELTVREFIKQMESLSYDVSDFL   86 (235)
T ss_pred             cHHHHhhccCCCc-------cCeEEEEECCCCccHHHHHHHHHHHHHhCCceEEEEEechhHHHHHHHHHhcCCCchHHH
Confidence            4788888988764       47899999999999999999999999999999999998865556676664322110    


Q ss_pred             --C-CCeecC--CC-CCC---HHHHHHHHHHHHHcCCCcEEEEcCCCCc
Q 011624          238 --G-VPVYTA--GT-EVK---PSQIAKQGLEEAKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       238 --g-v~v~~~--~~-~~~---~~~~l~~~l~~~~~~~~D~VIIDt~G~~  277 (481)
                        | ..+++.  +. ..+   ....+...++..+..+.|++|||+-...
T Consensus        87 l~G~l~~~~~~~~~~~~~~~~~~~~L~~l~~~~k~~~~dViIIDSls~~  135 (235)
T COG2874          87 LSGRLLFFPVNLEPVNWGRRSARKLLDLLLEFIKRWEKDVIIIDSLSAF  135 (235)
T ss_pred             hcceeEEEEecccccccChHHHHHHHHHHHhhHHhhcCCEEEEecccHH
Confidence              1 112222  11 111   1123344444445568899999996443

>cd04171 SelB SelB subfamily

Probab=97.59  E-value=0.0011  Score=59.49  Aligned_cols=66  Identities=21%  Similarity=0.200  Sum_probs=35.8

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhh-hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFN-IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~-~~~~i~GvIlnKvD~~~  336 (481)
                      ++.+.++||||.-.    ....+...  ....+.+++|+|+..+  ........... ......-+++||+|...
T Consensus        50 ~~~~~~~DtpG~~~----~~~~~~~~--~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~  118 (164)
T cd04171          50 GKRLGFIDVPGHEK----FIKNMLAG--AGGIDLVLLVVAADEGIMPQTREHLEILELLGIKRGLVVLTKADLVD  118 (164)
T ss_pred             CcEEEEEECCChHH----HHHHHHhh--hhcCCEEEEEEECCCCccHhHHHHHHHHHHhCCCcEEEEEECccccC
Confidence            45789999999632    22222211  2245788999998542  11112111111 12223458899999754

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>PRK00049 elongation factor Tu; Reviewed

Probab=97.59  E-value=0.00063  Score=71.62  Aligned_cols=123  Identities=21%  Similarity=0.189  Sum_probs=65.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE--eccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV--AGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI--d~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .-++++|..++||||++..|.....+.|..-...  ..|..         ......|+.+-....             .+
T Consensus        13 ~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~---------~~E~~rg~Ti~~~~~-------------~~   70 (396)
T PRK00049         13 VNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKA---------PEEKARGITINTAHV-------------EY   70 (396)
T ss_pred             EEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCC---------hHHHhcCeEEeeeEE-------------EE
Confidence            3477889999999999999987665554311100  11111         011112222211100             01


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HH---HHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QE---AAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~---~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..++..+++|||||..    .+..++....  ...+.+++|+|+..+  ..   ....+..+  ..+..-|++||+|...
T Consensus        71 ~~~~~~i~~iDtPG~~----~f~~~~~~~~--~~aD~~llVVDa~~g~~~qt~~~~~~~~~~--g~p~iiVvvNK~D~~~  142 (396)
T PRK00049         71 ETEKRHYAHVDCPGHA----DYVKNMITGA--AQMDGAILVVSAADGPMPQTREHILLARQV--GVPYIVVFLNKCDMVD  142 (396)
T ss_pred             cCCCeEEEEEECCCHH----HHHHHHHhhh--ccCCEEEEEEECCCCCchHHHHHHHHHHHc--CCCEEEEEEeecCCcc
Confidence            1245679999999963    3444443222  345889999999544  11   22222222  2333335789999753

>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=97.56  E-value=0.00039  Score=69.35  Aligned_cols=104  Identities=29%  Similarity=0.449  Sum_probs=57.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeec-CCCCCCHHHHHHHHHHHHHc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT-AGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~-~~~~~~~~~~l~~~l~~~~~  263 (481)
                      .|+++|.|||||||.+..|+.+|.+.+++|.+|+-|...         +. . +.  +. ...+......++..+++...
T Consensus         3 Liil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~---------~~-~-~~--y~~~~~Ek~~R~~l~s~v~r~ls   69 (270)
T PF08433_consen    3 LIILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLG---------ID-R-ND--YADSKKEKEARGSLKSAVERALS   69 (270)
T ss_dssp             EEEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH----------T-T-SS--S--GGGHHHHHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccc---------cc-h-hh--hhchhhhHHHHHHHHHHHHHhhc
Confidence            688999999999999999999999999999999866332         00 0 01  11 00011112234555555543


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      .+ ++||+|..-..   .++-.|+-.+.+.......++-+++
T Consensus        70 ~~-~iVI~Dd~nYi---Kg~RYelyclAr~~~~~~c~i~~~~  107 (270)
T PF08433_consen   70 KD-TIVILDDNNYI---KGMRYELYCLARAYGTTFCVIYCDC  107 (270)
T ss_dssp             T--SEEEE-S---S---HHHHHHHHHHHHHTT-EEEEEEEE-
T ss_pred             cC-eEEEEeCCchH---HHHHHHHHHHHHHcCCCEEEEEECC
Confidence            44 89999997554   4677777777776654444444444

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=97.56  E-value=0.0001  Score=69.84  Aligned_cols=44  Identities=36%  Similarity=0.563  Sum_probs=39.9

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      ++|.+++++|++|+||||++..|+..|..+|..+.+++.|..+.
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld~d~~~~   65 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLDGDNVRH   65 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEcCEeHHh
Confidence            46889999999999999999999999988899999999998763

>COG1084 Predicted GTPase [General function prediction only]

Probab=97.56  E-value=0.0014  Score=66.11  Aligned_cols=117  Identities=19%  Similarity=0.306  Sum_probs=62.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      -..++++|.+.|||||+..+|..    ..-.|+     +|      +..  .+  ++.+   |              ++.
T Consensus       168 ~pTivVaG~PNVGKSSlv~~lT~----AkpEvA-----~Y------PFT--TK--~i~v---G--------------hfe  211 (346)
T COG1084         168 LPTIVVAGYPNVGKSSLVRKLTT----AKPEVA-----PY------PFT--TK--GIHV---G--------------HFE  211 (346)
T ss_pred             CCeEEEecCCCCcHHHHHHHHhc----CCCccC-----CC------Ccc--cc--ceeE---e--------------eee
Confidence            35788999999999999988851    111222     22      110  11  1111   1              111


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHH--Hhhhhcc-CCceEEEEEeC--cchHHHHHHHHH---hhhcCC-eeEEEEcCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDEL--KDVKRVL-NPTEVLLVVDA--MTGQEAAALVTT---FNIEIG-ITGAILTKLD  333 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el--~~i~~~~-~p~~vvLVvda--~~~~~~~~~~~~---f~~~~~-i~GvIlnKvD  333 (481)
                      .+...+=+|||||.++....-+.++  ..+.... -.+-+++++|+  ..|.+...|..-   ..+.+. ..-+|+||+|
T Consensus       212 ~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~~p~v~V~nK~D  291 (346)
T COG1084         212 RGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFKAPIVVVINKID  291 (346)
T ss_pred             cCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcCCCeEEEEeccc
Confidence            1344688999999987632222211  1111111 12567899998  344444444432   233333 4668999999


Q ss_pred             CC
Q 011624          334 GD  335 (481)
Q Consensus       334 ~~  335 (481)
                      ..
T Consensus       292 ~~  293 (346)
T COG1084         292 IA  293 (346)
T ss_pred             cc
Confidence            65

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=97.56  E-value=0.00036  Score=62.35  Aligned_cols=91  Identities=16%  Similarity=0.093  Sum_probs=45.4

Q ss_pred             CCcEEEEcCCCCccccHH-HHHHHHh-hhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCch---h
Q 011624          265 NVDVVIVDTAGRLQIDKA-MMDELKD-VKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRG---G  339 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~-~~~el~~-i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~---g  339 (481)
                      +.++.++||||....... .-..+.. ....-..+.+++|+|+................-...-+++||+|.....   .
T Consensus        42 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~iiv~NK~Dl~~~~~~~~  121 (158)
T cd01879          42 GKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNLERNLYLTLQLLELGLPVVVALNMIDEAEKRGIKI  121 (158)
T ss_pred             CeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcchhHHHHHHHHHHcCCCEEEEEehhhhcccccchh
Confidence            457999999997532110 0011111 1111245888999998554332222222221112345889999964321   1


Q ss_pred             HHHHHHHHhCCCeEEe
Q 011624          340 AALSVKEVSGKPIKLV  355 (481)
Q Consensus       340 ~~~~~~~~~glPV~~i  355 (481)
                      ....+....+.|+..+
T Consensus       122 ~~~~~~~~~~~~~~~i  137 (158)
T cd01879         122 DLDKLSELLGVPVVPT  137 (158)
T ss_pred             hHHHHHHhhCCCeEEE
Confidence            1234444557776443

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=97.56  E-value=0.00061  Score=74.05  Aligned_cols=61  Identities=16%  Similarity=0.220  Sum_probs=47.5

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHHH
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQL  230 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidql  230 (481)
                      ..|.++++++..       ++.++++.|.+|+||||++..++...+++ |.+|++|+++--.....+++
T Consensus        18 ~~LD~~l~GG~p-------~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee~~~~i~~~~   79 (509)
T PRK09302         18 EGFDDITHGGLP-------KGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEESPEDIIRNV   79 (509)
T ss_pred             hhHHHhhcCCCC-------CCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccCCHHHHHHHH
Confidence            466777765543       46899999999999999999999877766 99999999997544443433

>PLN03127 Elongation factor Tu; Provisional

Probab=97.56  E-value=0.00097  Score=71.27  Aligned_cols=123  Identities=23%  Similarity=0.220  Sum_probs=65.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCe--EEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKS--CMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~k--VlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ..|++.|..++||||++..|.....+.|..  ...-.+|... .        ....|+.+-....             .+
T Consensus        62 ~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~-~--------E~~rGiTi~~~~~-------------~~  119 (447)
T PLN03127         62 VNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAP-E--------EKARGITIATAHV-------------EY  119 (447)
T ss_pred             EEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCCh-h--------HhhcCceeeeeEE-------------EE
Confidence            457788999999999999998666555542  1111123211 0        1111222111000             01


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..++..+++|||||...    ++..+..-.  ...|.++||+|+..+   +  +.+..+..+  .++..-+++||+|...
T Consensus       120 ~~~~~~i~~iDtPGh~~----f~~~~~~g~--~~aD~allVVda~~g~~~qt~e~l~~~~~~--gip~iIvviNKiDlv~  191 (447)
T PLN03127        120 ETAKRHYAHVDCPGHAD----YVKNMITGA--AQMDGGILVVSAPDGPMPQTKEHILLARQV--GVPSLVVFLNKVDVVD  191 (447)
T ss_pred             cCCCeEEEEEECCCccc----hHHHHHHHH--hhCCEEEEEEECCCCCchhHHHHHHHHHHc--CCCeEEEEEEeeccCC
Confidence            12456799999999743    333332222  235889999999543   2  222222222  2222236799999753

>cd01898 Obg Obg subfamily

Probab=97.55  E-value=0.00061  Score=61.79  Aligned_cols=19  Identities=32%  Similarity=0.559  Sum_probs=17.2

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||+...|.
T Consensus         3 v~ivG~~~~GKStl~~~l~   21 (170)
T cd01898           3 VGLVGLPNAGKSTLLSAIS   21 (170)
T ss_pred             eEEECCCCCCHHHHHHHHh
Confidence            6788999999999998885

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>PRK08727 hypothetical protein; Validated

Probab=97.55  E-value=0.00078  Score=65.69  Aligned_cols=36  Identities=25%  Similarity=0.391  Sum_probs=32.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .+++.|++|+|||+++..++..+.++|++|.++.++
T Consensus        43 ~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~   78 (233)
T PRK08727         43 WLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQ   78 (233)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHH
Confidence            588999999999999999999999999999988753

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.55  E-value=0.0012  Score=63.35  Aligned_cols=41  Identities=20%  Similarity=0.255  Sum_probs=35.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+..+++.|++|+||||++..++..+.+.|.++.+++++.+
T Consensus        37 ~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~   77 (226)
T TIGR03420        37 GDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAEL   77 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHH
Confidence            35688899999999999999999988888889998888754

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.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=97.55  E-value=0.00072  Score=76.12  Aligned_cols=98  Identities=20%  Similarity=0.323  Sum_probs=65.7

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC-CchhHHHHHHHhhhhcCCC
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV-YRPAAIDQLVILGEQVGVP  240 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~-~rp~aidql~~~~~~~gv~  240 (481)
                      .+|..+|+ ++..       +.+++.+.|++|+||||++..++....++|.+|++||.+- +++.       +++..|++
T Consensus        46 ~~LD~lLg~GGip-------~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~-------~A~~lGvD  111 (790)
T PRK09519         46 IALDVALGIGGLP-------RGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPD-------YAKKLGVD  111 (790)
T ss_pred             HHHHHhhcCCCcc-------CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHH-------HHHHcCCC
Confidence            46777887 5553       4689999999999999999999888888899999999874 3333       33344543


Q ss_pred             e---ecCCCCCCHHHHHHHHHHH-HHcCCCcEEEEcCCCC
Q 011624          241 V---YTAGTEVKPSQIAKQGLEE-AKKKNVDVVIVDTAGR  276 (481)
Q Consensus       241 v---~~~~~~~~~~~~l~~~l~~-~~~~~~D~VIIDt~G~  276 (481)
                      .   +...  ..+.+.+...+.. ++...+++||||+...
T Consensus       112 l~~llv~~--~~~~E~~l~~i~~lv~~~~~~LVVIDSI~a  149 (790)
T PRK09519        112 TDSLLVSQ--PDTGEQALEIADMLIRSGALDIVVIDSVAA  149 (790)
T ss_pred             hhHeEEec--CCCHHHHHHHHHHHhhcCCCeEEEEcchhh
Confidence            2   1111  1222333233333 3346799999999653

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=97.54  E-value=0.00065  Score=68.76  Aligned_cols=134  Identities=19%  Similarity=0.286  Sum_probs=69.7

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      ++|.++++.-..    .......|++.|.+|+||||+...|.      |.+|..+..  |.+.            +....
T Consensus        22 ~~l~~~l~~l~~----~~~~~~rIllvGktGVGKSSliNsIl------G~~v~~vs~--f~s~------------t~~~~   77 (313)
T TIGR00991        22 TKLLELLGKLKE----EDVSSLTILVMGKGGVGKSSTVNSII------GERIATVSA--FQSE------------GLRPM   77 (313)
T ss_pred             HHHHHHHHhccc----ccccceEEEEECCCCCCHHHHHHHHh------CCCcccccC--CCCc------------ceeEE
Confidence            566666653221    12234578899999999999998886      555543221  1110            00000


Q ss_pred             cCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCcccc---HHHHHHHHhhhhccCCceEEEEE--eCc-ch---HHHHH
Q 011624          243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQID---KAMMDELKDVKRVLNPTEVLLVV--DAM-TG---QEAAA  313 (481)
Q Consensus       243 ~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d---~~~~~el~~i~~~~~p~~vvLVv--da~-~~---~~~~~  313 (481)
                      ....               ...+..+.||||||.....   ......+........++-+++|.  |.. ..   ..+.+
T Consensus        78 ~~~~---------------~~~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk  142 (313)
T TIGR00991        78 MVSR---------------TRAGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIR  142 (313)
T ss_pred             EEEE---------------EECCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccCcccCCHHHHHHHH
Confidence            0000               0146679999999987532   12222233323223467777774  331 11   23333


Q ss_pred             HH-HHhhhcC-CeeEEEEcCCCCC
Q 011624          314 LV-TTFNIEI-GITGAILTKLDGD  335 (481)
Q Consensus       314 ~~-~~f~~~~-~i~GvIlnKvD~~  335 (481)
                      .+ ..|...+ ...-|++|+.|..
T Consensus       143 ~Iqe~FG~~iw~~~IVVfTh~d~~  166 (313)
T TIGR00991       143 AITDSFGKDIWRKSLVVLTHAQFS  166 (313)
T ss_pred             HHHHHhhhhhhccEEEEEECCccC
Confidence            33 3343322 3356889999954

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=97.54  E-value=0.0003  Score=67.75  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L  207 (481)
                      |+++|+.|+||||++..|....
T Consensus         2 v~i~Gh~~~GKttL~~~ll~~~   23 (219)
T cd01883           2 LVVIGHVDAGKSTTTGHLLYLL   23 (219)
T ss_pred             EEEecCCCCChHHHHHHHHHHh
Confidence            6788999999999999997543

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>PRK08506 replicative DNA helicase; Provisional

Probab=97.53  E-value=0.017  Score=62.18  Aligned_cols=117  Identities=17%  Similarity=0.236  Sum_probs=69.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHH--HHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQI--AKQGL  258 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~--l~~~l  258 (481)
                      +..+++++|.+|+|||+++.++|...+++|++|+++..+.-.......  ..+...+++...... .+...+.  +.+++
T Consensus       191 ~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~fSlEMs~~ql~~R--lla~~s~v~~~~i~~~~l~~~e~~~~~~a~  268 (472)
T PRK08506        191 KGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFFSLEMPAEQLMLR--MLSAKTSIPLQNLRTGDLDDDEWERLSDAC  268 (472)
T ss_pred             CCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEEeCcCCHHHHHHH--HHHHhcCCCHHHHhcCCCCHHHHHHHHHHH
Confidence            456899999999999999999999888889999999998654333222  233445665433221 2333332  34455


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      ..+.  +..+.|.|+++..  -..+.+.+.++.... +..-++|||.
T Consensus       269 ~~l~--~~~l~I~d~~~~t--i~~I~~~~r~l~~~~-~~~~lvvIDy  310 (472)
T PRK08506        269 DELS--KKKLFVYDSGYVN--IHQVRAQLRKLKSQH-PEIGLAVIDY  310 (472)
T ss_pred             HHHH--cCCeEEECCCCCC--HHHHHHHHHHHHHhC-CCCCEEEEcC
Confidence            5543  4457777776532  122333333333221 1223666776

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.53  E-value=9.6e-05  Score=68.50  Aligned_cols=42  Identities=33%  Similarity=0.472  Sum_probs=37.4

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++|.+|+++|++|+||||++..|+..|...+..+.+++.|..
T Consensus         5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~~d~~   46 (176)
T PRK05541          5 PNGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLDGDEL   46 (176)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEecHHH
Confidence            357899999999999999999999999988888998988754

>PRK12735 elongation factor Tu; Reviewed

Probab=97.53  E-value=0.0017  Score=68.45  Aligned_cols=127  Identities=22%  Similarity=0.267  Sum_probs=65.6

Q ss_pred             CCE-EEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHH
Q 011624          182 RPT-VILLAGLQGVGKTTVSAKLANYLKKQGK-SCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~-VI~i~G~~GvGKTTta~~LA~~L~~~G~-kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~  259 (481)
                      +|. .|++.|..++||||++..|.....+.|. +.. .    +  ...++. ......|+.+-.....            
T Consensus        10 ~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~-~----~--~~~d~~-~~E~~rGiT~~~~~~~------------   69 (396)
T PRK12735         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAK-A----Y--DQIDNA-PEEKARGITINTSHVE------------   69 (396)
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccc-h----h--hhccCC-hhHHhcCceEEEeeeE------------
Confidence            444 4778899999999999999876555442 111 0    0  001111 1111223322211000            


Q ss_pred             HHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhh-hcCCeeEEEEcCCCCC
Q 011624          260 EAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFN-IEIGITGAILTKLDGD  335 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~-~~~~i~GvIlnKvD~~  335 (481)
                       +..++..+++|||||..    .+...+...  ....+.+++|+|+..+  ....+.+.... ..++..-+++||+|..
T Consensus        70 -~~~~~~~i~~iDtPGh~----~f~~~~~~~--~~~aD~~llVvda~~g~~~qt~e~l~~~~~~gi~~iivvvNK~Dl~  141 (396)
T PRK12735         70 -YETANRHYAHVDCPGHA----DYVKNMITG--AAQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFLNKCDMV  141 (396)
T ss_pred             -EcCCCcEEEEEECCCHH----HHHHHHHhh--hccCCEEEEEEECCCCCchhHHHHHHHHHHcCCCeEEEEEEecCCc
Confidence             11245568999999963    233443222  2245888999999543  12222222221 1233333468999975

>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=97.53  E-value=9.8e-05  Score=69.07  Aligned_cols=39  Identities=38%  Similarity=0.530  Sum_probs=36.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +|+++|.+||||||++..|+..|...|.++.++..|-|-
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf~   39 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYY   39 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhcc
Confidence            578999999999999999999999999999999999764

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=97.51  E-value=0.00092  Score=59.29  Aligned_cols=72  Identities=21%  Similarity=0.273  Sum_probs=37.6

Q ss_pred             CCCcEEEEcCCCCccccHHHHH-HHH-hhhhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMD-ELK-DVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~-el~-~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      .++++.++||||.......... .+. ........+.+++|+|+...  ......... ... ...-+++||+|....
T Consensus        47 ~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~-~~~-~~vi~v~nK~D~~~~  122 (157)
T cd04164          47 GGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILEL-PAD-KPIIVVLNKSDLLPD  122 (157)
T ss_pred             CCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHh-hcC-CCEEEEEEchhcCCc
Confidence            3567899999997543211100 000 11112245788999998632  222222222 112 234589999997543

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>PRK06749 replicative DNA helicase; Provisional

Probab=97.51  E-value=0.014  Score=62.02  Aligned_cols=118  Identities=15%  Similarity=0.184  Sum_probs=71.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC---CCCHHHH--HHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT---EVKPSQI--AKQ  256 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~---~~~~~~~--l~~  256 (481)
                      ++.++++.|.+|+|||+++.++|...+++|++|++...+.-.......  ..+...+++......   .....++  +.+
T Consensus       185 ~G~LiiIaarPgmGKTafal~ia~~~a~~g~~v~~fSlEMs~~ql~~R--~ls~~~~i~~~~l~~~~~~l~~~e~~~~~~  262 (428)
T PRK06749        185 EGDFVVLGARPSMGKTAFALNVGLHAAKSGAAVGLFSLEMSSKQLLKR--MASCVGEVSGGRLKNPKHRFAMEDWEKVSK  262 (428)
T ss_pred             CCcEEEEEeCCCCCchHHHHHHHHHHHhcCCCEEEEEeeCCHHHHHHH--HHHhccCCCHHHHhcCcccCCHHHHHHHHH
Confidence            456899999999999999999999999889999999888654333222  333444555332211   1233332  345


Q ss_pred             HHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       257 ~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      ++..+  .+..+-|.|+++..-  ..+.+.+.++........-++|||-
T Consensus       263 a~~~l--~~~~i~i~d~~~~t~--~~I~~~~r~~~~~~~~~~~lvvIDy  307 (428)
T PRK06749        263 AFAEI--GELPLEIYDNAGVTV--QDIWMQTRKLKRKHGDKKILIIVDY  307 (428)
T ss_pred             HHHHH--hcCCEEEECCCCCCH--HHHHHHHHHHHHhcCCCCcEEEEeC
Confidence            55554  356677888877532  2244444444432221123667776

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.51  E-value=0.00088  Score=71.15  Aligned_cols=117  Identities=22%  Similarity=0.335  Sum_probs=61.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      .|+++|.+||||||+...|.      |.+...+...   |+.           .......               .....
T Consensus         3 ~I~ivG~~~vGKStL~n~l~------~~~~~~v~~~---~~~-----------t~d~~~~---------------~~~~~   47 (435)
T PRK00093          3 VVAIVGRPNVGKSTLFNRLT------GKRDAIVADT---PGV-----------TRDRIYG---------------EAEWL   47 (435)
T ss_pred             EEEEECCCCCCHHHHHHHHh------CCCceeeCCC---CCC-----------cccceEE---------------EEEEC
Confidence            57788999999999998885      4443322211   110           0000000               00124


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhh--hccCCceEEEEEeCcchH--HHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVK--RVLNPTEVLLVVDAMTGQ--EAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~--~~~~p~~vvLVvda~~~~--~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      +.++.|+||||....+.....++....  .....+.+++|+|+..+.  .....+..+...-...-+++||+|...
T Consensus        48 ~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~~~piilv~NK~D~~~  123 (435)
T PRK00093         48 GREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRKSNKPVILVVNKVDGPD  123 (435)
T ss_pred             CcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCcEEEEEECccCcc
Confidence            577999999998642222222222111  122458899999985431  111222222211123458899999644

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=97.51  E-value=0.00056  Score=66.74  Aligned_cols=50  Identities=18%  Similarity=0.165  Sum_probs=38.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHH------------cCCeEEEEeccCCchhHHHHHHHh
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKK------------QGKSCMLVAGDVYRPAAIDQLVIL  233 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~------------~G~kVlLId~D~~rp~aidql~~~  233 (481)
                      .+.+++|++|+||||++..+|...+.            .+.+|++++++--.....+.+...
T Consensus         2 ~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i   63 (239)
T cd01125           2 YVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAI   63 (239)
T ss_pred             ceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHH
Confidence            46788999999999999999987652            467899999997554444444333

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=97.50  E-value=0.0035  Score=61.86  Aligned_cols=101  Identities=20%  Similarity=0.305  Sum_probs=62.7

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      .|.+++++ ..       ++.++++.|.+|+|||+++.++|..++.+ |.+|++++.+.-......  +..+...+++..
T Consensus         8 ~LD~~lgG-~~-------~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~~~l~~--R~la~~s~v~~~   77 (259)
T PF03796_consen    8 ALDRLLGG-LR-------PGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSEEELAA--RLLARLSGVPYN   77 (259)
T ss_dssp             HHHHHHSS-B--------TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-HHHHHH--HHHHHHHTSTHH
T ss_pred             HHHHHhcC-CC-------cCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCHHHHHH--HHHHHhhcchhh
Confidence            45666663 21       45699999999999999999999998887 699999999975443322  234445566543


Q ss_pred             cCCC-CCCHHH--HHHHHHHHHHcCCCcEEEEcCCCC
Q 011624          243 TAGT-EVKPSQ--IAKQGLEEAKKKNVDVVIVDTAGR  276 (481)
Q Consensus       243 ~~~~-~~~~~~--~l~~~l~~~~~~~~D~VIIDt~G~  276 (481)
                      .... ...+.+  .+.++...+  .+..+.|.|+++.
T Consensus        78 ~i~~g~l~~~e~~~~~~~~~~l--~~~~l~i~~~~~~  112 (259)
T PF03796_consen   78 KIRSGDLSDEEFERLQAAAEKL--SDLPLYIEDTPSL  112 (259)
T ss_dssp             HHHCCGCHHHHHHHHHHHHHHH--HTSEEEEEESSS-
T ss_pred             hhhccccCHHHHHHHHHHHHHH--hhCcEEEECCCCC
Confidence            2222 122232  223344444  3556777787764

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PRK07773 replicative DNA helicase; Validated

Probab=97.49  E-value=0.014  Score=67.59  Aligned_cols=41  Identities=17%  Similarity=0.203  Sum_probs=35.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~  222 (481)
                      +..+++++|.+|+|||+++.++|...+. .|.+|+++..+.-
T Consensus       216 ~G~livIagrPg~GKT~fal~ia~~~a~~~~~~V~~fSlEms  257 (886)
T PRK07773        216 PGQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSLEMS  257 (886)
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHHHhcCCeEEEEecCCC
Confidence            4568999999999999999999998875 4899999999854

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.49  E-value=0.00017  Score=68.72  Aligned_cols=40  Identities=35%  Similarity=0.530  Sum_probs=35.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++.+|+++|++||||||++..|+..+  .+..|.+++.|.|-
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l--~~~~~~~i~~D~~~   44 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEEL--GDESIAVIPQDSYY   44 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh--CCCceEEEeCCccc
Confidence            57899999999999999999999887  46789999999863

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=97.49  E-value=0.0036  Score=63.96  Aligned_cols=91  Identities=20%  Similarity=0.308  Sum_probs=56.9

Q ss_pred             CCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHH---------HHHHHHHHHhcCccccccccCCCCEEEEEEcCCCC
Q 011624          124 ADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVK---------IVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGV  194 (481)
Q Consensus       124 ~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~---------~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~Gv  194 (481)
                      .+++..-++++...+.+....     .......+.+         .-...|.++|+++..       ...++.+.|++|+
T Consensus        40 ~~ls~~~~~~~~~~~~~~~~~-----~~~t~~~l~~~~~~~~~~~tg~~~lD~ll~gGi~-------~g~i~~i~G~~g~  107 (316)
T TIGR02239        40 KGISEAKADKILAEAAKLVPM-----GFTTATEFHQRRQEVIQLTTGSKELDKLLGGGIE-------TGSITEIFGEFRT  107 (316)
T ss_pred             hCCCHHHHHHHHHHHHHhccc-----ccccHHHHHhcccccceeCCCCHHHHHHhcCCCC-------CCeEEEEECCCCC
Confidence            677777777777766544211     1111111111         111456776776553       4679999999999


Q ss_pred             CHHHHHHHHHHHHH---HcC---CeEEEEeccC-CchhH
Q 011624          195 GKTTVSAKLANYLK---KQG---KSCMLVAGDV-YRPAA  226 (481)
Q Consensus       195 GKTTta~~LA~~L~---~~G---~kVlLId~D~-~rp~a  226 (481)
                      ||||++..++....   ..|   .+|++||+.. |++.-
T Consensus       108 GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~R  146 (316)
T TIGR02239       108 GKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPER  146 (316)
T ss_pred             CcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHH
Confidence            99999999986322   233   4889999875 56653

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PRK05636 replicative DNA helicase; Provisional

Probab=97.48  E-value=0.02  Score=62.20  Aligned_cols=116  Identities=18%  Similarity=0.256  Sum_probs=67.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHH--HHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQI--AKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~--l~~~  257 (481)
                      +..+++++|.+|+||||++.++|...+ +.|++|+++....-.......  ..+...+++...... .++..++  +.++
T Consensus       264 ~G~Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~fSlEMs~~ql~~R--~ls~~s~v~~~~i~~g~l~~~e~~~~~~a  341 (505)
T PRK05636        264 GGQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSLEMSKSEIVMR--LLSAEAEVRLSDMRGGKMDEDAWEKLVQR  341 (505)
T ss_pred             CCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEeeCCHHHHHHH--HHHHhcCCCHHHHhcCCCCHHHHHHHHHH
Confidence            456889999999999999999998776 568999999888765443332  234445555433222 2233332  3344


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +..+  .+..+.|-|+++..-  ..+...+.++.....  .-++|||.
T Consensus       342 ~~~l--~~~~l~I~d~~~~ti--~~I~~~~r~~~~~~~--~~lvvIDY  383 (505)
T PRK05636        342 LGKI--AQAPIFIDDSANLTM--MEIRSKARRLKQKHD--LKLIVVDY  383 (505)
T ss_pred             HHHH--hcCCEEEECCCCCCH--HHHHHHHHHHHHhcC--CCEEEEcc
Confidence            4444  345566667775421  123333333333221  22667775

>KOG2743 consensus Cobalamin synthesis protein [Coenzyme transport and metabolism]

Probab=97.48  E-value=0.0012  Score=65.64  Aligned_cols=140  Identities=20%  Similarity=0.249  Sum_probs=79.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH------------HhhhhcCCCeecCCCCCCHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV------------ILGEQVGVPVYTAGTEVKPS  251 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~------------~~~~~~gv~v~~~~~~~~~~  251 (481)
                      .+-+++|-=|+||||+...++  ..+.|+||++|-...--...++.-.            +..-..|.-|...  .-+..
T Consensus        58 PvtIITGyLGaGKtTLLn~Il--~~~hgKRIAVIlNEfGes~die~sl~~~~~gg~lyEewv~L~NGClCCtV--k~~gv  133 (391)
T KOG2743|consen   58 PVTIITGYLGAGKTTLLNYIL--TGQHGKRIAVILNEFGESSDIEKSLAVSQEGGELYEEWVELRNGCLCCTV--KDNGV  133 (391)
T ss_pred             ceEEEEecccCChHHHHHHHH--ccCCCceEEEEhhhcccchhhhHHHHhccccchHHHHHHHhcCCeEEEEe--cchHH
Confidence            478889999999999997774  3466999998876543222222110            1111223333322  22333


Q ss_pred             HHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHH----HhhhhccCCceEEEEEeCcchH-------------HHHHH
Q 011624          252 QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDEL----KDVKRVLNPTEVLLVVDAMTGQ-------------EAAAL  314 (481)
Q Consensus       252 ~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el----~~i~~~~~p~~vvLVvda~~~~-------------~~~~~  314 (481)
                      ..+.+.++  +.+.+|+|+|+|.|..+.  +-++++    ..+..-+.-|.++-|+||.-..             ++..+
T Consensus       134 raie~lvq--kkGkfD~IllETTGlAnP--aPia~~Fw~dd~l~sdVkLDGIVTvvD~K~~~~~Lde~k~~g~i~EA~~Q  209 (391)
T KOG2743|consen  134 RAIENLVQ--KKGKFDHILLETTGLANP--APIASMFWLDDELGSDVKLDGIVTVVDAKHILKHLDEEKPDGLINEATRQ  209 (391)
T ss_pred             HHHHHHHh--cCCCcceEEEeccCCCCc--HHHHHHHhhhhhhcCceeeeeEEEEEehhhHHhhhcccCcccchHHHHHH
Confidence            44444444  357899999999987643  222221    1222333447889999984321             11222


Q ss_pred             HHHhhhcCCeeEEEEcCCCCCCc
Q 011624          315 VTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       315 ~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      +.      --..+|+||.|.-.+
T Consensus       210 iA------~AD~II~NKtDli~~  226 (391)
T KOG2743|consen  210 IA------LADRIIMNKTDLVSE  226 (391)
T ss_pred             Hh------hhheeeeccccccCH
Confidence            21      124689999997554

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=97.48  E-value=0.00018  Score=64.68  Aligned_cols=37  Identities=35%  Similarity=0.457  Sum_probs=32.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEE-EEeccC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCM-LVAGDV  221 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVl-LId~D~  221 (481)
                      +++++|+.|+||||++..|..+|.++|++|. +.+.|.
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHTDH   39 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-ST
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEccC
Confidence            7889999999999999999999999999999 888887

>cd01890 LepA LepA subfamily

Probab=97.47  E-value=0.002  Score=59.14  Aligned_cols=81  Identities=20%  Similarity=0.213  Sum_probs=42.6

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHh-hhcCCeeEEEEcCCCCCCc-hh
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTF-NIEIGITGAILTKLDGDSR-GG  339 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f-~~~~~i~GvIlnKvD~~~~-~g  339 (481)
                      .++.+.|+||||....    .........  ..+.+++|+|+..+.  ......... ....+ .-+|+||+|.... ..
T Consensus        65 ~~~~~~l~Dt~G~~~~----~~~~~~~~~--~ad~~i~v~D~~~~~~~~~~~~~~~~~~~~~~-iiiv~NK~Dl~~~~~~  137 (179)
T cd01890          65 QEYLLNLIDTPGHVDF----SYEVSRSLA--ACEGALLLVDATQGVEAQTLANFYLALENNLE-IIPVINKIDLPSADPE  137 (179)
T ss_pred             CcEEEEEEECCCChhh----HHHHHHHHH--hcCeEEEEEECCCCccHhhHHHHHHHHHcCCC-EEEEEECCCCCcCCHH
Confidence            4567889999997432    122222222  347889999985431  122222221 22333 4589999996432 22


Q ss_pred             H-HHHHHHHhCCC
Q 011624          340 A-ALSVKEVSGKP  351 (481)
Q Consensus       340 ~-~~~~~~~~glP  351 (481)
                      . ...+....+.+
T Consensus       138 ~~~~~~~~~~~~~  150 (179)
T cd01890         138 RVKQQIEDVLGLD  150 (179)
T ss_pred             HHHHHHHHHhCCC
Confidence            2 23444445554

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.

>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional

Probab=97.47  E-value=0.00016  Score=75.89  Aligned_cols=37  Identities=24%  Similarity=0.293  Sum_probs=34.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      +|+.|+|.+|+||||++.+|+..|.++|++|.+|--|
T Consensus         2 kVi~IvG~sgSGKTTLiekLI~~L~~rG~rVavIKH~   38 (452)
T PRK14495          2 RVYGIIGWKDAGKTGLVERLVAAIAARGFSVSTVKHS   38 (452)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEecc
Confidence            4899999999999999999999999999999997654

>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional

Probab=97.46  E-value=0.00026  Score=73.67  Aligned_cols=41  Identities=29%  Similarity=0.361  Sum_probs=37.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++++|.++|.+|+||||++.+|...|.++|++|.+|--|..
T Consensus       204 ~~~~~~~~g~~~~GKtt~~~~l~~~l~~~g~~v~~iKh~~h  244 (366)
T PRK14489        204 APPLLGVVGYSGTGKTTLLEKLIPELIARGYRIGLIKHSHH  244 (366)
T ss_pred             CccEEEEecCCCCCHHHHHHHHHHHHHHcCCEEEEEEECCc
Confidence            46699999999999999999999999999999999987654

>COG1072 CoaA Panthothenate kinase [Coenzyme metabolism]

Probab=97.46  E-value=0.0019  Score=63.83  Aligned_cols=58  Identities=31%  Similarity=0.413  Sum_probs=45.9

Q ss_pred             HHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCe--EEEEeccCCc
Q 011624          160 IVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKS--CMLVAGDVYR  223 (481)
Q Consensus       160 ~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~k--VlLId~D~~r  223 (481)
                      .+..++...++.      ...+.|.||.++|+.|+||||++..|+..+++.+.+  |.+|..|-|-
T Consensus        65 ~~~~~~~~~l~~------~~~~~pfIIgiaGsvavGKST~ar~L~~ll~~~~~~~~v~lvpmDGFh  124 (283)
T COG1072          65 RLFAELLRFLGT------NNQQRPFIIGIAGSVAVGKSTTARILQALLSRWPESPKVDLVTMDGFH  124 (283)
T ss_pred             HHHHHHHHHhcc------CCCCCCEEEEeccCccccHHHHHHHHHHHHhhCCCCCceEEEeccccc
Confidence            344455555552      134578999999999999999999999999988754  9999999885

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.46  E-value=0.0026  Score=60.41  Aligned_cols=36  Identities=33%  Similarity=0.503  Sum_probs=34.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .|+++|.+||||||.+..||..|.+++++|..+..|
T Consensus         3 LiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l~kd   38 (261)
T COG4088           3 LIILTGYPGSGKTTFAKELAKELRQEIWRVIHLEKD   38 (261)
T ss_pred             eEEEecCCCCCchHHHHHHHHHHHHhhhhccccchh
Confidence            688999999999999999999999999999998886

>PF13245 AAA_19: Part of AAA domain

Probab=97.46  E-value=0.00021  Score=57.37  Aligned_cols=45  Identities=33%  Similarity=0.416  Sum_probs=34.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHc----CCeEEEEeccCCchhHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQ----GKSCMLVAGDVYRPAAIDQL  230 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~----G~kVlLId~D~~rp~aidql  230 (481)
                      ..+.++.|++|+||||++.+++.++...    |.+|+++.   |...+.+.+
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a---~t~~aa~~l   58 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLA---PTRAAADEL   58 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEEC---CCHHHHHHH
Confidence            4578889999999999999999888765    88899884   444444444

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=97.45  E-value=0.00065  Score=61.51  Aligned_cols=66  Identities=11%  Similarity=0.068  Sum_probs=36.4

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhh-----hcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFN-----IEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~-----~~~~i~GvIlnKvD~~  335 (481)
                      .+..+.++||||.....    .......  ..++.+++|+|+......   ......+.     ... ..-+|+||+|..
T Consensus        48 ~~~~~~l~Dt~G~~~~~----~~~~~~~--~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~-p~ilv~NK~D~~  120 (167)
T cd04160          48 GNARLKFWDLGGQESLR----SLWDKYY--AECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGV-PLLILANKQDLP  120 (167)
T ss_pred             CCEEEEEEECCCChhhH----HHHHHHh--CCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCC-CEEEEEEccccc
Confidence            35779999999864311    1111111  235788999998654322   12222211     123 355899999964


Q ss_pred             C
Q 011624          336 S  336 (481)
Q Consensus       336 ~  336 (481)
                      .
T Consensus       121 ~  121 (167)
T cd04160         121 D  121 (167)
T ss_pred             c
Confidence            3

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=97.45  E-value=0.00064  Score=75.10  Aligned_cols=120  Identities=23%  Similarity=0.294  Sum_probs=66.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHH---HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLK---KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~---~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      +-|+++|+.++||||++.+|.....   +++ .|.    |  +  ..|.. ......|+.+.....             .
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~-~v~----~--~--~~D~~-~~ErerGiTI~~~~~-------------~   58 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANE-AVA----E--R--VMDSN-DLERERGITILAKNT-------------A   58 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccc-cce----e--e--cccCc-hHHHhCCccEEeeeE-------------E
Confidence            3588999999999999999965321   111 111    0  0  01111 111223444332111             1


Q ss_pred             HHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HH--HHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          261 AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QE--AAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       261 ~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~--~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      +.++++.+.||||||...    +..++......  .+.++||+|+..+   +.  ....+..  ..+++ -|++||+|..
T Consensus        59 v~~~~~kinlIDTPGh~D----F~~ev~~~l~~--aD~alLVVDa~~G~~~qT~~~l~~a~~--~~ip~-IVviNKiD~~  129 (594)
T TIGR01394        59 IRYNGTKINIVDTPGHAD----FGGEVERVLGM--VDGVLLLVDASEGPMPQTRFVLKKALE--LGLKP-IVVINKIDRP  129 (594)
T ss_pred             EEECCEEEEEEECCCHHH----HHHHHHHHHHh--CCEEEEEEeCCCCCcHHHHHHHHHHHH--CCCCE-EEEEECCCCC
Confidence            124678899999999743    33444444443  4889999999544   21  1222222  23443 5889999964

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=97.44  E-value=0.00077  Score=65.34  Aligned_cols=64  Identities=19%  Similarity=0.332  Sum_probs=37.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHh-hhcCCeeEEEEcCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTF-NIEIGITGAILTKLDG  334 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f-~~~~~i~GvIlnKvD~  334 (481)
                      .++.+.|+||||....    ..++.....  ..+.+++|+|+..+  ......++.. ...++ .-+++||+|.
T Consensus        71 ~~~~i~iiDTPG~~~f----~~~~~~~l~--~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p-~ilviNKiD~  137 (222)
T cd01885          71 NEYLINLIDSPGHVDF----SSEVTAALR--LCDGALVVVDAVEGVCVQTETVLRQALKERVK-PVLVINKIDR  137 (222)
T ss_pred             CceEEEEECCCCcccc----HHHHHHHHH--hcCeeEEEEECCCCCCHHHHHHHHHHHHcCCC-EEEEEECCCc
Confidence            3677899999998642    223322222  24788999999654  2222223222 22343 4578999995

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=97.44  E-value=0.00012  Score=66.28  Aligned_cols=40  Identities=38%  Similarity=0.630  Sum_probs=36.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      +++++|.+|+||||++..|+..+...|.++.+++.|.+|.
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~d~~r~   40 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGDNVRH   40 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCHHHHH
Confidence            5788999999999999999999998899999999998764

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=97.44  E-value=0.00053  Score=72.97  Aligned_cols=142  Identities=20%  Similarity=0.295  Sum_probs=87.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      =+.++.+=--||||++-.|..   ..|    .|+.+..+....|.+ ...+.-|+.+-.-...+.         -+ ...
T Consensus        62 NfsIIAHVDHGKSTLaDrLLe---~tg----~i~~~~~q~q~LDkl-~vERERGITIkaQtasif---------y~-~~~  123 (650)
T KOG0462|consen   62 NFSIIAHVDHGKSTLADRLLE---LTG----TIDNNIGQEQVLDKL-QVERERGITIKAQTASIF---------YK-DGQ  123 (650)
T ss_pred             ceEEEEEecCCcchHHHHHHH---HhC----CCCCCCchhhhhhhh-hhhhhcCcEEEeeeeEEE---------EE-cCC
Confidence            344455556789999977743   223    566666777777777 445556776653221110         00 023


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCCCCC-CchhH
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKLDGD-SRGGA  340 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKvD~~-~~~g~  340 (481)
                      .|-+-+|||||..+    +..|+...+..  ++.++|||||..|   |..+....+|..++.+. .|+||+|.. +....
T Consensus       124 ~ylLNLIDTPGHvD----Fs~EVsRslaa--c~G~lLvVDA~qGvqAQT~anf~lAfe~~L~iI-pVlNKIDlp~adpe~  196 (650)
T KOG0462|consen  124 SYLLNLIDTPGHVD----FSGEVSRSLAA--CDGALLVVDASQGVQAQTVANFYLAFEAGLAII-PVLNKIDLPSADPER  196 (650)
T ss_pred             ceEEEeecCCCccc----ccceehehhhh--cCceEEEEEcCcCchHHHHHHHHHHHHcCCeEE-EeeeccCCCCCCHHH
Confidence            48899999999876    44555544443  4889999999766   45555556676555443 689999964 44444


Q ss_pred             HH-HHHHHhCCC
Q 011624          341 AL-SVKEVSGKP  351 (481)
Q Consensus       341 ~~-~~~~~~glP  351 (481)
                      +. .+.+.+++|
T Consensus       197 V~~q~~~lF~~~  208 (650)
T KOG0462|consen  197 VENQLFELFDIP  208 (650)
T ss_pred             HHHHHHHHhcCC
Confidence            43 344455554

>PRK08006 replicative DNA helicase; Provisional

Probab=97.44  E-value=0.035  Score=59.84  Aligned_cols=118  Identities=15%  Similarity=0.174  Sum_probs=67.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHH--HHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQI--AKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~--l~~~  257 (481)
                      +..++++.|.+|+|||+++.++|...+ ++|++|+++....-.....+.  ..+...+++...... .++..++  +..+
T Consensus       223 ~G~LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSlEM~~~ql~~R--lla~~~~v~~~~i~~~~l~~~e~~~~~~a  300 (471)
T PRK08006        223 PSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLEMPGEQIMMR--MLASLSRVDQTRIRTGQLDDEDWARISGT  300 (471)
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEeccCCHHHHHHH--HHHHhcCCCHHHhhcCCCCHHHHHHHHHH
Confidence            457899999999999999999998876 469999999988654333332  234445555432221 2333333  2233


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +..+. ....+.|-|+++...  ..+.+.+.++.... +..-++|||.
T Consensus       301 ~~~~~-~~~~l~I~d~~~~t~--~~i~~~~r~~~~~~-~~~~lvvIDY  344 (471)
T PRK08006        301 MGILL-EKRNMYIDDSSGLTP--TEVRSRARRIFREH-GGLSLIMIDY  344 (471)
T ss_pred             HHHHH-hcCCEEEECCCCCCH--HHHHHHHHHHHHhc-CCCCEEEEcc
Confidence            44432 344566667765431  22333333333221 1123666775

>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=97.43  E-value=0.00069  Score=58.83  Aligned_cols=43  Identities=30%  Similarity=0.443  Sum_probs=36.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~  225 (481)
                      +..+++.|++|+||||++..++..+...+.+|..+++..+...
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~   61 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEG   61 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhh
Confidence            4578899999999999999999988877889999988766543

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.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=97.43  E-value=0.00072  Score=76.50  Aligned_cols=66  Identities=15%  Similarity=0.299  Sum_probs=39.7

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHH-hhhcCCeeEEEEcCCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTT-FNIEIGITGAILTKLDGD  335 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~-f~~~~~i~GvIlnKvD~~  335 (481)
                      +.++++.||||||.....    .++...+.  ..|.+++|+|+..+  .......+. .....++. +++||+|..
T Consensus        83 ~~~~~i~liDTPG~~~f~----~~~~~al~--~aD~~llVvda~~g~~~~t~~~~~~~~~~~~p~i-vviNKiD~~  151 (720)
T TIGR00490        83 GNEYLINLIDTPGHVDFG----GDVTRAMR--AVDGAIVVVCAVEGVMPQTETVLRQALKENVKPV-LFINKVDRL  151 (720)
T ss_pred             CCceEEEEEeCCCccccH----HHHHHHHH--hcCEEEEEEecCCCCCccHHHHHHHHHHcCCCEE-EEEEChhcc
Confidence            467899999999986422    22222222  24888999998654  222222222 13334443 899999964

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>PRK06893 DNA replication initiation factor; Validated

Probab=97.42  E-value=0.00065  Score=66.05  Aligned_cols=37  Identities=11%  Similarity=0.183  Sum_probs=33.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ..+.+.|++|+|||+++..+|..+.++|.+|.++.++
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~   76 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS   76 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH
Confidence            3688999999999999999999999889999887764

>cd01889 SelB_euk SelB subfamily

Probab=97.42  E-value=0.00084  Score=62.96  Aligned_cols=65  Identities=23%  Similarity=0.233  Sum_probs=36.1

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHh-hhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTF-NIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f-~~~~~i~GvIlnKvD~~  335 (481)
                      +++.+.++||||...    +..++....  ...+.+++|+|+..+.  ......... ....+ .-+++||+|..
T Consensus        66 ~~~~~~i~DtpG~~~----~~~~~~~~~--~~~d~vi~VvD~~~~~~~~~~~~~~~~~~~~~~-~iiv~NK~Dl~  133 (192)
T cd01889          66 ENLQITLVDCPGHAS----LIRTIIGGA--QIIDLMLLVVDATKGIQTQTAECLVIGEILCKK-LIVVLNKIDLI  133 (192)
T ss_pred             cCceEEEEECCCcHH----HHHHHHHHH--hhCCEEEEEEECCCCccHHHHHHHHHHHHcCCC-EEEEEECcccC
Confidence            467899999999732    333332211  2347889999996431  111111111 11233 34889999964

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>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=97.41  E-value=0.0002  Score=61.76  Aligned_cols=32  Identities=38%  Similarity=0.588  Sum_probs=25.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +|+++|++||||||++..||..+   |..+.  +.|.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~---~~~~i--~~d~   32 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL---GFPVI--SMDD   32 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH---TCEEE--EEHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH---CCeEE--Eecc
Confidence            68899999999999999998776   66554  4443

...

>PRK12736 elongation factor Tu; Reviewed

Probab=97.41  E-value=0.0014  Score=68.85  Aligned_cols=126  Identities=22%  Similarity=0.254  Sum_probs=65.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ..-|+++|+.++||||++..|.....+.|......    +  ...|.. ......|+.+-....             .+.
T Consensus        12 ~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~----~--~~~d~~-~~E~~rg~T~~~~~~-------------~~~   71 (394)
T PRK12736         12 HVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKD----Y--DSIDAA-PEEKERGITINTAHV-------------EYE   71 (394)
T ss_pred             eeEEEEEccCCCcHHHHHHHHHhhhhhhccccccc----h--hhhcCC-HHHHhcCccEEEEee-------------Eec
Confidence            34578889999999999999986554444321100    0  001111 111122332211110             011


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCe--eEEEEcCCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGI--TGAILTKLDGD  335 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i--~GvIlnKvD~~  335 (481)
                      .++..+.+|||||..    .++..+..  .....+.+++|+|+..+  ....+.+... ...++  .-+++||+|..
T Consensus        72 ~~~~~i~~iDtPGh~----~f~~~~~~--~~~~~d~~llVvd~~~g~~~~t~~~~~~~-~~~g~~~~IvviNK~D~~  141 (394)
T PRK12736         72 TEKRHYAHVDCPGHA----DYVKNMIT--GAAQMDGAILVVAATDGPMPQTREHILLA-RQVGVPYLVVFLNKVDLV  141 (394)
T ss_pred             CCCcEEEEEECCCHH----HHHHHHHH--HHhhCCEEEEEEECCCCCchhHHHHHHHH-HHcCCCEEEEEEEecCCc
Confidence            245678999999953    23333322  22245888999999643  1112222211 12334  33679999964

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=97.41  E-value=0.0011  Score=65.73  Aligned_cols=61  Identities=23%  Similarity=0.477  Sum_probs=45.8

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH--H----cCCeEEEEeccC-CchhHHHHH
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLK--K----QGKSCMLVAGDV-YRPAAIDQL  230 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~--~----~G~kVlLId~D~-~rp~aidql  230 (481)
                      ..|.++|+++..       ...|+=++|++|+|||.++..||....  .    .+.+|++||++- |.+.-+.++
T Consensus        25 ~~lD~~L~GGi~-------~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~i   92 (256)
T PF08423_consen   25 KSLDELLGGGIP-------TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQI   92 (256)
T ss_dssp             HHHHHHTTSSEE-------TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHHH
T ss_pred             HHHHHhhCCCCC-------CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHHH
Confidence            467778887664       356888999999999999999986543  1    257899999996 676655554

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=97.41  E-value=0.00026  Score=67.62  Aligned_cols=67  Identities=21%  Similarity=0.193  Sum_probs=36.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-HHHHHHHHhhhcCC--eeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-EAAALVTTFNIEIG--ITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-~~~~~~~~f~~~~~--i~GvIlnKvD~~~  336 (481)
                      ++..+.|+||||...    +..++...  ....+.+++|+|+..+. ........+....+  ..-+++||+|...
T Consensus        75 ~~~~~~liDTpG~~~----~~~~~~~~--~~~ad~~llVvD~~~~~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~  144 (208)
T cd04166          75 PKRKFIIADTPGHEQ----YTRNMVTG--ASTADLAILLVDARKGVLEQTRRHSYILSLLGIRHVVVAVNKMDLVD  144 (208)
T ss_pred             CCceEEEEECCcHHH----HHHHHHHh--hhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCCcEEEEEEchhccc
Confidence            566799999999632    22222221  22458889999996541 11111111211222  2335799999753

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=97.40  E-value=0.0016  Score=61.92  Aligned_cols=38  Identities=26%  Similarity=0.317  Sum_probs=34.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      -.++.||.|+||||.+..+-.+...-|+++-+|..||-
T Consensus         5 a~lV~GpAgSGKSTyC~~~~~h~e~~gRs~~vVNLDPA   42 (273)
T KOG1534|consen    5 AQLVMGPAGSGKSTYCSSMYEHCETVGRSVHVVNLDPA   42 (273)
T ss_pred             eEEEEccCCCCcchHHHHHHHHHHhhCceeEEeecCHH
Confidence            35567999999999999999999999999999999974

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=97.39  E-value=0.0015  Score=65.60  Aligned_cols=90  Identities=26%  Similarity=0.358  Sum_probs=63.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHH----cC------CeEEEEeccCCchhHHHHHHHhhhhcCCC---eecCCC----
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKK----QG------KSCMLVAGDVYRPAAIDQLVILGEQVGVP---VYTAGT----  246 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~----~G------~kVlLId~D~~rp~aidql~~~~~~~gv~---v~~~~~----  246 (481)
                      .++++.|.+|+||||++.-|.-+|+.    -|      .+|++|++..+|+...+.++......|++   +.+.+.    
T Consensus        90 ~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPadvrn~dltd~~  169 (402)
T COG3598          90 YVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADVRNMDLTDVS  169 (402)
T ss_pred             eeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChHhhhheeccccc
Confidence            45666799999999999988876653    14      48999999999999988887766666653   222111    


Q ss_pred             -------CCCHHHHHHHHHHHHHcCCCcEEEEcCC
Q 011624          247 -------EVKPSQIAKQGLEEAKKKNVDVVIVDTA  274 (481)
Q Consensus       247 -------~~~~~~~l~~~l~~~~~~~~D~VIIDt~  274 (481)
                             .+.| .+.++....+....+|+||||+-
T Consensus       170 Gaa~~~d~l~p-kl~rRfek~~~Q~rp~~vViDp~  203 (402)
T COG3598         170 GAADESDVLSP-KLYRRFEKILEQKRPDFVVIDPF  203 (402)
T ss_pred             cCCCccccccH-HHHHHHHHHHHHhCCCeEEEcch
Confidence                   1222 34555555565568999999984

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.38  E-value=0.001  Score=68.28  Aligned_cols=90  Identities=26%  Similarity=0.342  Sum_probs=58.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      .-+++.|++|+|||+++.++|..+.++|++|.+++++-    ..+.+....       .  +....    ....+..+  
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~----l~~~l~~~~-------~--~~~~~----~~~~~~~l--  244 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADE----LIEILREIR-------F--NNDKE----LEEVYDLL--  244 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHH----HHHHHHHHH-------h--ccchh----HHHHHHHh--
Confidence            46889999999999999999999999999999887753    333332110       0  00001    11113443  


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhh
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKR  292 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~  292 (481)
                      .++|++|||--|..........++-.+.+
T Consensus       245 ~~~DLLIIDDlG~e~~t~~~~~~Lf~iin  273 (329)
T PRK06835        245 INCDLLIIDDLGTEKITEFSKSELFNLIN  273 (329)
T ss_pred             ccCCEEEEeccCCCCCCHHHHHHHHHHHH
Confidence            57899999999887554444444444443

>PRK07004 replicative DNA helicase; Provisional

Probab=97.37  E-value=0.022  Score=61.25  Aligned_cols=117  Identities=15%  Similarity=0.236  Sum_probs=69.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHH--HHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQI--AKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~--l~~~  257 (481)
                      +..+++++|.+|+|||+++.++|...+ +.|++|+++....-.......+  .+...+++...... .+...++  +..+
T Consensus       212 ~g~liviaarpg~GKT~~al~ia~~~a~~~~~~v~~fSlEM~~~ql~~R~--la~~~~v~~~~i~~g~l~~~e~~~~~~a  289 (460)
T PRK07004        212 GGELIIVAGRPSMGKTAFSMNIGEYVAVEYGLPVAVFSMEMPGTQLAMRM--LGSVGRLDQHRMRTGRLTDEDWPKLTHA  289 (460)
T ss_pred             CCceEEEEeCCCCCccHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHH--HHhhcCCCHHHHhcCCCCHHHHHHHHHH
Confidence            456899999999999999999998876 5699999999987654443332  23344554432211 2233332  3455


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +..+  .+..+.|-|+|+..  ...+.+.+.++..... ..-++|+|-
T Consensus       290 ~~~l--~~~~l~I~d~~~~~--~~~i~~~~r~l~~~~~-~~~lviIDY  332 (460)
T PRK07004        290 VQKM--SEAQLFIDETGGLN--PMELRSRARRLARQCG-KLGLIIIDY  332 (460)
T ss_pred             HHHH--hcCCEEEECCCCCC--HHHHHHHHHHHHHhCC-CCCEEEECh
Confidence            5555  34567777887642  2233344444433211 122566665

>CHL00071 tufA elongation factor Tu

Probab=97.36  E-value=0.0014  Score=69.27  Aligned_cols=126  Identities=22%  Similarity=0.216  Sum_probs=63.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      .-++++|..++||||++..|...+..-..+....      ....|+. ......|+.+-....             .+..
T Consensus        13 ~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~------~~~~d~~-~~e~~rg~T~~~~~~-------------~~~~   72 (409)
T CHL00071         13 VNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKK------YDEIDSA-PEEKARGITINTAHV-------------EYET   72 (409)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhCccccccccc------cccccCC-hhhhcCCEeEEccEE-------------EEcc
Confidence            4578899999999999999975543211111100      0111111 111122332211100             0112


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCe--eEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGI--TGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i--~GvIlnKvD~~~  336 (481)
                      ++..+++|||||..    .+...+....  ...+.+++|+|+..+  ....+.+... ...++  .-+++||+|...
T Consensus        73 ~~~~~~~iDtPGh~----~~~~~~~~~~--~~~D~~ilVvda~~g~~~qt~~~~~~~-~~~g~~~iIvvvNK~D~~~  142 (409)
T CHL00071         73 ENRHYAHVDCPGHA----DYVKNMITGA--AQMDGAILVVSAADGPMPQTKEHILLA-KQVGVPNIVVFLNKEDQVD  142 (409)
T ss_pred             CCeEEEEEECCChH----HHHHHHHHHH--HhCCEEEEEEECCCCCcHHHHHHHHHH-HHcCCCEEEEEEEccCCCC
Confidence            45678999999953    2344432222  245889999999543  1222222211 12333  336799999754

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=97.35  E-value=0.002  Score=58.73  Aligned_cols=83  Identities=17%  Similarity=0.102  Sum_probs=43.9

Q ss_pred             EEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH-HHHHHhhhcCCeeEEEEcCCCCCC-chhHHHHHHHH
Q 011624          270 IVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA-ALVTTFNIEIGITGAILTKLDGDS-RGGAALSVKEV  347 (481)
Q Consensus       270 IIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~-~~~~~f~~~~~i~GvIlnKvD~~~-~~g~~~~~~~~  347 (481)
                      +|||||..........++...  ...++.+++|+|+....+.. ..+..+.... ..-+++||.|... ....+...+..
T Consensus        41 ~iDtpG~~~~~~~~~~~~~~~--~~~ad~il~v~d~~~~~s~~~~~~~~~~~~~-~ii~v~nK~Dl~~~~~~~~~~~~~~  117 (158)
T PRK15467         41 DIDTPGEYFSHPRWYHALITT--LQDVDMLIYVHGANDPESRLPAGLLDIGVSK-RQIAVISKTDMPDADVAATRKLLLE  117 (158)
T ss_pred             cccCCccccCCHHHHHHHHHH--HhcCCEEEEEEeCCCcccccCHHHHhccCCC-CeEEEEEccccCcccHHHHHHHHHH
Confidence            589999743333333333222  22458889999996543221 1222222222 2458999999643 23333444555


Q ss_pred             hCC--CeEEe
Q 011624          348 SGK--PIKLV  355 (481)
Q Consensus       348 ~gl--PV~~i  355 (481)
                      .+.  |+.++
T Consensus       118 ~~~~~p~~~~  127 (158)
T PRK15467        118 TGFEEPIFEL  127 (158)
T ss_pred             cCCCCCEEEE
Confidence            554  66443

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=97.35  E-value=0.00088  Score=66.85  Aligned_cols=124  Identities=22%  Similarity=0.315  Sum_probs=73.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ---+++.|.+.+||||++..+.      |.||..+..-+..        +....+|+  +.                   
T Consensus        72 ~L~vavIG~PNvGKStLtN~mi------g~kv~~vS~K~~T--------Tr~~ilgi--~t-------------------  116 (379)
T KOG1423|consen   72 SLYVAVIGAPNVGKSTLTNQMI------GQKVSAVSRKVHT--------TRHRILGI--IT-------------------  116 (379)
T ss_pred             EEEEEEEcCCCcchhhhhhHhh------CCccccccccccc--------eeeeeeEE--Ee-------------------
Confidence            3467788999999999999987      8888865554331        11222222  21                   


Q ss_pred             cCCCcEEEEcCCCCccccHH-----HHHHHHhhhhcc-CCceEEEEEeCcch-----HHHHHHHHHhhhcCCeeEEEEcC
Q 011624          263 KKNVDVVIVDTAGRLQIDKA-----MMDELKDVKRVL-NPTEVLLVVDAMTG-----QEAAALVTTFNIEIGITGAILTK  331 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~-----~~~el~~i~~~~-~p~~vvLVvda~~~-----~~~~~~~~~f~~~~~i~GvIlnK  331 (481)
                      .+++.+|++||||.+.....     .+.-+.....++ ..|-+++|+|+...     -......+.|.. + ..-+++||
T Consensus       117 s~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~ys~-i-ps~lvmnk  194 (379)
T KOG1423|consen  117 SGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLHPRVLHMLEEYSK-I-PSILVMNK  194 (379)
T ss_pred             cCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccChHHHHHHHHHhc-C-Cceeeccc
Confidence            26788999999998855221     111111111222 24777888898522     244555666652 1 13368999


Q ss_pred             CCCCCchhHHHH
Q 011624          332 LDGDSRGGAALS  343 (481)
Q Consensus       332 vD~~~~~g~~~~  343 (481)
                      +|.-..-..++.
T Consensus       195 id~~k~k~~Ll~  206 (379)
T KOG1423|consen  195 IDKLKQKRLLLN  206 (379)
T ss_pred             hhcchhhhHHhh
Confidence            986544433333

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=97.35  E-value=0.00021  Score=67.54  Aligned_cols=39  Identities=36%  Similarity=0.552  Sum_probs=35.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCe----EEEEeccCCc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKS----CMLVAGDVYR  223 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~k----VlLId~D~~r  223 (481)
                      ||.++|++||||||++..|+..|.+.|..    +.++..|.|-
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~~~~~~~~~~~~~~d~~~   43 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKRGIPAMEMDIILSLDDFY   43 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTCTTTCCCSEEEEEGGGGB
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCccCcCccceeEEEeecccc
Confidence            68899999999999999999999988876    7888888775

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 ....

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.35  E-value=0.0049  Score=65.99  Aligned_cols=76  Identities=20%  Similarity=0.328  Sum_probs=52.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHc--CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQ--GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~--G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .-+++.|++|+|||+++..++..+.++  |.+|.+++++.|.......+..     +           ..   ....+.+
T Consensus       149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~~-----~-----------~~---~~~~~~~  209 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRN-----N-----------TM---EEFKEKY  209 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHc-----C-----------cH---HHHHHHH
Confidence            347889999999999999999998877  7899999888664333222210     0           01   1222333


Q ss_pred             HcCCCcEEEEcCCCCcccc
Q 011624          262 KKKNVDVVIVDTAGRLQID  280 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d  280 (481)
                        ..+|+++||=...+...
T Consensus       210 --~~~dlLiiDDi~~l~~~  226 (450)
T PRK00149        210 --RSVDVLLIDDIQFLAGK  226 (450)
T ss_pred             --hcCCEEEEehhhhhcCC
Confidence              46899999998766443

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=97.35  E-value=0.0074  Score=63.87  Aligned_cols=23  Identities=35%  Similarity=0.491  Sum_probs=19.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ++.-++++|.+|+||||++..|.
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~  193 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALL  193 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHH
Confidence            34567888999999999998875

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=97.33  E-value=0.00032  Score=65.56  Aligned_cols=44  Identities=36%  Similarity=0.579  Sum_probs=39.2

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      +++.+++++|.+|+||||++..|+..+...|..+.+++.|..|.
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l~~d~~r~   59 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVLDGDNVRH   59 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECChHHHh
Confidence            35789999999999999999999999988898899999997663

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=97.33  E-value=0.0011  Score=71.45  Aligned_cols=116  Identities=24%  Similarity=0.316  Sum_probs=61.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCC--eecCCCCCCHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVP--VYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~--v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ..|+++|.+||||||+...|.      |.+...+. +  .|             |+.  .....               .
T Consensus        39 ~~V~IvG~~nvGKSSL~nrl~------~~~~~~v~-~--~~-------------gvT~d~~~~~---------------~   81 (472)
T PRK03003         39 PVVAVVGRPNVGKSTLVNRIL------GRREAVVE-D--VP-------------GVTRDRVSYD---------------A   81 (472)
T ss_pred             CEEEEEcCCCCCHHHHHHHHh------CcCccccc-C--CC-------------CCCEeeEEEE---------------E
Confidence            468899999999999998886      32222111 1  11             111  00000               0


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhh--hccCCceEEEEEeCcchH--HHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVK--RVLNPTEVLLVVDAMTGQ--EAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~--~~~~p~~vvLVvda~~~~--~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ...+..+.|+||||.......+...+....  .....+.+++|+|+..+.  .....+..+...-...-+|+||+|...
T Consensus        82 ~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~~~piilV~NK~Dl~~  160 (472)
T PRK03003         82 EWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVGATATDEAVARVLRRSGKPVILAANKVDDER  160 (472)
T ss_pred             EECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEECccCCc
Confidence            124556899999997532222222221111  122358899999996441  112222222222233558899999743

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=97.33  E-value=0.00077  Score=60.68  Aligned_cols=77  Identities=23%  Similarity=0.262  Sum_probs=46.6

Q ss_pred             EEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH--HHHHHHhhhcCCeeEEEEcCCCCCCc---hhHHHH
Q 011624          269 VIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA--AALVTTFNIEIGITGAILTKLDGDSR---GGAALS  343 (481)
Q Consensus       269 VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~--~~~~~~f~~~~~i~GvIlnKvD~~~~---~g~~~~  343 (481)
                      .+|||||-.-....+...|...  ..+.+-+++|.|++.....  -..+..|+  .++.| |+||+|....   ...+..
T Consensus        39 ~~IDTPGEyiE~~~~y~aLi~t--a~dad~V~ll~dat~~~~~~pP~fa~~f~--~pvIG-VITK~Dl~~~~~~i~~a~~  113 (143)
T PF10662_consen   39 NTIDTPGEYIENPRFYHALIVT--AQDADVVLLLQDATEPRSVFPPGFASMFN--KPVIG-VITKIDLPSDDANIERAKK  113 (143)
T ss_pred             cEEECChhheeCHHHHHHHHHH--HhhCCEEEEEecCCCCCccCCchhhcccC--CCEEE-EEECccCccchhhHHHHHH
Confidence            4499999765566666665333  3356888999999655432  23345564  24555 5799997733   334445


Q ss_pred             HHHHhCC
Q 011624          344 VKEVSGK  350 (481)
Q Consensus       344 ~~~~~gl  350 (481)
                      .+...|.
T Consensus       114 ~L~~aG~  120 (143)
T PF10662_consen  114 WLKNAGV  120 (143)
T ss_pred             HHHHcCC
Confidence            5566565

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.33  E-value=0.00051  Score=66.69  Aligned_cols=43  Identities=30%  Similarity=0.476  Sum_probs=37.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE-EeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCML-VAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlL-Id~D~~r  223 (481)
                      .+|.++.++|++|+||||++..|+..+...+..+.+ +..|.|.
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~~~~g~~~v~i~~D~~~   74 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQQDGELPAIQVPMDGFH   74 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhhccCCceEEEeccccc
Confidence            468899999999999999999999999987777666 8888764

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=97.32  E-value=0.001  Score=71.09  Aligned_cols=65  Identities=15%  Similarity=0.307  Sum_probs=38.6

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---------HHHHHHHHhhhcCCe--eEEEEcC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---------EAAALVTTFNIEIGI--TGAILTK  331 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---------~~~~~~~~f~~~~~i--~GvIlnK  331 (481)
                      .+++.+.||||||...    +..++....  ..++.++||+|+..+.         ...+.+. ....+++  .-|++||
T Consensus        82 ~~~~~i~lIDtPGh~~----f~~~~~~g~--~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~-~~~~~gi~~iiv~vNK  154 (446)
T PTZ00141         82 TPKYYFTIIDAPGHRD----FIKNMITGT--SQADVAILVVASTAGEFEAGISKDGQTREHAL-LAFTLGVKQMIVCINK  154 (446)
T ss_pred             cCCeEEEEEECCChHH----HHHHHHHhh--hhcCEEEEEEEcCCCceecccCCCccHHHHHH-HHHHcCCCeEEEEEEc
Confidence            3577899999999542    444443322  2458889999996541         1112221 2223444  2368999


Q ss_pred             CCC
Q 011624          332 LDG  334 (481)
Q Consensus       332 vD~  334 (481)
                      +|.
T Consensus       155 mD~  157 (446)
T PTZ00141        155 MDD  157 (446)
T ss_pred             ccc
Confidence            994

>TIGR00485 EF-Tu translation elongation factor TU

Probab=97.32  E-value=0.0028  Score=66.69  Aligned_cols=125  Identities=22%  Similarity=0.203  Sum_probs=64.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE--EeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCML--VAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlL--Id~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ..|++.|..++||||++..|...+.+.|..-..  -..|..         ......|+.+-....             .+
T Consensus        13 ~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~---------~~E~~rG~Ti~~~~~-------------~~   70 (394)
T TIGR00485        13 VNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNA---------PEEKARGITINTAHV-------------EY   70 (394)
T ss_pred             EEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCC---------HHHHhcCcceeeEEE-------------EE
Confidence            457888999999999999997665544432110  011211         011112332211100             00


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhh-hcCCeeEEEEcCCCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFN-IEIGITGAILTKLDGDS  336 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~-~~~~i~GvIlnKvD~~~  336 (481)
                      ..++..+.||||||...    +...+.  ......+.+++|+|+..+  ....+.+.... ..++..-+++||+|...
T Consensus        71 ~~~~~~~~liDtpGh~~----f~~~~~--~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~gi~~iIvvvNK~Dl~~  142 (394)
T TIGR00485        71 ETENRHYAHVDCPGHAD----YVKNMI--TGAAQMDGAILVVSATDGPMPQTREHILLARQVGVPYIVVFLNKCDMVD  142 (394)
T ss_pred             cCCCEEEEEEECCchHH----HHHHHH--HHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEEecccCC
Confidence            12456789999999642    333332  222345888999999653  22222222221 12232234689999643

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.32  E-value=0.0043  Score=58.90  Aligned_cols=33  Identities=27%  Similarity=0.578  Sum_probs=26.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEE
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLV  217 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLI  217 (481)
                      +++++|++|+||||+...|+.++... +.++..+
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~   36 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTI   36 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEE
Confidence            78999999999999999998888754 4455533

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=97.31  E-value=0.0035  Score=58.31  Aligned_cols=33  Identities=27%  Similarity=0.326  Sum_probs=27.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      .|.+.+.+|.||||.+..+|...+.+|++|+++
T Consensus         7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~iv   39 (173)
T TIGR00708         7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVI   39 (173)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEE
Confidence            444444599999999999999999999999766

Alternate name: corrinoid adenosyltransferase.

>PRK14491 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional

Probab=97.31  E-value=0.00039  Score=76.80  Aligned_cols=39  Identities=21%  Similarity=0.290  Sum_probs=36.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      .+++.++|.+|+||||++.+|...|.++|++|.+|-.|.
T Consensus        10 ~~vi~ivG~s~sGKTTlie~li~~L~~~G~rVavIKh~~   48 (597)
T PRK14491         10 IPLLGFCAYSGTGKTTLLEQLIPELNQRGLRLAVIKHAH   48 (597)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHHHHHHhCCceEEEEEcCC
Confidence            569999999999999999999999999999999999854

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 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=97.31  E-value=0.003  Score=59.21  Aligned_cols=86  Identities=29%  Similarity=0.453  Sum_probs=45.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ...++++|+.|+|||++-..|..     |..+.     +           +.-.  .+.....  ..            .
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~-----~~~~~-----T-----------~tS~--e~n~~~~--~~------------~   45 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVN-----GKTVP-----T-----------VTSM--ENNIAYN--VN------------N   45 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHH-----SS--------B--------------S--SEEEECC--GS------------S
T ss_pred             CceEEEEcCCCCCHHHHHHHHhc-----CCcCC-----e-----------eccc--cCCceEE--ee------------c
Confidence            35788999999999999988863     22221     1           1111  1111000  00            0


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG  308 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~  308 (481)
                      ..+..+-|||.||..-.-..+..++....   ..-.+++|+|+.+.
T Consensus        46 ~~~~~~~lvD~PGH~rlr~~~~~~~~~~~---~~k~IIfvvDSs~~   88 (181)
T PF09439_consen   46 SKGKKLRLVDIPGHPRLRSKLLDELKYLS---NAKGIIFVVDSSTD   88 (181)
T ss_dssp             TCGTCECEEEETT-HCCCHHHHHHHHHHG---GEEEEEEEEETTTH
T ss_pred             CCCCEEEEEECCCcHHHHHHHHHhhhchh---hCCEEEEEEeCccc
Confidence            13446899999998654444555432222   23678999999654

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 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]

Probab=97.30  E-value=0.00033  Score=64.40  Aligned_cols=39  Identities=28%  Similarity=0.342  Sum_probs=35.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +.|+.++|..||||||++.+|...|..+|++|.+|--..
T Consensus         2 ~~Il~ivG~k~SGKTTLie~lv~~L~~~G~rVa~iKH~h   40 (161)
T COG1763           2 MKILGIVGYKNSGKTTLIEKLVRKLKARGYRVATVKHAH   40 (161)
T ss_pred             CcEEEEEecCCCChhhHHHHHHHHHHhCCcEEEEEEecC
Confidence            469999999999999999999999999999999886654

>PLN00043 elongation factor 1-alpha; Provisional

Probab=97.29  E-value=0.0011  Score=70.75  Aligned_cols=66  Identities=14%  Similarity=0.290  Sum_probs=38.4

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---------HHHHHHHHhhhcCCe--eEEEEcC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---------EAAALVTTFNIEIGI--TGAILTK  331 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---------~~~~~~~~f~~~~~i--~GvIlnK  331 (481)
                      .+++.+.||||||...    +...+..-  ...++.++||+|+..+.         ...+.+. +....++  .-|++||
T Consensus        82 ~~~~~i~liDtPGh~d----f~~~~~~g--~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~-~~~~~gi~~iIV~vNK  154 (447)
T PLN00043         82 TTKYYCTVIDAPGHRD----FIKNMITG--TSQADCAVLIIDSTTGGFEAGISKDGQTREHAL-LAFTLGVKQMICCCNK  154 (447)
T ss_pred             CCCEEEEEEECCCHHH----HHHHHHhh--hhhccEEEEEEEcccCceecccCCCchHHHHHH-HHHHcCCCcEEEEEEc
Confidence            3567899999999643    44444222  23458899999996541         1111111 1223344  3456899


Q ss_pred             CCCC
Q 011624          332 LDGD  335 (481)
Q Consensus       332 vD~~  335 (481)
                      +|..
T Consensus       155 mD~~  158 (447)
T PLN00043        155 MDAT  158 (447)
T ss_pred             ccCC
Confidence            9964

>PRK08181 transposase; Validated

Probab=97.29  E-value=0.0011  Score=66.13  Aligned_cols=77  Identities=19%  Similarity=0.353  Sum_probs=53.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      .-+++.|++|+|||.++..++..+.++|++|.++.+.    ..++.+... ..          ....    .+.+..+  
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~----~L~~~l~~a-~~----------~~~~----~~~l~~l--  165 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTT----DLVQKLQVA-RR----------ELQL----ESAIAKL--  165 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHH----HHHHHHHHH-Hh----------CCcH----HHHHHHH--
Confidence            3588999999999999999999999999999977653    344444211 00          0011    1234444  


Q ss_pred             CCCcEEEEcCCCCccccH
Q 011624          264 KNVDVVIVDTAGRLQIDK  281 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~  281 (481)
                      ..+|++|||=.|....+.
T Consensus       166 ~~~dLLIIDDlg~~~~~~  183 (269)
T PRK08181        166 DKFDLLILDDLAYVTKDQ  183 (269)
T ss_pred             hcCCEEEEeccccccCCH
Confidence            578999999988765543

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.29  E-value=0.0053  Score=64.71  Aligned_cols=75  Identities=19%  Similarity=0.291  Sum_probs=50.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHc--CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQ--GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~--G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ..+++.|++|+|||+++..++..+.++  |.+|.+++++.|.......+.     .+          . .   ....+.+
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~-----~~----------~-~---~~~~~~~  197 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALR-----NN----------K-M---EEFKEKY  197 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHH-----cC----------C-H---HHHHHHH
Confidence            457889999999999999999998876  789999988755332222210     00          0 1   1222333


Q ss_pred             HcCCCcEEEEcCCCCccc
Q 011624          262 KKKNVDVVIVDTAGRLQI  279 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~  279 (481)
                        ..+|+++||=...+..
T Consensus       198 --~~~dlLiiDDi~~l~~  213 (405)
T TIGR00362       198 --RSVDLLLIDDIQFLAG  213 (405)
T ss_pred             --HhCCEEEEehhhhhcC
Confidence              4589999999876644

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).

>cd00154 Rab Rab family

Probab=97.29  E-value=0.0018  Score=57.18  Aligned_cols=86  Identities=19%  Similarity=0.103  Sum_probs=45.1

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH---HHHHHHHhhhc---CCeeEEEEcCCCCC-C
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE---AAALVTTFNIE---IGITGAILTKLDGD-S  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~---~~~~~~~f~~~---~~i~GvIlnKvD~~-~  336 (481)
                      ..+++.++|+||....    .........  ..+.+++|+|+.....   +......+...   -...-+|+||+|.. .
T Consensus        47 ~~~~~~l~D~~g~~~~----~~~~~~~~~--~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  120 (159)
T cd00154          47 KTVKLQIWDTAGQERF----RSITPSYYR--GAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQ  120 (159)
T ss_pred             EEEEEEEEecCChHHH----HHHHHHHhc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEccccccc
Confidence            3467899999997421    111111222  3478899999855322   22222222211   13456899999974 2


Q ss_pred             c---hhHHHHHHHHhCCCeEEe
Q 011624          337 R---GGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       337 ~---~g~~~~~~~~~glPV~~i  355 (481)
                      .   ...+.......+.++..+
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~  142 (159)
T cd00154         121 RQVSTEEAQQFAKENGLLFFET  142 (159)
T ss_pred             ccccHHHHHHHHHHcCCeEEEE
Confidence            2   223344444456666433

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=97.28  E-value=0.0033  Score=67.71  Aligned_cols=120  Identities=18%  Similarity=0.166  Sum_probs=61.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .+..|+++|.+||||||++..|.      |.....+..   .|+.           ....+..               .+
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~------~~~~~~~s~---~~gt-----------T~d~~~~---------------~~  254 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLA------GEERSVVDD---VAGT-----------TVDPVDS---------------LI  254 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHh------CCCcccccC---CCCc-----------cCCcceE---------------EE
Confidence            35678889999999999998885      222111110   0110           0000000               00


Q ss_pred             HcCCCcEEEEcCCCCccc-----cHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQI-----DKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~-----d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      ...+..+.|+||||....     .......+.........+.+++|+|++.+  ..-...+......-...-+|+||+|.
T Consensus       255 ~~~~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~~~~~~~~~~~piIiV~NK~Dl  334 (472)
T PRK03003        255 ELGGKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDASEPISEQDQRVLSMVIEAGRALVLAFNKWDL  334 (472)
T ss_pred             EECCEEEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccc
Confidence            113456789999995211     11222222222222345888999998544  22223333222222235588999997


Q ss_pred             CC
Q 011624          335 DS  336 (481)
Q Consensus       335 ~~  336 (481)
                      ..
T Consensus       335 ~~  336 (472)
T PRK03003        335 VD  336 (472)
T ss_pred             CC
Confidence            43

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=97.28  E-value=0.0016  Score=60.73  Aligned_cols=66  Identities=15%  Similarity=0.162  Sum_probs=36.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHh-hh---cCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTF-NI---EIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f-~~---~~~i~GvIlnKvD~~  335 (481)
                      +++.+.++|+||.... ......   .  ....+.+++|+|+.......   .....+ ..   .-.+.-+|+||.|..
T Consensus        59 ~~~~~~~~D~~G~~~~-~~~~~~---~--~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~  131 (184)
T smart00178       59 GNIKFTTFDLGGHQQA-RRLWKD---Y--FPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAP  131 (184)
T ss_pred             CCEEEEEEECCCCHHH-HHHHHH---H--hCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCcccc
Confidence            4567899999997421 111111   1  12358889999996543221   112111 10   112356889999964

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>smart00175 RAB Rab subfamily of small GTPases

Probab=97.28  E-value=0.0017  Score=58.25  Aligned_cols=82  Identities=20%  Similarity=0.172  Sum_probs=44.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---HHHH---hhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---LVTT---FNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~~~~---f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.++|+||.... .   .......  ...+.+++|+|.....+...   ....   +...-.+.-+|.||+|.... 
T Consensus        48 ~~~~~l~D~~G~~~~-~---~~~~~~~--~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~  121 (164)
T smart00175       48 RVKLQIWDTAGQERF-R---SITSSYY--RGAVGALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQR  121 (164)
T ss_pred             EEEEEEEECCChHHH-H---HHHHHHh--CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhccccc
Confidence            356889999996321 1   1111122  23578899999865433221   1122   22112245588999996541 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+.......+.++
T Consensus       122 ~~~~~~~~~~~~~~~~~~  139 (164)
T smart00175      122 QVSREEAEAFAEEHGLPF  139 (164)
T ss_pred             CCCHHHHHHHHHHcCCeE
Confidence               233455566667775

Rab GTPases are implicated in vesicle trafficking.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=97.27  E-value=0.017  Score=61.72  Aligned_cols=88  Identities=16%  Similarity=0.146  Sum_probs=44.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHH--HHh-hhhccCCceEEEEEeCcchHHHHH-HHHHhh-hcCCeeEEEEcCCCCCCch
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDE--LKD-VKRVLNPTEVLLVVDAMTGQEAAA-LVTTFN-IEIGITGAILTKLDGDSRG  338 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~e--l~~-i~~~~~p~~vvLVvda~~~~~~~~-~~~~f~-~~~~i~GvIlnKvD~~~~~  338 (481)
                      .++.+.|+||||.-... .....  +.. ....-..+.+++|+|++...+... .+.... ...+ .-+|+||+|.... 
T Consensus       249 ~g~~v~l~DTaG~~~~~-~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~~l~~~~~~~~p-iIlV~NK~Dl~~~-  325 (442)
T TIGR00450       249 NGILIKLLDTAGIREHA-DFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDFLIIDLNKSKKP-FILVLNKIDLKIN-  325 (442)
T ss_pred             CCEEEEEeeCCCcccch-hHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHHHHHHHhhCCCC-EEEEEECccCCCc-
Confidence            45668899999974322 11111  111 112224588899999854322111 222222 1233 3489999997543 


Q ss_pred             hHHHHHHHHhCCCeEEe
Q 011624          339 GAALSVKEVSGKPIKLV  355 (481)
Q Consensus       339 g~~~~~~~~~glPV~~i  355 (481)
                       .........+.|+..+
T Consensus       326 -~~~~~~~~~~~~~~~v  341 (442)
T TIGR00450       326 -SLEFFVSSKVLNSSNL  341 (442)
T ss_pred             -chhhhhhhcCCceEEE
Confidence             2223344556675433

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>PRK06904 replicative DNA helicase; Validated

Probab=97.27  E-value=0.095  Score=56.54  Aligned_cols=118  Identities=17%  Similarity=0.186  Sum_probs=68.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC--CCCHHHH--HHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT--EVKPSQI--AKQ  256 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~--~~~~~~~--l~~  256 (481)
                      +..+++++|.+|+|||+++.++|...+. .|++|+++..+.-.......  ..+...+++......  .++..++  +..
T Consensus       220 ~G~LiiIaarPg~GKTafalnia~~~a~~~g~~Vl~fSlEMs~~ql~~R--lla~~s~v~~~~i~~g~~l~~~e~~~~~~  297 (472)
T PRK06904        220 PSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEMPAEQIMMR--MLASLSRVDQTKIRTGQNLDQQDWAKISS  297 (472)
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCHHHHHHH--HHHhhCCCCHHHhccCCCCCHHHHHHHHH
Confidence            4568999999999999999999987764 69999999998654333332  234445555433221  2343333  233


Q ss_pred             HHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       257 ~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      ++..+. ....+-|-|+++...  ..+.+.+.++.... ...-++|||-
T Consensus       298 a~~~l~-~~~~l~I~d~~~~t~--~~i~~~~r~~~~~~-~~~~lvvIDY  342 (472)
T PRK06904        298 TVGMFK-QKPNLYIDDSSGLTP--TELRSRARRVYREN-GGLSLIMVDY  342 (472)
T ss_pred             HHHHHh-cCCCEEEECCCCCCH--HHHHHHHHHHHHhC-CCCCEEEEec
Confidence            444442 234577778877532  22333333333211 1122667775

>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=97.26  E-value=0.00027  Score=62.69  Aligned_cols=33  Identities=36%  Similarity=0.677  Sum_probs=26.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +|+++|++|+||||++..|+..+   |  ..+|+.|.+
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~---~--~~~i~~D~~   33 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL---G--AVVISQDEI   33 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS---T--EEEEEHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC---C--CEEEeHHHH
Confidence            58899999999999998887544   3  566788764

...

>PF13479 AAA_24: AAA domain

Probab=97.26  E-value=0.00048  Score=66.20  Aligned_cols=77  Identities=25%  Similarity=0.357  Sum_probs=48.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ++..+++.|++|+||||++..+        -+++++|+|.---.    +..+.   +.+.+...   ...+ +.+.+..+
T Consensus         2 ~~~~~lIyG~~G~GKTt~a~~~--------~k~l~id~E~g~~~----~~~~~---~~~~i~i~---s~~~-~~~~~~~l   62 (213)
T PF13479_consen    2 KPIKILIYGPPGSGKTTLAASL--------PKPLFIDTENGSDS----LKFLD---DGDVIPIT---SWED-FLEALDEL   62 (213)
T ss_pred             CceEEEEECCCCCCHHHHHHhC--------CCeEEEEeCCCccc----hhhhc---CCCeeCcC---CHHH-HHHHHHHH
Confidence            4567889999999999998777        68999999964111    11111   33343332   2222 33444333


Q ss_pred             --HcCCCcEEEEcCCCCc
Q 011624          262 --KKKNVDVVIVDTAGRL  277 (481)
Q Consensus       262 --~~~~~D~VIIDt~G~~  277 (481)
                        ...+||.||||+...+
T Consensus        63 ~~~~~~y~tiVIDsis~~   80 (213)
T PF13479_consen   63 EEDEADYDTIVIDSISWL   80 (213)
T ss_pred             HhccCCCCEEEEECHHHH
Confidence              2368999999997654

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=97.26  E-value=0.0021  Score=64.76  Aligned_cols=43  Identities=28%  Similarity=0.393  Sum_probs=36.5

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHc--CCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQ--GKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~--G~kVlLId~D~~r  223 (481)
                      +.|.||.++|++||||||++..|...+.+.  +.+|.++..|.|-
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~f~  104 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLSRWPEHRKVELITTDGFL  104 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCceEEEeccccc
Confidence            468999999999999999998888777643  4589999999875

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.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.26  E-value=0.0007  Score=63.34  Aligned_cols=76  Identities=26%  Similarity=0.414  Sum_probs=49.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      +.-+++.|++|+|||.++..++..+.++|++|.+++.+    ..++.++..        ...+   .    ..+.+..+ 
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~----~L~~~l~~~--------~~~~---~----~~~~~~~l-  106 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITAS----DLLDELKQS--------RSDG---S----YEELLKRL-  106 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHH----HHHHHHHCC--------HCCT---T----HCHHHHHH-
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecC----ceecccccc--------cccc---c----hhhhcCcc-
Confidence            34688899999999999999999999999999988764    344444211        1000   1    11334554 


Q ss_pred             cCCCcEEEEcCCCCccc
Q 011624          263 KKNVDVVIVDTAGRLQI  279 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~  279 (481)
                       .++|++|||=-|....
T Consensus       107 -~~~dlLilDDlG~~~~  122 (178)
T PF01695_consen  107 -KRVDLLILDDLGYEPL  122 (178)
T ss_dssp             -HTSSCEEEETCTSS--
T ss_pred             -ccccEecccccceeee
Confidence             4789999999987654

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.

>PRK06321 replicative DNA helicase; Provisional

Probab=97.26  E-value=0.046  Score=58.88  Aligned_cols=116  Identities=13%  Similarity=0.198  Sum_probs=67.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHH--HHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQI--AKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~--l~~~  257 (481)
                      +..+++++|.+|+|||+++.++|...+ +.|++|++++.+.-.....+.+  .+...+++.-.... .....++  +..+
T Consensus       225 ~G~LiiiaarPgmGKTafal~ia~~~a~~~g~~v~~fSLEMs~~ql~~Rl--la~~s~v~~~~i~~~~l~~~e~~~~~~a  302 (472)
T PRK06321        225 PSNLMILAARPAMGKTALALNIAENFCFQNRLPVGIFSLEMTVDQLIHRI--ICSRSEVESKKISVGDLSGRDFQRIVSV  302 (472)
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEeccCCHHHHHHHH--HHhhcCCCHHHhhcCCCCHHHHHHHHHH
Confidence            356899999999999999999998877 5699999999887544443332  33344555432211 2233332  2344


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +..+  .+..+.|-|+|+..  -..+.+.+..+.....  .-++|||.
T Consensus       303 ~~~l--~~~~~~idd~~~~t--i~~i~~~~r~~~~~~~--~~lvvIDy  344 (472)
T PRK06321        303 VNEM--QEHTLLIDDQPGLK--ITDLRARARRMKESYD--IQFLIIDY  344 (472)
T ss_pred             HHHH--HcCCEEEeCCCCCC--HHHHHHHHHHHHHhcC--CCEEEEcc
Confidence            4444  23456666676542  1223344444333221  12677776

>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=97.25  E-value=0.00035  Score=67.58  Aligned_cols=39  Identities=28%  Similarity=0.398  Sum_probs=34.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEEeccCCc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK--QGKSCMLVAGDVYR  223 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~--~G~kVlLId~D~~r  223 (481)
                      |+.++|++||||||++..|+..|..  .+.+|.+|..|-|-
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f~   41 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGFL   41 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCccc
Confidence            5788999999999999999998875  56789999999874

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=97.25  E-value=0.0026  Score=57.03  Aligned_cols=83  Identities=23%  Similarity=0.227  Sum_probs=43.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH---HHHHHHHhh-----hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE---AAALVTTFN-----IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~---~~~~~~~f~-----~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||..... ....   ....  ..+.+++|+|.....+   .......+.     ...+ .-+++||+|...
T Consensus        47 ~~~~~i~D~~g~~~~~-~~~~---~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-iiiv~NK~D~~~  119 (164)
T cd04139          47 DVQLNILDTAGQEDYA-AIRD---NYHR--SGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVP-LLLVGNKCDLED  119 (164)
T ss_pred             EEEEEEEECCChhhhh-HHHH---HHhh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEEcccccc
Confidence            4678999999974321 1111   1122  2366788888754432   222222221     1223 458899999643


Q ss_pred             -c---hhHHHHHHHHhCCCeEE
Q 011624          337 -R---GGAALSVKEVSGKPIKL  354 (481)
Q Consensus       337 -~---~g~~~~~~~~~glPV~~  354 (481)
                       .   ...........+.|+..
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~~  141 (164)
T cd04139         120 KRQVSSEEAANLARQWGVPYVE  141 (164)
T ss_pred             ccccCHHHHHHHHHHhCCeEEE
Confidence             1   22334555566777643

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.24  E-value=0.0038  Score=66.33  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=19.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .+.-++++|.+|+||||++..|.
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll  194 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALL  194 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHh
Confidence            35678889999999999998875

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.24  E-value=0.009  Score=63.83  Aligned_cols=74  Identities=24%  Similarity=0.405  Sum_probs=49.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHc--CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQ--GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~--G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      -+++.|++|+|||+++..++..+.+.  +.+|.+++++.|.....+.+..     +          . .   .+..+.+.
T Consensus       132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~~-----~----------~-~---~~f~~~~~  192 (440)
T PRK14088        132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKE-----G----------K-L---NEFREKYR  192 (440)
T ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHhc-----c----------c-H---HHHHHHHH
Confidence            38889999999999999999988765  6799999887554333222210     0          0 1   11222222


Q ss_pred             cCCCcEEEEcCCCCcc
Q 011624          263 KKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~  278 (481)
                       ..+|++|||-+..+.
T Consensus       193 -~~~dvLlIDDi~~l~  207 (440)
T PRK14088        193 -KKVDVLLIDDVQFLI  207 (440)
T ss_pred             -hcCCEEEEechhhhc
Confidence             468999999987653

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.24  E-value=0.0015  Score=61.99  Aligned_cols=114  Identities=25%  Similarity=0.286  Sum_probs=59.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      .++.++.|++|+||||+...++..+...|++|.+++.- .  .+.+.+   .+..++++............. ..-....
T Consensus        18 ~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT-~--~Aa~~L---~~~~~~~a~Ti~~~l~~~~~~-~~~~~~~   90 (196)
T PF13604_consen   18 DRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPT-N--KAAKEL---REKTGIEAQTIHSFLYRIPNG-DDEGRPE   90 (196)
T ss_dssp             CSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESS-H--HHHHHH---HHHHTS-EEEHHHHTTEECCE-ECCSSCC
T ss_pred             CeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCc-H--HHHHHH---HHhhCcchhhHHHHHhcCCcc-ccccccc
Confidence            35889999999999999999999999999999866432 2  222223   333344443221100000000 0000000


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM  306 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~  306 (481)
                      ....+++|||=++++.  ...+..+....... ...+++|-|..
T Consensus        91 ~~~~~vliVDEasmv~--~~~~~~ll~~~~~~-~~klilvGD~~  131 (196)
T PF13604_consen   91 LPKKDVLIVDEASMVD--SRQLARLLRLAKKS-GAKLILVGDPN  131 (196)
T ss_dssp             -TSTSEEEESSGGG-B--HHHHHHHHHHS-T--T-EEEEEE-TT
T ss_pred             CCcccEEEEecccccC--HHHHHHHHHHHHhc-CCEEEEECCcc
Confidence            2456899999999874  33344433332221 24678887864

>PRK12377 putative replication protein; Provisional

Probab=97.23  E-value=0.0014  Score=64.56  Aligned_cols=75  Identities=25%  Similarity=0.400  Sum_probs=52.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      .-+++.|++|+|||+++..++..+.++|++|.+++..    ...+.++..-.        .+  ..    ..+.+..+  
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~----~l~~~l~~~~~--------~~--~~----~~~~l~~l--  161 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVP----DVMSRLHESYD--------NG--QS----GEKFLQEL--  161 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHH----HHHHHHHHHHh--------cc--ch----HHHHHHHh--
Confidence            4688999999999999999999999999999987664    33444322110        00  00    11334444  


Q ss_pred             CCCcEEEEcCCCCcc
Q 011624          264 KNVDVVIVDTAGRLQ  278 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~  278 (481)
                      ..+|++|||--|...
T Consensus       162 ~~~dLLiIDDlg~~~  176 (248)
T PRK12377        162 CKVDLLVLDEIGIQR  176 (248)
T ss_pred             cCCCEEEEcCCCCCC
Confidence            689999999987754

>cd01882 BMS1 Bms1

Probab=97.23  E-value=0.0047  Score=59.88  Aligned_cols=26  Identities=38%  Similarity=0.579  Sum_probs=22.2

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANY  206 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~  206 (481)
                      .+|.+++++|++|+||||++..|...
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~   62 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKN   62 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            46789999999999999999888643

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=97.23  E-value=0.0051  Score=56.97  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=19.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +..-|+++|.+|+||||+...|.
T Consensus        17 ~~~~i~ivG~~~~GKStlin~l~   39 (179)
T TIGR03598        17 DGPEIAFAGRSNVGKSSLINALT   39 (179)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHh
Confidence            34567889999999999998775

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>cd04124 RabL2 RabL2 subfamily

Probab=97.22  E-value=0.0032  Score=57.12  Aligned_cols=83  Identities=20%  Similarity=0.210  Sum_probs=42.7

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHH---HHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALV---TTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~---~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+++-|.||+|.-.. ..+...   ..  ...+.+++|+|.....+.   ....   +...... ..-+|.||+|....
T Consensus        47 ~~~~~~i~Dt~G~~~~-~~~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~-p~ivv~nK~Dl~~~  119 (161)
T cd04124          47 KTILVDFWDTAGQERF-QTMHAS---YY--HKAHACILVFDVTRKITYKNLSKWYEELREYRPEI-PCIVVANKIDLDPS  119 (161)
T ss_pred             EEEEEEEEeCCCchhh-hhhhHH---Hh--CCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCC-cEEEEEECccCchh
Confidence            3567889999986421 111111   11  234788999998654322   1122   2222233 34589999996432


Q ss_pred             -hhHHHHHHHHhCCCeE
Q 011624          338 -GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 -~g~~~~~~~~~glPV~  353 (481)
                       ...........+.|+.
T Consensus       120 ~~~~~~~~~~~~~~~~~  136 (161)
T cd04124         120 VTQKKFNFAEKHNLPLY  136 (161)
T ss_pred             HHHHHHHHHHHcCCeEE
Confidence             1122333444556653

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

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=97.21  E-value=0.0027  Score=57.49  Aligned_cols=20  Identities=35%  Similarity=0.685  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      .|+++|.+|+||||+...|.
T Consensus         2 ~i~~~G~~~~GKssli~~l~   21 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLT   21 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHh
Confidence            57889999999999998885

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>PTZ00416 elongation factor 2; Provisional

Probab=97.21  E-value=0.0011  Score=76.14  Aligned_cols=64  Identities=19%  Similarity=0.299  Sum_probs=38.9

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhh-hcCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFN-IEIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~-~~~~i~GvIlnKvD~~  335 (481)
                      ++-+.+|||||...    +..++.....  ..|.+++|+|+..+  .......+... .+. ..-+++||+|..
T Consensus        91 ~~~i~liDtPG~~~----f~~~~~~al~--~~D~ailVvda~~g~~~~t~~~~~~~~~~~~-p~iv~iNK~D~~  157 (836)
T PTZ00416         91 PFLINLIDSPGHVD----FSSEVTAALR--VTDGALVVVDCVEGVCVQTETVLRQALQERI-RPVLFINKVDRA  157 (836)
T ss_pred             ceEEEEEcCCCHHh----HHHHHHHHHh--cCCeEEEEEECCCCcCccHHHHHHHHHHcCC-CEEEEEEChhhh
Confidence            56689999999864    4455433333  24888999998554  11122222222 122 345889999976

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=97.21  E-value=0.0026  Score=57.11  Aligned_cols=65  Identities=12%  Similarity=0.078  Sum_probs=35.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHh-hh---cCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTF-NI---EIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f-~~---~~~i~GvIlnKvD~~  335 (481)
                      .+.+.++||||...... ...   ...  ...+.+++|+|+....+..   ...... ..   .-...-+++||.|..
T Consensus        43 ~~~l~i~D~~G~~~~~~-~~~---~~~--~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  114 (160)
T cd04156          43 HLSLTVWDVGGQEKMRT-VWK---CYL--ENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLP  114 (160)
T ss_pred             ceEEEEEECCCCHhHHH-HHH---HHh--ccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccc
Confidence            46789999998642111 111   111  2347889999996543221   112111 10   112356899999974

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

>PRK09183 transposase/IS protein; Provisional

Probab=97.20  E-value=0.0033  Score=62.39  Aligned_cols=79  Identities=24%  Similarity=0.333  Sum_probs=51.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ...+++.|++|+|||+++..|+..+..+|++|.++++.    ....++... ...+          .    +...+... 
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~----~l~~~l~~a-~~~~----------~----~~~~~~~~-  161 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAA----DLLLQLSTA-QRQG----------R----YKTTLQRG-  161 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHH----HHHHHHHHH-HHCC----------c----HHHHHHHH-
Confidence            34677999999999999999998888899999977643    222232111 1100          0    11222222 


Q ss_pred             cCCCcEEEEcCCCCccccH
Q 011624          263 KKNVDVVIVDTAGRLQIDK  281 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~  281 (481)
                      ...+|++|||--|....+.
T Consensus       162 ~~~~dlLiiDdlg~~~~~~  180 (259)
T PRK09183        162 VMAPRLLIIDEIGYLPFSQ  180 (259)
T ss_pred             hcCCCEEEEcccccCCCCh
Confidence            2567999999998765443

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=97.20  E-value=0.00078  Score=64.09  Aligned_cols=65  Identities=15%  Similarity=0.156  Sum_probs=36.1

Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhh-hcCCeeEEEEcCCCCCC
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFN-IEIGITGAILTKLDGDS  336 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~-~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.|+||||..    .+..++....  ...+.+++|+|+..+   ......+.... ......-+++||+|...
T Consensus        83 ~~i~~iDtPG~~----~~~~~~~~~~--~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~  151 (203)
T cd01888          83 RHVSFVDCPGHE----ILMATMLSGA--AVMDGALLLIAANEPCPQPQTSEHLAALEIMGLKHIIIVQNKIDLVK  151 (203)
T ss_pred             cEEEEEECCChH----HHHHHHHHhh--hcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCCcEEEEEEchhccC
Confidence            568999999953    2333332222  234788999998542   12222222221 12222347999999753

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]

Probab=97.20  E-value=0.0012  Score=74.35  Aligned_cols=55  Identities=31%  Similarity=0.494  Sum_probs=42.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      ..++.|.||+|||||.+.|.+.|...|++|+|.   .|...|+|.+-.--...++++.
T Consensus       687 y~LI~GMPGTGKTTtI~~LIkiL~~~gkkVLLt---syThsAVDNILiKL~~~~i~~l  741 (1100)
T KOG1805|consen  687 YALILGMPGTGKTTTISLLIKILVALGKKVLLT---SYTHSAVDNILIKLKGFGIYIL  741 (1100)
T ss_pred             hheeecCCCCCchhhHHHHHHHHHHcCCeEEEE---ehhhHHHHHHHHHHhccCccee
Confidence            677889999999999999999999999999977   4666666665433334444444

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.19  E-value=0.0022  Score=57.51  Aligned_cols=37  Identities=38%  Similarity=0.659  Sum_probs=30.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      +++++|++|+||||++..|+..+     ...+++.|.++...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~-----~~~~i~~D~~~~~~   37 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL-----GAPFIDGDDLHPPA   37 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc-----CCEEEeCcccccHH
Confidence            47889999999999999998764     34678999998653

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK12740 elongation factor G; Reviewed

Probab=97.19  E-value=0.0016  Score=73.09  Aligned_cols=84  Identities=18%  Similarity=0.226  Sum_probs=47.6

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHhh-hcCCeeEEEEcCCCCCC-ch
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFN-IEIGITGAILTKLDGDS-RG  338 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~-~~~~i~GvIlnKvD~~~-~~  338 (481)
                      +.++++++|||||...    ...++.....  ..+.+++|+|+..+.  .......... .+.+ .-+|+||+|... ..
T Consensus        57 ~~~~~i~liDtPG~~~----~~~~~~~~l~--~aD~vllvvd~~~~~~~~~~~~~~~~~~~~~p-~iiv~NK~D~~~~~~  129 (668)
T PRK12740         57 WKGHKINLIDTPGHVD----FTGEVERALR--VLDGAVVVVCAVGGVEPQTETVWRQAEKYGVP-RIIFVNKMDRAGADF  129 (668)
T ss_pred             ECCEEEEEEECCCcHH----HHHHHHHHHH--HhCeEEEEEeCCCCcCHHHHHHHHHHHHcCCC-EEEEEECCCCCCCCH
Confidence            4688999999999753    2222222222  348889999995542  1112222221 1222 447999999643 33


Q ss_pred             h-HHHHHHHHhCCCeE
Q 011624          339 G-AALSVKEVSGKPIK  353 (481)
Q Consensus       339 g-~~~~~~~~~glPV~  353 (481)
                      . .+..+.+.++.|+.
T Consensus       130 ~~~~~~l~~~l~~~~~  145 (668)
T PRK12740        130 FRVLAQLQEKLGAPVV  145 (668)
T ss_pred             HHHHHHHHHHHCCCce
Confidence            2 33455566777653

>PRK05433 GTP-binding protein LepA; Provisional

Probab=97.19  E-value=0.0021  Score=71.15  Aligned_cols=143  Identities=17%  Similarity=0.245  Sum_probs=71.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH---HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLK---KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~---~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~  259 (481)
                      -+-++++|..|+||||++..|.....   +++..          ..+.|.+ ......|+.+........        ..
T Consensus         7 iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~----------~~~lD~~-~~ErerGiTi~~~~v~~~--------~~   67 (600)
T PRK05433          7 IRNFSIIAHIDHGKSTLADRLIELTGTLSEREMK----------AQVLDSM-DLERERGITIKAQAVRLN--------YK   67 (600)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCcccccc----------cccccCc-hHHhhcCCcccccEEEEE--------EE
Confidence            45788899999999999988875321   11111          1111111 011122333221100000        00


Q ss_pred             HHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          260 EAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ....+++.+.|+||||...    ...++.....  ..+.+++|+|+..+   ++..........+++ .-+++||+|...
T Consensus        68 ~~dg~~~~lnLiDTPGh~d----F~~~v~~sl~--~aD~aILVVDas~gv~~qt~~~~~~~~~~~lp-iIvViNKiDl~~  140 (600)
T PRK05433         68 AKDGETYILNLIDTPGHVD----FSYEVSRSLA--ACEGALLVVDASQGVEAQTLANVYLALENDLE-IIPVLNKIDLPA  140 (600)
T ss_pred             ccCCCcEEEEEEECCCcHH----HHHHHHHHHH--HCCEEEEEEECCCCCCHHHHHHHHHHHHCCCC-EEEEEECCCCCc
Confidence            0011357789999999754    3333333333  24789999999654   222111111222344 458899999643


Q ss_pred             -chhHH-HHHHHHhCCC
Q 011624          337 -RGGAA-LSVKEVSGKP  351 (481)
Q Consensus       337 -~~g~~-~~~~~~~glP  351 (481)
                       ..... ..+....+++
T Consensus       141 a~~~~v~~ei~~~lg~~  157 (600)
T PRK05433        141 ADPERVKQEIEDVIGID  157 (600)
T ss_pred             ccHHHHHHHHHHHhCCC
Confidence             22222 3444445654

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=97.18  E-value=0.003  Score=57.19  Aligned_cols=82  Identities=15%  Similarity=0.207  Sum_probs=44.2

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhh-hcCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFN-IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~-~~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+-|+||||.... .....   ...  ...+.+++|+|++...+....      +..+. ... ..-+|.||.|....
T Consensus        50 ~~~~~i~D~~G~~~~-~~~~~---~~~--~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~-~~iiv~nK~Dl~~~  122 (166)
T cd01869          50 TIKLQIWDTAGQERF-RTITS---SYY--RGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENV-NKLLVGNKCDLTDK  122 (166)
T ss_pred             EEEEEEEECCCcHhH-HHHHH---HHh--CcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCC-cEEEEEEChhcccc
Confidence            456789999995321 11111   111  235788999998655433222      12222 122 34578899996432


Q ss_pred             ----hhHHHHHHHHhCCCeE
Q 011624          338 ----GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV~  353 (481)
                          ...+...+...+.|+.
T Consensus       123 ~~~~~~~~~~~~~~~~~~~~  142 (166)
T cd01869         123 RVVDYSEAQEFADELGIPFL  142 (166)
T ss_pred             cCCCHHHHHHHHHHcCCeEE
Confidence                2334555566677764

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

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=97.18  E-value=0.00043  Score=65.39  Aligned_cols=37  Identities=32%  Similarity=0.521  Sum_probs=32.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ||.++|++||||||++..|+..+  .+.++.++..|.|-
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l--~~~~~~v~~~D~~~   37 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL--GNPKVVIISQDSYY   37 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh--CCCCeEEEEecccc
Confidence            57899999999999999998887  56789999999764

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=97.18  E-value=0.0036  Score=64.86  Aligned_cols=118  Identities=19%  Similarity=0.260  Sum_probs=61.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..++++|.+++||||+...|.      |.++. +.--+|.  ..+.      .  ...+..                  .
T Consensus       190 ~~ValvG~~NvGKSSLln~L~------~~~~~-v~~~~~t--T~d~------~--~~~i~~------------------~  234 (351)
T TIGR03156       190 PTVALVGYTNAGKSTLFNALT------GADVY-AADQLFA--TLDP------T--TRRLDL------------------P  234 (351)
T ss_pred             cEEEEECCCCCCHHHHHHHHh------CCcee-eccCCcc--ccCC------E--EEEEEe------------------C
Confidence            468888999999999998886      33322 2111110  0000      0  000000                  1


Q ss_pred             CCCcEEEEcCCCCccc-cHHHHHHHHhhhh-ccCCceEEEEEeCcchH--HHH----HHHHHhhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQI-DKAMMDELKDVKR-VLNPTEVLLVVDAMTGQ--EAA----ALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~-d~~~~~el~~i~~-~~~p~~vvLVvda~~~~--~~~----~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      .+..+.|+||||.... ............. ....+-+++|+|++...  +..    ..++.....-...-+|+||+|..
T Consensus       235 ~~~~i~l~DT~G~~~~l~~~lie~f~~tle~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~  314 (351)
T TIGR03156       235 DGGEVLLTDTVGFIRDLPHELVAAFRATLEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLL  314 (351)
T ss_pred             CCceEEEEecCcccccCCHHHHHHHHHHHHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCC
Confidence            3457899999997422 2222232222221 22458889999985432  111    22232221112345899999975


Q ss_pred             C
Q 011624          336 S  336 (481)
Q Consensus       336 ~  336 (481)
                      .
T Consensus       315 ~  315 (351)
T TIGR03156       315 D  315 (351)
T ss_pred             C
Confidence            3

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>cd04154 Arl2 Arl2 subfamily

Probab=97.18  E-value=0.0025  Score=58.42  Aligned_cols=21  Identities=48%  Similarity=0.642  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..++++|.+||||||++..|.
T Consensus        15 ~kv~ivG~~~~GKTsL~~~l~   35 (173)
T cd04154          15 MRILILGLDNAGKTTILKKLL   35 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHc
Confidence            456788999999999987775

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.

>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=97.17  E-value=0.00058  Score=53.55  Aligned_cols=33  Identities=39%  Similarity=0.633  Sum_probs=28.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      +++++|.+|+||||++..|+..|  .|.++.+++.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l--~~~~~~~i~~   33 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL--GGRSVVVLDE   33 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh--cCCCEEEEeE
Confidence            47789999999999999999988  6778887765

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.

>PLN03126 Elongation factor Tu; Provisional

Probab=97.17  E-value=0.0025  Score=68.69  Aligned_cols=124  Identities=23%  Similarity=0.220  Sum_probs=63.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEE--EEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCM--LVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVl--LId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ..++++|..++||||++..|...+..-+.+..  ....|...         .....|+.+-.....             +
T Consensus        82 ~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~---------~Er~rGiTi~~~~~~-------------~  139 (478)
T PLN03126         82 VNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAP---------EERARGITINTATVE-------------Y  139 (478)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCCh---------hHHhCCeeEEEEEEE-------------E
Confidence            45788899999999999999755432111110  00011110         011122221110000             0


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCe--eEEEEcCCCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGI--TGAILTKLDGDS  336 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i--~GvIlnKvD~~~  336 (481)
                      ..++..+.+|||||...    +..++..-.  ...|.+++|+|+..+  ....+.+.. ....++  .-+++||+|...
T Consensus       140 ~~~~~~i~liDtPGh~~----f~~~~~~g~--~~aD~ailVVda~~G~~~qt~e~~~~-~~~~gi~~iIvvvNK~Dl~~  211 (478)
T PLN03126        140 ETENRHYAHVDCPGHAD----YVKNMITGA--AQMDGAILVVSGADGPMPQTKEHILL-AKQVGVPNMVVFLNKQDQVD  211 (478)
T ss_pred             ecCCcEEEEEECCCHHH----HHHHHHHHH--hhCCEEEEEEECCCCCcHHHHHHHHH-HHHcCCCeEEEEEecccccC
Confidence            12456789999999643    333432222  245888999998644  111122221 112333  336799999753

>PRK05642 DNA replication initiation factor; Validated

Probab=97.17  E-value=0.0015  Score=63.68  Aligned_cols=80  Identities=14%  Similarity=0.164  Sum_probs=54.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..+++.|++|+|||.++..++..+.++|++|.+++++-+-        ..                .    ...++.+  
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~--------~~----------------~----~~~~~~~--   95 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELL--------DR----------------G----PELLDNL--   95 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHH--------hh----------------h----HHHHHhh--
Confidence            4678899999999999999999888889999988876321        00                0    1223333  


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRV  293 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~  293 (481)
                      .++|+++||-.+..........++-.+.+.
T Consensus        96 ~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~  125 (234)
T PRK05642         96 EQYELVCLDDLDVIAGKADWEEALFHLFNR  125 (234)
T ss_pred             hhCCEEEEechhhhcCChHHHHHHHHHHHH
Confidence            467999999887654333333445444443

>PRK11058 GTPase HflX; Provisional

Probab=97.17  E-value=0.0038  Score=66.30  Aligned_cols=117  Identities=19%  Similarity=0.251  Sum_probs=61.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      .++++|.+++||||+...|.      |.++. +.--++.  ..+..        ...+..                  ..
T Consensus       199 ~ValVG~~NaGKSSLlN~Lt------~~~~~-v~~~~~t--Tld~~--------~~~i~l------------------~~  243 (426)
T PRK11058        199 TVSLVGYTNAGKSTLFNRIT------EARVY-AADQLFA--TLDPT--------LRRIDV------------------AD  243 (426)
T ss_pred             EEEEECCCCCCHHHHHHHHh------CCcee-eccCCCC--CcCCc--------eEEEEe------------------CC
Confidence            57888999999999998885      44443 2111110  00000        000000                  12


Q ss_pred             CCcEEEEcCCCCccc-cHHHHHHHHhhh-hccCCceEEEEEeCcchH--HHH----HHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQI-DKAMMDELKDVK-RVLNPTEVLLVVDAMTGQ--EAA----ALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~-d~~~~~el~~i~-~~~~p~~vvLVvda~~~~--~~~----~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ...++|+||||.... .......+.... .....+.+++|+|++...  ...    ..+......-...-+|+||+|...
T Consensus       244 ~~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~  323 (426)
T PRK11058        244 VGETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLD  323 (426)
T ss_pred             CCeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCC
Confidence            236789999998432 223333332222 233468899999995432  221    222322211123458999999743

>TIGR00345 arsA arsenite-activated ATPase (arsA)

Probab=97.17  E-value=0.014  Score=58.69  Aligned_cols=25  Identities=36%  Similarity=0.412  Sum_probs=22.0

Q ss_pred             HHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          199 VSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       199 ta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +++++|.+++++|++|++||+|+..
T Consensus         1 ~a~a~a~~~a~~g~~vllv~~Dp~~   25 (284)
T TIGR00345         1 ISCATAIRLAEQGKKVLLVSTDPAH   25 (284)
T ss_pred             CHHHHHHHHHHCCCeEEEEECCCCC
Confidence            3678899999999999999999864

The N-terminal 50 amino acids hits Pfam families NB-ARC and fer4_NifH. residues 4-11 of the seed alignment contain a potential ATP binding site. The function of the gene product is to catalyze the extrusion of the oxyanions arsenite, antimonite and arsenate for detoxification. Some members of this family contain a duplication so the model finds hits twice.

>PRK08840 replicative DNA helicase; Provisional

Probab=97.17  E-value=0.13  Score=55.40  Aligned_cols=118  Identities=15%  Similarity=0.193  Sum_probs=66.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHH--HHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQI--AKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~--l~~~  257 (481)
                      +..++++.|.+|+|||+++.++|...+ ++|++|+++..+.-.......  ..+...+++...... .+...++  +..+
T Consensus       216 ~g~LiviaarPg~GKTafalnia~~~a~~~~~~v~~fSlEMs~~ql~~R--lla~~s~v~~~~i~~~~l~~~e~~~~~~a  293 (464)
T PRK08840        216 GSDLIIVAARPSMGKTTFAMNLCENAAMDQDKPVLIFSLEMPAEQLMMR--MLASLSRVDQTKIRTGQLDDEDWARISST  293 (464)
T ss_pred             CCceEEEEeCCCCchHHHHHHHHHHHHHhCCCeEEEEeccCCHHHHHHH--HHHhhCCCCHHHHhcCCCCHHHHHHHHHH
Confidence            457899999999999999999998876 469999999988653332222  233444554422211 2333333  2333


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +..+. ....+-|-|+++..-  ..+.+.+.++.... ...-++|||-
T Consensus       294 ~~~l~-~~~~l~I~d~~~~ti--~~i~~~~r~~~~~~-~~~~lvvIDY  337 (464)
T PRK08840        294 MGILM-EKKNMYIDDSSGLTP--TEVRSRARRIAREH-GGLSMIMVDY  337 (464)
T ss_pred             HHHHH-hcCCEEEECCCCCCH--HHHHHHHHHHHHhc-CCCCEEEEcc
Confidence            44442 234566667776531  23333433333221 1123667775

>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=97.16  E-value=0.0011  Score=57.52  Aligned_cols=68  Identities=31%  Similarity=0.419  Sum_probs=44.6

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCC
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKN  265 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~  265 (481)
                      |++.|++|+||||++..+|..+   |..+.-+++......                    ........+...+..++...
T Consensus         1 ill~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~~~--------------------~~~~~~~~i~~~~~~~~~~~   57 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELISS--------------------YAGDSEQKIRDFFKKAKKSA   57 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHHTS--------------------STTHHHHHHHHHHHHHHHTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhc---ccccccccccccccc--------------------cccccccccccccccccccc
Confidence            5789999999999999999876   567776666532100                    11223444556666664343


Q ss_pred             -CcEEEEcCCCC
Q 011624          266 -VDVVIVDTAGR  276 (481)
Q Consensus       266 -~D~VIIDt~G~  276 (481)
                       .-+++||-...
T Consensus        58 ~~~vl~iDe~d~   69 (132)
T PF00004_consen   58 KPCVLFIDEIDK   69 (132)
T ss_dssp             TSEEEEEETGGG
T ss_pred             cceeeeeccchh
Confidence             57888877543

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 ....

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=97.16  E-value=0.00091  Score=64.20  Aligned_cols=72  Identities=26%  Similarity=0.350  Sum_probs=40.7

Q ss_pred             CCCcEEEEcCCCCccc---cHHHHHHHHhhhhc--cCCceEEEEEeCc--ch--HHHHHHH-HHhhhc-CCeeEEEEcCC
Q 011624          264 KNVDVVIVDTAGRLQI---DKAMMDELKDVKRV--LNPTEVLLVVDAM--TG--QEAAALV-TTFNIE-IGITGAILTKL  332 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~--~~p~~vvLVvda~--~~--~~~~~~~-~~f~~~-~~i~GvIlnKv  332 (481)
                      .+..+.||||||..+.   +.....++.+....  ..|+.++||++..  +.  ...++.+ ..|.+. .+-.-||+|..
T Consensus        47 ~g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha~llVi~~~r~t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~  126 (212)
T PF04548_consen   47 DGRQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHAFLLVIPLGRFTEEDREVLELLQEIFGEEIWKHTIVVFTHA  126 (212)
T ss_dssp             TTEEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESEEEEEEETTB-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEG
T ss_pred             cceEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeEEEEEEecCcchHHHHHHHHHHHHHccHHHHhHhhHHhhhc
Confidence            4677999999998654   34455566554332  3467789999873  22  2233333 345433 23456788988


Q ss_pred             CCC
Q 011624          333 DGD  335 (481)
Q Consensus       333 D~~  335 (481)
                      |..
T Consensus       127 d~~  129 (212)
T PF04548_consen  127 DEL  129 (212)
T ss_dssp             GGG
T ss_pred             ccc
Confidence            753

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=97.16  E-value=0.0073  Score=63.07  Aligned_cols=154  Identities=23%  Similarity=0.304  Sum_probs=84.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH---HHcCCeEEEEecc-CCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYL---KKQGKSCMLVAGD-VYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L---~~~G~kVlLId~D-~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l  258 (481)
                      .+..++..++-+||||++-+|..+=   ...|- |-   +- ..+-+..|++ ...+.-|+.+...-.            
T Consensus        12 RRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~-Vk---~rk~~~~a~SDWM-~iEkqRGISVtsSVM------------   74 (528)
T COG4108          12 RRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGT-VK---GRKSGKHAKSDWM-EIEKQRGISVTSSVM------------   74 (528)
T ss_pred             hcceeEEecCCCCcccHHHHHHHhcchhhhcce-ee---eccCCcccccHHH-HHHHhcCceEEeeEE------------
Confidence            4678888999999999999997532   22220 00   00 1122223333 455566777653311            


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH--HHHHHHHh-hhcCCeeEEEEcCCCCC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE--AAALVTTF-NIEIGITGAILTKLDGD  335 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~--~~~~~~~f-~~~~~i~GvIlnKvD~~  335 (481)
                       .+...++-+-|+||||.-........-|    -+  .|..++|+|+.-|-+  .....+.- ...++| --.+||+|..
T Consensus        75 -qF~Y~~~~iNLLDTPGHeDFSEDTYRtL----tA--vDsAvMVIDaAKGiE~qT~KLfeVcrlR~iPI-~TFiNKlDR~  146 (528)
T COG4108          75 -QFDYADCLVNLLDTPGHEDFSEDTYRTL----TA--VDSAVMVIDAAKGIEPQTLKLFEVCRLRDIPI-FTFINKLDRE  146 (528)
T ss_pred             -EeccCCeEEeccCCCCccccchhHHHHH----Hh--hheeeEEEecccCccHHHHHHHHHHhhcCCce-EEEeeccccc
Confidence             1112466788999999865432222222    11  177899999965522  22222211 123444 3578999965


Q ss_pred             Cc--hhHHHHHHHHhCC---CeE-EeecCCCC
Q 011624          336 SR--GGAALSVKEVSGK---PIK-LVGRGERM  361 (481)
Q Consensus       336 ~~--~g~~~~~~~~~gl---PV~-~ig~g~~v  361 (481)
                      .+  ...+-++.+.+++   |+. -||.|...
T Consensus       147 ~rdP~ELLdEiE~~L~i~~~PitWPIG~gk~F  178 (528)
T COG4108         147 GRDPLELLDEIEEELGIQCAPITWPIGMGKDF  178 (528)
T ss_pred             cCChHHHHHHHHHHhCcceecccccccCCccc
Confidence            44  3444556666665   443 46666544

>COG2403 Predicted GTPase [General function prediction only]

Probab=97.15  E-value=0.0039  Score=63.74  Aligned_cols=146  Identities=26%  Similarity=0.352  Sum_probs=80.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc-CCchhHHHHHH-Hhhhhc-----------------CCCee
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD-VYRPAAIDQLV-ILGEQV-----------------GVPVY  242 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D-~~rp~aidql~-~~~~~~-----------------gv~v~  242 (481)
                      +|.+-++.-..|+|||+++..+++.|+.+|++|.+|..- +||..-+++.- .+.+..                 .++..
T Consensus       126 kPviaV~atrtg~GKsaVS~~v~r~l~ergyrv~vVrhPmiy~~~~ieitve~~~k~edld~ha~t~eereeye~~I~tg  205 (449)
T COG2403         126 KPVIAVTATRTGVGKSAVSRYVARLLRERGYRVCVVRHPMIYRGDRIEITVERLAKLEDLDRHAATDEEREEYESYIPTG  205 (449)
T ss_pred             CceEEEEEeccccchhHHHHHHHHHHHHcCCceEEEecCceecCCchhhhHHHHhCHhhccccccchhhHHHHhhccccc
Confidence            454444444499999999999999999999999987763 34433222110 111111                 11111


Q ss_pred             cCC-CCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-hHHHHHHHHHhhh
Q 011624          243 TAG-TEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-GQEAAALVTTFNI  320 (481)
Q Consensus       243 ~~~-~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~~~~~~~~~~f~~  320 (481)
                      ... ...+-...++    +.. +..|+|+.|+.+..-             --+.|+.-+.|+|+.. +++    +..|-.
T Consensus       206 ~~vlAGvdy~~vlk----e~~-~~aD~IlwdGgnndf-------------Pfvkpd~~Ivvvda~rpg~e----i~~~pG  263 (449)
T COG2403         206 GGVLAGVDYGTVLK----EGE-KEADFILWDGGNNDF-------------PFVKPDLHIVVVDALRPGEE----IGSFPG  263 (449)
T ss_pred             cceEeeeeHHHHHH----HHh-hhccEEEEeCCCCCC-------------CcccCCeeEEEecCCCCchh----hccCCC
Confidence            000 0111122233    322 445999999976531             1234678888999954 444    334433


Q ss_pred             cCCe---eEEEEcCCCCCCch--hHHHHHHHHhC
Q 011624          321 EIGI---TGAILTKLDGDSRG--GAALSVKEVSG  349 (481)
Q Consensus       321 ~~~i---~GvIlnKvD~~~~~--g~~~~~~~~~g  349 (481)
                      .+++   +-||+||+|....+  ..+....++.+
T Consensus       264 e~~irlAD~VIItkveea~~~kvrkI~~~I~~iN  297 (449)
T COG2403         264 ELRIRLADLVIITKVEEAMAEKVRKIVRNIEEIN  297 (449)
T ss_pred             ceeeeeccEEEEecccccchHHHHHHHHHHHhhC
Confidence            3332   56899999976554  23344444444

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.15  E-value=0.0022  Score=63.44  Aligned_cols=79  Identities=30%  Similarity=0.483  Sum_probs=53.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ++.=+++.|++|+|||.++++++..+.+.|.+|+++..    |+.+..++.--..        +   ....   +....+
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~----~el~~~Lk~~~~~--------~---~~~~---~l~~~l  165 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA----PDLLSKLKAAFDE--------G---RLEE---KLLREL  165 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEH----HHHHHHHHHHHhc--------C---chHH---HHHHHh
Confidence            34568899999999999999999999988999997654    3445555321111        0   0011   122223


Q ss_pred             HcCCCcEEEEcCCCCcccc
Q 011624          262 KKKNVDVVIVDTAGRLQID  280 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d  280 (481)
                        ..+|+.|||=-|....+
T Consensus       166 --~~~dlLIiDDlG~~~~~  182 (254)
T COG1484         166 --KKVDLLIIDDIGYEPFS  182 (254)
T ss_pred             --hcCCEEEEecccCccCC
Confidence              58999999998886543

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.15  E-value=0.013  Score=62.62  Aligned_cols=86  Identities=20%  Similarity=0.325  Sum_probs=55.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      -+++.|++|+|||+++..++..+.+.|.+|.+++++.|-....+.+.            .+   . .    +.+... ..
T Consensus       143 pl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~------------~~---~-~----~~f~~~-~~  201 (445)
T PRK12422        143 PIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIR------------SG---E-M----QRFRQF-YR  201 (445)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHh------------cc---h-H----HHHHHH-cc
Confidence            46788999999999999999999888999999987754322222210            00   0 1    112221 25


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhh
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVK  291 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~  291 (481)
                      .+|+++||-.+.+........++-.+.
T Consensus       202 ~~dvLiIDDiq~l~~k~~~qeelf~l~  228 (445)
T PRK12422        202 NVDALFIEDIEVFSGKGATQEEFFHTF  228 (445)
T ss_pred             cCCEEEEcchhhhcCChhhHHHHHHHH
Confidence            789999998877654333334444443

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=97.15  E-value=0.0066  Score=65.02  Aligned_cols=115  Identities=21%  Similarity=0.271  Sum_probs=59.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..++++|.+|+||||+...|.      |.++.++..-   |+.           ....+..               .+..
T Consensus       216 ~kV~ivG~~nvGKSSLln~L~------~~~~a~v~~~---~gt-----------T~d~~~~---------------~i~~  260 (449)
T PRK05291        216 LKVVIAGRPNVGKSSLLNALL------GEERAIVTDI---AGT-----------TRDVIEE---------------HINL  260 (449)
T ss_pred             CEEEEECCCCCCHHHHHHHHh------CCCCcccCCC---CCc-----------ccccEEE---------------EEEE
Confidence            467888999999999998886      3332222111   110           0000000               0012


Q ss_pred             CCCcEEEEcCCCCccccHHHHHH--HH-hhhhccCCceEEEEEeCcchH--HHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDE--LK-DVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~e--l~-~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .++.+.|+||||..... .....  +. ........+.+++|+|++...  +....... .... ..-+|+||+|...
T Consensus       261 ~g~~i~l~DT~G~~~~~-~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~-~~~~-piiiV~NK~DL~~  335 (449)
T PRK05291        261 DGIPLRLIDTAGIRETD-DEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEE-LKDK-PVIVVLNKADLTG  335 (449)
T ss_pred             CCeEEEEEeCCCCCCCc-cHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHh-cCCC-CcEEEEEhhhccc
Confidence            45678999999974321 11111  11 111222357889999985432  21222222 2222 3458999999743

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.14  E-value=0.0082  Score=55.14  Aligned_cols=88  Identities=23%  Similarity=0.234  Sum_probs=51.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE---EeccCCchhHHHHHHHhhhhcCCCeecCCCC-----CCHHH---H
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCML---VAGDVYRPAAIDQLVILGEQVGVPVYTAGTE-----VKPSQ---I  253 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlL---Id~D~~rp~aidql~~~~~~~gv~v~~~~~~-----~~~~~---~  253 (481)
                      .|.+.+.+|.||||.+..+|...+.+|++|.+   +-++.. .+-..-+..+   .++.++..+..     .++.+   .
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~-~gE~~~l~~l---~~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWK-YGELKALERL---PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCc-cCHHHHHHhC---CCcEEEECCCCCccCCCChHHHHHH
Confidence            44444555999999999999999999999998   444311 1222222222   24555443321     12222   1


Q ss_pred             HHHHH----HHHHcCCCcEEEEcCCCC
Q 011624          254 AKQGL----EEAKKKNVDVVIVDTAGR  276 (481)
Q Consensus       254 l~~~l----~~~~~~~~D~VIIDt~G~  276 (481)
                      .++.+    +.+....||++|+|=-+.
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~  106 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINY  106 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHh
Confidence            22222    233456899999998644

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>COG1160 Predicted GTPases [General function prediction only]

Probab=97.14  E-value=0.0084  Score=63.08  Aligned_cols=140  Identities=20%  Similarity=0.242  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHHhcCccccccccC-CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEEeccCCchhHHHHHHHhhh
Q 011624          158 VKIVRDELVKLMGGEVSELVFAK-SRPTVILLAGLQGVGKTTVSAKLANYLKKQGK-SCMLVAGDVYRPAAIDQLVILGE  235 (481)
Q Consensus       158 ~~~l~~~L~~~l~~~~~~~~~~~-~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~-kVlLId~D~~rp~aidql~~~~~  235 (481)
                      ...+.+++.+.+. ......... ..|.-++++|.+.+||||+...|.      |. +|. ++.-   |+.         
T Consensus       153 i~dLld~v~~~l~-~~e~~~~~~~~~~ikiaiiGrPNvGKSsLiN~il------geeR~I-v~~~---aGT---------  212 (444)
T COG1160         153 IGDLLDAVLELLP-PDEEEEEEEETDPIKIAIIGRPNVGKSSLINAIL------GEERVI-VSDI---AGT---------  212 (444)
T ss_pred             HHHHHHHHHhhcC-CcccccccccCCceEEEEEeCCCCCchHHHHHhc------cCceEE-ecCC---CCc---------
Confidence            3456677777763 111111111 246788999999999999998886      43 443 2111   110         


Q ss_pred             hcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCcccc--------HHHHHHHHhhhhccCCceEEEEEeCcc
Q 011624          236 QVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQID--------KAMMDELKDVKRVLNPTEVLLVVDAMT  307 (481)
Q Consensus       236 ~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d--------~~~~~el~~i~~~~~p~~vvLVvda~~  307 (481)
                        -.+.+..               .+..++..|++|||+|.=...        -.....+..+.   ..+-++||+|+..
T Consensus       213 --TRD~I~~---------------~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~---~a~vvllviDa~~  272 (444)
T COG1160         213 --TRDSIDI---------------EFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIE---RADVVLLVIDATE  272 (444)
T ss_pred             --cccceee---------------eEEECCeEEEEEECCCCCcccccccceEEEeehhhHhHHh---hcCEEEEEEECCC
Confidence              0111100               011356679999999864221        11222222222   2477899999965


Q ss_pred             h--HHHHHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          308 G--QEAAALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       308 ~--~~~~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      +  ..-...+......-.-.-|++||.|.-.+
T Consensus       273 ~~~~qD~~ia~~i~~~g~~~vIvvNKWDl~~~  304 (444)
T COG1160         273 GISEQDLRIAGLIEEAGRGIVIVVNKWDLVEE  304 (444)
T ss_pred             CchHHHHHHHHHHHHcCCCeEEEEEccccCCc
Confidence            5  22222332222222334588999996543

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=97.14  E-value=0.0027  Score=58.15  Aligned_cols=67  Identities=13%  Similarity=0.185  Sum_probs=36.5

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhhh----cCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFNI----EIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~~----~~~i~GvIlnKvD~~~  336 (481)
                      +++.+.++|+||.... ..+.   ..  .....+.+++|+|++...+.   ......+..    .-.+.-+|.||.|...
T Consensus        41 ~~~~~~i~D~~G~~~~-~~~~---~~--~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~  114 (167)
T cd04161          41 DKYEVCIFDLGGGANF-RGIW---VN--YYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKN  114 (167)
T ss_pred             CCEEEEEEECCCcHHH-HHHH---HH--HHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcC
Confidence            4677899999996321 1111   11  11245788999998654322   222222211    1123458899999643

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.

>PLN03118 Rab family protein; Provisional

Probab=97.14  E-value=0.0027  Score=60.48  Aligned_cols=21  Identities=38%  Similarity=0.540  Sum_probs=18.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-++++|.+||||||+...|+
T Consensus        15 ~kv~ivG~~~vGKTsli~~l~   35 (211)
T PLN03118         15 FKILLIGDSGVGKSSLLVSFI   35 (211)
T ss_pred             eEEEEECcCCCCHHHHHHHHH
Confidence            457788999999999998885

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.13  E-value=0.0083  Score=66.02  Aligned_cols=87  Identities=18%  Similarity=0.337  Sum_probs=55.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK--QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~--~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      -++|.|++|+|||.++..++.++.+  .|++|.+++++-|-......+.     .+          . .   ....+.+ 
T Consensus       316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~-----~~----------~-~---~~f~~~y-  375 (617)
T PRK14086        316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIR-----DG----------K-G---DSFRRRY-  375 (617)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHH-----hc----------c-H---HHHHHHh-
Confidence            4788999999999999999998875  4899999988755322221110     00          0 0   1112222 


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhh
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKR  292 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~  292 (481)
                       ..+|++|||-.+.+......-.++-.+.+
T Consensus       376 -~~~DLLlIDDIq~l~gke~tqeeLF~l~N  404 (617)
T PRK14086        376 -REMDILLVDDIQFLEDKESTQEEFFHTFN  404 (617)
T ss_pred             -hcCCEEEEehhccccCCHHHHHHHHHHHH
Confidence             57899999998877554333344434443

>PRK07560 elongation factor EF-2; Reviewed

Probab=97.13  E-value=0.0043  Score=70.39  Aligned_cols=65  Identities=18%  Similarity=0.326  Sum_probs=38.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHH-hhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTT-FNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~-f~~~~~i~GvIlnKvD~~  335 (481)
                      +++.+.+|||||...    +..++...+..  .|.+++|+|+..+  ......++. .....++ -+++||+|..
T Consensus        85 ~~~~i~liDtPG~~d----f~~~~~~~l~~--~D~avlVvda~~g~~~~t~~~~~~~~~~~~~~-iv~iNK~D~~  152 (731)
T PRK07560         85 KEYLINLIDTPGHVD----FGGDVTRAMRA--VDGAIVVVDAVEGVMPQTETVLRQALRERVKP-VLFINKVDRL  152 (731)
T ss_pred             CcEEEEEEcCCCccC----hHHHHHHHHHh--cCEEEEEEECCCCCCccHHHHHHHHHHcCCCe-EEEEECchhh
Confidence            356789999999864    33444433333  3788999998554  111122221 1223343 5889999954

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=97.13  E-value=0.0042  Score=65.93  Aligned_cols=65  Identities=25%  Similarity=0.271  Sum_probs=37.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc--h---H--HHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT--G---Q--EAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~--~---~--~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      +++.+.|+||||.-...    ..+..  .....+.+++|+|+..  +   +  .....+..+.  ....-+++||+|...
T Consensus        82 ~~~~i~liDtpG~~~~~----~~~~~--~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~--~~~iivviNK~Dl~~  153 (425)
T PRK12317         82 DKYYFTIVDCPGHRDFV----KNMIT--GASQADAAVLVVAADDAGGVMPQTREHVFLARTLG--INQLIVAINKMDAVN  153 (425)
T ss_pred             CCeEEEEEECCCcccch----hhHhh--chhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcC--CCeEEEEEEcccccc
Confidence            57789999999963221    22211  1224588899999964  3   1  1122222222  222457899999753

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=97.13  E-value=0.0037  Score=55.76  Aligned_cols=19  Identities=37%  Similarity=0.567  Sum_probs=17.3

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+|+||||++..|+
T Consensus         2 i~l~G~~g~GKTtL~~~l~   20 (170)
T cd01876           2 IAFAGRSNVGKSSLINALT   20 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHh
Confidence            6788999999999998886

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.12  E-value=0.0022  Score=62.66  Aligned_cols=38  Identities=21%  Similarity=0.268  Sum_probs=34.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ..+++.|++|+|||+++..++..+.++|++|.++.+|.
T Consensus        46 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~   83 (235)
T PRK08084         46 GYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDK   83 (235)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHH
Confidence            46889999999999999999999888899999888763

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=97.12  E-value=0.0014  Score=65.82  Aligned_cols=37  Identities=30%  Similarity=0.366  Sum_probs=30.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +++|+++|++||||||++..|+..+.    ...+++.|.+|
T Consensus         2 ~~liil~G~pGSGKSTla~~L~~~~~----~~~~l~~D~~r   38 (300)
T PHA02530          2 MKIILTVGVPGSGKSTWAREFAAKNP----KAVNVNRDDLR   38 (300)
T ss_pred             cEEEEEEcCCCCCHHHHHHHHHHHCC----CCEEEeccHHH
Confidence            46899999999999999999987662    45778888765

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=97.11  E-value=0.0059  Score=64.74  Aligned_cols=90  Identities=12%  Similarity=0.142  Sum_probs=47.8

Q ss_pred             CCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch------HHH---HHHHHHhhhc--CCeeEEEEc
Q 011624          265 NVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG------QEA---AALVTTFNIE--IGITGAILT  330 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~------~~~---~~~~~~f~~~--~~i~GvIln  330 (481)
                      +..++|+|+||....   ...+..+.  +...-..+.+++|+|++..      .+.   ...+..|.+.  -...-||+|
T Consensus       205 ~~~~~laD~PGliega~~~~gLg~~f--Lrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~N  282 (424)
T PRK12297        205 GRSFVMADIPGLIEGASEGVGLGHQF--LRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVAN  282 (424)
T ss_pred             CceEEEEECCCCcccccccchHHHHH--HHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEe
Confidence            456999999997531   11222221  1111224778999998421      111   2223344332  134568999


Q ss_pred             CCCCCCchhHHHHHHHHhCCCeEEee
Q 011624          331 KLDGDSRGGAALSVKEVSGKPIKLVG  356 (481)
Q Consensus       331 KvD~~~~~g~~~~~~~~~glPV~~ig  356 (481)
                      |+|.......+..+....+.|+..+.
T Consensus       283 K~DL~~~~e~l~~l~~~l~~~i~~iS  308 (424)
T PRK12297        283 KMDLPEAEENLEEFKEKLGPKVFPIS  308 (424)
T ss_pred             CCCCcCCHHHHHHHHHHhCCcEEEEe
Confidence            99974333334455556666664443

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=97.11  E-value=0.0031  Score=66.59  Aligned_cols=64  Identities=20%  Similarity=0.246  Sum_probs=37.4

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      +++.+.||||||...    +..++...  ....+.+++|+|+..+   +  +....+..+.  .+..-+++||+|..
T Consensus        78 ~~~~~~liDtPGh~~----f~~~~~~~--~~~aD~allVVda~~G~~~qt~~~~~~~~~~~--~~~iivviNK~D~~  146 (406)
T TIGR02034        78 DKRKFIVADTPGHEQ----YTRNMATG--ASTADLAVLLVDARKGVLEQTRRHSYIASLLG--IRHVVLAVNKMDLV  146 (406)
T ss_pred             CCeEEEEEeCCCHHH----HHHHHHHH--HhhCCEEEEEEECCCCCccccHHHHHHHHHcC--CCcEEEEEEecccc
Confidence            566799999999532    33333222  2245889999999544   1  2223333222  22234689999964

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=97.11  E-value=0.0032  Score=57.95  Aligned_cols=20  Identities=25%  Similarity=0.522  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+|+||||++.++.
T Consensus         3 kv~l~G~~g~GKTtl~~~~~   22 (180)
T cd04137           3 KIAVLGSRSVGKSSLTVQFV   22 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47799999999999998775

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=97.11  E-value=0.0049  Score=66.50  Aligned_cols=21  Identities=24%  Similarity=0.445  Sum_probs=18.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|+++|.++|||||+...|.
T Consensus       160 adV~LVG~PNAGKSTLln~Ls  180 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALS  180 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHh
Confidence            357888999999999998886

>cd04155 Arl3 Arl3 subfamily

Probab=97.10  E-value=0.0071  Score=55.06  Aligned_cols=22  Identities=45%  Similarity=0.644  Sum_probs=18.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..-+++.|++||||||+...|.
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~   35 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLA   35 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHh
Confidence            4568889999999999998775

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.

>PRK13695 putative NTPase; Provisional

Probab=97.10  E-value=0.028  Score=51.96  Aligned_cols=31  Identities=42%  Similarity=0.542  Sum_probs=27.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEE
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCM  215 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVl  215 (481)
                      .++++|.+|+||||++..++..+...|.++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~~~G~~~~   32 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLKEEGYKVG   32 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEE
Confidence            4788999999999999999988887788765

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=97.10  E-value=0.0033  Score=72.45  Aligned_cols=62  Identities=21%  Similarity=0.284  Sum_probs=38.5

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      ++-+-||||||...    ...++...+.  ..+.+++|+|+..|   +  ....++..  .+++ .-+++||+|..
T Consensus        97 ~~~inliDtPGh~d----F~~e~~~al~--~~D~ailVvda~~Gv~~~t~~~~~~~~~--~~~p-~i~~iNK~D~~  163 (843)
T PLN00116         97 EYLINLIDSPGHVD----FSSEVTAALR--ITDGALVVVDCIEGVCVQTETVLRQALG--ERIR-PVLTVNKMDRC  163 (843)
T ss_pred             ceEEEEECCCCHHH----HHHHHHHHHh--hcCEEEEEEECCCCCcccHHHHHHHHHH--CCCC-EEEEEECCccc
Confidence            45578999999854    4555533333  34888999999655   1  22222222  2233 45899999976

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=97.10  E-value=0.0014  Score=72.08  Aligned_cols=43  Identities=33%  Similarity=0.600  Sum_probs=38.5

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~r  223 (481)
                      +++.+|+++|.+|+||||++..|+..|.. .|.++.++|.|..|
T Consensus       390 ~~g~~Ivl~Gl~GSGKSTia~~La~~L~~~~g~~~~~lD~D~vr  433 (568)
T PRK05537        390 KQGFTVFFTGLSGAGKSTIAKALMVKLMEMRGRPVTLLDGDVVR  433 (568)
T ss_pred             CCCeEEEEECCCCChHHHHHHHHHHHhhhccCceEEEeCCcHHH
Confidence            46789999999999999999999999986 78899999999664

>cd04159 Arl10_like Arl10-like subfamily

Probab=97.09  E-value=0.003  Score=55.77  Aligned_cols=19  Identities=53%  Similarity=0.672  Sum_probs=16.8

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|++||||||+...|.
T Consensus         2 i~i~G~~~~GKssl~~~l~   20 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIA   20 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHc
Confidence            6789999999999998774

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=97.09  E-value=0.0025  Score=70.51  Aligned_cols=146  Identities=18%  Similarity=0.266  Sum_probs=70.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      -+-++++|..|+||||++..|......       ++...+...+.+.+ ......|+.+........        .....
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~-------i~~~~~~~~~~D~~-~~ErerGiTi~~~~v~~~--------~~~~~   66 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGA-------ISEREMREQVLDSM-DLERERGITIKAQAVRLN--------YKAKD   66 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCC-------CccccccccccCCC-hHHHhcCCCeeeeEEEEE--------EEcCC
Confidence            356889999999999999888753210       00000111111111 001122333321100000        00000


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCCCCCC-ch
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKLDGDS-RG  338 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKvD~~~-~~  338 (481)
                      ...+.+.|+||||...    ...++.....  ..+.+++|+|+..+   ++..........++. .-+++||+|... ..
T Consensus        67 g~~~~l~liDTPG~~d----F~~~v~~~l~--~aD~aILVvDat~g~~~qt~~~~~~~~~~~ip-iIiViNKiDl~~~~~  139 (595)
T TIGR01393        67 GETYVLNLIDTPGHVD----FSYEVSRSLA--ACEGALLLVDAAQGIEAQTLANVYLALENDLE-IIPVINKIDLPSADP  139 (595)
T ss_pred             CCEEEEEEEECCCcHH----HHHHHHHHHH--hCCEEEEEecCCCCCCHhHHHHHHHHHHcCCC-EEEEEECcCCCccCH
Confidence            1246789999999854    3333333333  34788999999654   222211122222343 458899999643 22


Q ss_pred             hHH-HHHHHHhCCC
Q 011624          339 GAA-LSVKEVSGKP  351 (481)
Q Consensus       339 g~~-~~~~~~~glP  351 (481)
                      ... ..+....+.+
T Consensus       140 ~~~~~el~~~lg~~  153 (595)
T TIGR01393       140 ERVKKEIEEVIGLD  153 (595)
T ss_pred             HHHHHHHHHHhCCC
Confidence            222 3444555653

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=97.09  E-value=0.0022  Score=69.04  Aligned_cols=64  Identities=19%  Similarity=0.207  Sum_probs=37.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-----HHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-----EAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-----~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      +++.++||||||.-    .+..++..-  ....+.+++|+|+..+.     .....+..+.  ++..-|++||+|..
T Consensus       105 ~~~~i~~iDTPGh~----~f~~~~~~~--l~~aD~allVVDa~~G~~~qt~~~~~l~~~lg--~~~iIvvvNKiD~~  173 (474)
T PRK05124        105 EKRKFIIADTPGHE----QYTRNMATG--ASTCDLAILLIDARKGVLDQTRRHSFIATLLG--IKHLVVAVNKMDLV  173 (474)
T ss_pred             CCcEEEEEECCCcH----HHHHHHHHH--HhhCCEEEEEEECCCCccccchHHHHHHHHhC--CCceEEEEEeeccc
Confidence            56789999999943    233333222  23458899999995441     2222333232  23334799999965

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=97.08  E-value=0.0039  Score=65.45  Aligned_cols=148  Identities=23%  Similarity=0.333  Sum_probs=85.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh--HHHHH---HHhhhhcCCCeecCCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA--AIDQL---VILGEQVGVPVYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~--aidql---~~~~~~~gv~v~~~~~~~~~~~~l~~~l  258 (481)
                      +=|++..+---||||+.-+|..   +.|         +||..  ..+..   ..+.+.-|+.++...+..          
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLk---QSG---------tf~~~e~v~ERvMDSnDlEkERGITILaKnTav----------   63 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLK---QSG---------TFREREEVAERVMDSNDLEKERGITILAKNTAV----------   63 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHh---hcc---------ccccccchhhhhcCccchhhhcCcEEEecccee----------
Confidence            3466667777899999988753   222         22211  00000   012234567776543321          


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                         .++++.+-||||||...    +-.|+..++..+  |.++|+|||.-|   |.-.-.-+++...+++. ||+||+|..
T Consensus        64 ---~~~~~~INIvDTPGHAD----FGGEVERvl~MV--DgvlLlVDA~EGpMPQTrFVlkKAl~~gL~PI-VVvNKiDrp  133 (603)
T COG1217          64 ---NYNGTRINIVDTPGHAD----FGGEVERVLSMV--DGVLLLVDASEGPMPQTRFVLKKALALGLKPI-VVINKIDRP  133 (603)
T ss_pred             ---ecCCeEEEEecCCCcCC----ccchhhhhhhhc--ceEEEEEEcccCCCCchhhhHHHHHHcCCCcE-EEEeCCCCC
Confidence               25788999999999865    345666666654  889999999433   44333335555555543 889999954


Q ss_pred             -Cc-hhHH---HHHH-------HHhCCCeEEeecCCCCCC
Q 011624          336 -SR-GGAA---LSVK-------EVSGKPIKLVGRGERMED  363 (481)
Q Consensus       336 -~~-~g~~---~~~~-------~~~glPV~~ig~g~~v~d  363 (481)
                       ++ ...+   +.+.       ++++.|+.|-........
T Consensus       134 ~Arp~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~G~a~  173 (603)
T COG1217         134 DARPDEVVDEVFDLFVELGATDEQLDFPIVYASARNGTAS  173 (603)
T ss_pred             CCCHHHHHHHHHHHHHHhCCChhhCCCcEEEeeccCceec
Confidence             23 2222   2222       346788887665544433

>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]

Probab=97.08  E-value=0.0094  Score=60.74  Aligned_cols=42  Identities=36%  Similarity=0.512  Sum_probs=37.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      +| .++++|+.-+||||++.-|..|..++|++++.++.|+..+
T Consensus       103 GP-rv~vVGp~d~GKsTl~r~L~nyavk~gr~Plfv~LDvgQ~  144 (415)
T KOG2749|consen  103 GP-RVMVVGPTDVGKSTLCRILLNYAVKQGRRPLFVELDVGQG  144 (415)
T ss_pred             CC-EEEEECCCccchHHHHHHHHHHHHHcCCcceEEEcCCCCC
Confidence            45 5667899999999999999999999999999999999763

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.07  E-value=0.018  Score=65.28  Aligned_cols=117  Identities=21%  Similarity=0.265  Sum_probs=62.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..|+++|.++|||||+...|.      |.+..+++-   .|+.     +      ......               ...+
T Consensus       276 ~~V~IvG~~nvGKSSL~n~l~------~~~~~iv~~---~pGv-----T------~d~~~~---------------~~~~  320 (712)
T PRK09518        276 GVVAIVGRPNVGKSTLVNRIL------GRREAVVED---TPGV-----T------RDRVSY---------------DAEW  320 (712)
T ss_pred             cEEEEECCCCCCHHHHHHHHh------CCCceeecC---CCCe-----e------EEEEEE---------------EEEE
Confidence            468899999999999998886      333332221   1111     0      000000               0012


Q ss_pred             CCCcEEEEcCCCCcccc----HHHHHHHHhhhhccCCceEEEEEeCcchHHH--HHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQID----KAMMDELKDVKRVLNPTEVLLVVDAMTGQEA--AALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d----~~~~~el~~i~~~~~p~~vvLVvda~~~~~~--~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      .+..+.++||||.....    ..+.......  ...++.+++|+|+..+...  ...+..+...-...-+|+||+|....
T Consensus       321 ~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~--~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~~~pvIlV~NK~D~~~~  398 (712)
T PRK09518        321 AGTDFKLVDTGGWEADVEGIDSAIASQAQIA--VSLADAVVFVVDGQVGLTSTDERIVRMLRRAGKPVVLAVNKIDDQAS  398 (712)
T ss_pred             CCEEEEEEeCCCcCCCCccHHHHHHHHHHHH--HHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEECcccccc
Confidence            45678999999965321    1122222111  2245889999999543111  12222222222345578999997543

>cd00876 Ras Ras family

Probab=97.06  E-value=0.0029  Score=56.35  Aligned_cols=82  Identities=20%  Similarity=0.121  Sum_probs=43.0

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---HH---HHhhh-cCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---LV---TTFNI-EIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~~---~~f~~-~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+.++|+||.... ......   ...  ..+.+++|+|.....+...   ..   ..... .....-+|+||+|....
T Consensus        46 ~~~~~l~D~~g~~~~-~~~~~~---~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  119 (160)
T cd00876          46 TYTLDILDTAGQEEF-SAMRDL---YIR--QGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENE  119 (160)
T ss_pred             EEEEEEEECCChHHH-HHHHHH---HHh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCccccc
Confidence            466889999996431 111111   111  2377888888855433221   11   22221 12345689999996542


Q ss_pred             ----hhHHHHHHHHhCCCe
Q 011624          338 ----GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV  352 (481)
                          ...+.......+.|+
T Consensus       120 ~~~~~~~~~~~~~~~~~~~  138 (160)
T cd00876         120 RQVSKEEGKALAKEWGCPF  138 (160)
T ss_pred             ceecHHHHHHHHHHcCCcE
Confidence                233344555555565

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

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=97.06  E-value=0.0019  Score=57.94  Aligned_cols=67  Identities=18%  Similarity=0.211  Sum_probs=36.8

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---HHHHh-h---hcCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---LVTTF-N---IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~~~~f-~---~~~~i~GvIlnKvD~~~~  337 (481)
                      ++++.++|+||.... ......   ...  ..+.+++|+|+........   ....+ .   ..-...-++.||+|...+
T Consensus        42 ~~~~~i~D~~G~~~~-~~~~~~---~~~--~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~  115 (158)
T cd00878          42 NVSFTVWDVGGQDKI-RPLWKH---YYE--NTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGA  115 (158)
T ss_pred             CEEEEEEECCCChhh-HHHHHH---Hhc--cCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccc
Confidence            567999999997532 111111   111  3478899999975532222   22211 1   111234577999997543

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

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.06  E-value=0.0028  Score=58.90  Aligned_cols=84  Identities=17%  Similarity=0.191  Sum_probs=47.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe-ccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA-GDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId-~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      +++++|++|+||||++..|+..+   |.++.+++ ++++.....+.+..|...-+-.......+.+..    +.+... .
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~---~~~~~~iat~~~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~----~~i~~~-~   74 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS---GLQVLYIATAQPFDDEMAARIAHHRQRRPAHWQTVEEPLDLA----ELLRAD-A   74 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc---CCCcEeCcCCCCChHHHHHHHHHHHhcCCCCCeEecccccHH----HHHHhh-c
Confidence            68899999999999999998654   44544444 456655444444444433333333332222222    223332 1


Q ss_pred             CCCcEEEEcCCCC
Q 011624          264 KNVDVVIVDTAGR  276 (481)
Q Consensus       264 ~~~D~VIIDt~G~  276 (481)
                      .+.++|+||+-..
T Consensus        75 ~~~~~VlID~Lt~   87 (170)
T PRK05800         75 APGRCVLVDCLTT   87 (170)
T ss_pred             CCCCEEEehhHHH
Confidence            3456888888543

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.05  E-value=0.00064  Score=65.28  Aligned_cols=39  Identities=33%  Similarity=0.483  Sum_probs=34.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++.+|.++|.+||||||++..|...|...  +|.+|..|.|
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~~--~~~~I~~D~Y   45 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGVE--KVVVISLDDY   45 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCcC--cceEeecccc
Confidence            45788899999999999999999888744  8999999976

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=97.05  E-value=0.0046  Score=58.49  Aligned_cols=20  Identities=30%  Similarity=0.459  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+|+||||+...|.
T Consensus         3 kI~i~G~~g~GKSSLin~L~   22 (197)
T cd04104           3 NIAVTGESGAGKSSFINALR   22 (197)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47889999999999998886

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=97.04  E-value=0.00091  Score=70.09  Aligned_cols=43  Identities=28%  Similarity=0.361  Sum_probs=38.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+|.||.|+|++|+||||++..|...+...|.+|..|..|-|-
T Consensus       210 ~~PlIIGIsG~qGSGKSTLa~~L~~lL~~~g~~vgvISiDDfY  252 (460)
T PLN03046        210 IPPLVIGFSAPQGCGKTTLVFALDYLFRVTGRKSATLSIDDFY  252 (460)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhcccCCceEEEEECCcc
Confidence            3689999999999999999999988887778999999999764

>PRK08116 hypothetical protein; Validated

Probab=97.04  E-value=0.032  Score=55.62  Aligned_cols=37  Identities=35%  Similarity=0.400  Sum_probs=33.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .-+++.|++|+|||.++..++..+.++|.+|++++..
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~  151 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFP  151 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            4578899999999999999999999889999988754

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=97.03  E-value=0.0096  Score=53.43  Aligned_cols=20  Identities=25%  Similarity=0.552  Sum_probs=17.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+|+||||+...+.
T Consensus         4 ki~i~G~~~~GKtsl~~~~~   23 (164)
T cd04145           4 KLVVVGGGGVGKSALTIQFI   23 (164)
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            47788999999999987775

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

>cd04110 Rab35 Rab35 subfamily

Probab=97.03  E-value=0.0053  Score=57.97  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|+++|.+||||||++..+.
T Consensus         7 ~kivvvG~~~vGKTsli~~l~   27 (199)
T cd04110           7 FKLLIIGDSGVGKSSLLLRFA   27 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHh
Confidence            357888999999999997775

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

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=97.03  E-value=0.0015  Score=59.93  Aligned_cols=25  Identities=40%  Similarity=0.566  Sum_probs=21.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +++++++|.+||||||++..+...+
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5799999999999999997776655

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=97.02  E-value=0.0067  Score=55.39  Aligned_cols=66  Identities=9%  Similarity=0.157  Sum_probs=36.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhh---hcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFN---IEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~---~~~~i~GvIlnKvD~~~  336 (481)
                      ++..+.++|+||..... .+...   .  ....+.+++|+|++...+.   ...+..+.   ...+ .-+|.||.|...
T Consensus        42 ~~~~l~i~Dt~G~~~~~-~~~~~---~--~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~p-iilv~NK~Dl~~  113 (164)
T cd04162          42 QDAIMELLEIGGSQNLR-KYWKR---Y--LSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLP-LVVLANKQDLPA  113 (164)
T ss_pred             CCeEEEEEECCCCcchh-HHHHH---H--HhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCc-EEEEEeCcCCcC
Confidence            45678999999874321 11111   1  1234788999998654322   22222221   2233 448899999643

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.

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=97.02  E-value=0.003  Score=69.25  Aligned_cols=134  Identities=23%  Similarity=0.236  Sum_probs=82.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      .++++|.+.|||||+-..|.    ....+|.                   +-.|+.+.....             .++.+
T Consensus         5 ~valvGNPNvGKTtlFN~LT----G~~q~Vg-------------------NwpGvTVEkkeg-------------~~~~~   48 (653)
T COG0370           5 TVALVGNPNVGKTTLFNALT----GANQKVG-------------------NWPGVTVEKKEG-------------KLKYK   48 (653)
T ss_pred             eEEEecCCCccHHHHHHHHh----ccCceec-------------------CCCCeeEEEEEE-------------EEEec
Confidence            58999999999999998876    1123343                   223444432111             01135


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHh--hhhccCCceEEEEEeCcchHHHHHHH-HHhhhcCCeeEEEEcCCCCCCchhHH
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKD--VKRVLNPTEVLLVVDAMTGQEAAALV-TTFNIEIGITGAILTKLDGDSRGGAA  341 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~--i~~~~~p~~vvLVvda~~~~~~~~~~-~~f~~~~~i~GvIlnKvD~~~~~g~~  341 (481)
                      +.++-|||.||..+-+..+.+|...  .+..-+||-++-|+||+.-+...... +-+.-+.+ .-+.+|++|...+.|.-
T Consensus        49 ~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAtnLeRnLyltlQLlE~g~p-~ilaLNm~D~A~~~Gi~  127 (653)
T COG0370          49 GHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDATNLERNLYLTLQLLELGIP-MILALNMIDEAKKRGIR  127 (653)
T ss_pred             CceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccchHHHHHHHHHHHHHcCCC-eEEEeccHhhHHhcCCc
Confidence            6789999999987654333333321  22234578899999996544333322 22222233 55789999998776654


Q ss_pred             ---HHHHHHhCCCeEEe
Q 011624          342 ---LSVKEVSGKPIKLV  355 (481)
Q Consensus       342 ---~~~~~~~glPV~~i  355 (481)
                         ..+.+..|+||..+
T Consensus       128 ID~~~L~~~LGvPVv~t  144 (653)
T COG0370         128 IDIEKLSKLLGVPVVPT  144 (653)
T ss_pred             ccHHHHHHHhCCCEEEE
Confidence               45667789999643

>PLN02796 D-glycerate 3-kinase

Probab=97.02  E-value=0.0026  Score=65.33  Aligned_cols=42  Identities=29%  Similarity=0.383  Sum_probs=37.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +|.++.++|++||||||++..|...+...|.++..|..|-|-
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL~~~g~~~g~IsiDdfY  140 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLFNATGRRAASLSIDDFY  140 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHhcccCCceeEEEECCcc
Confidence            678999999999999999999999888778888888888764

>PTZ00301 uridine kinase; Provisional

Probab=97.02  E-value=0.0012  Score=63.42  Aligned_cols=41  Identities=32%  Similarity=0.473  Sum_probs=33.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHc-C-CeEEEEeccCCc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQ-G-KSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~-G-~kVlLId~D~~r  223 (481)
                      -.+|.++|++||||||++.+|+..+... | ..|.++..|-|-
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~~~~~~~~~vi~~D~yy   45 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMAHCGPVSIGVICEDFYY   45 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHhhcCCCeEEEeCCCCCc
Confidence            3689999999999999999999888643 4 457788888773

>cd01864 Rab19 Rab19 subfamily

Probab=97.00  E-value=0.0018  Score=58.65  Aligned_cols=21  Identities=38%  Similarity=0.493  Sum_probs=17.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-++++|.+|+||||++..+.
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~   24 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFK   24 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHh
Confidence            357788999999999998763

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.

>PRK10218 GTP-binding protein; Provisional

Probab=97.00  E-value=0.0045  Score=68.57  Aligned_cols=122  Identities=24%  Similarity=0.297  Sum_probs=63.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH---HcCC-eEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLK---KQGK-SCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~---~~G~-kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l  258 (481)
                      -+-|+++|..|+||||++..|.....   +.+. .-.+.|.+.           .....|+.+.....            
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~-----------~E~erGiTi~~~~~------------   61 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSND-----------LEKERGITILAKNT------------   61 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeecccc-----------ccccCceEEEEEEE------------
Confidence            46789999999999999988864211   1110 001111111           01112332221100            


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHH-hhhcCCeeEEEEcCCCCC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTT-FNIEIGITGAILTKLDGD  335 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~-f~~~~~i~GvIlnKvD~~  335 (481)
                       .+.++++.+.|+||||....    ..++.....  ..+.+++|+|+..+.  ........ ....+++ -+++||+|..
T Consensus        62 -~i~~~~~~inliDTPG~~df----~~~v~~~l~--~aDg~ILVVDa~~G~~~qt~~~l~~a~~~gip~-IVviNKiD~~  133 (607)
T PRK10218         62 -AIKWNDYRINIVDTPGHADF----GGEVERVMS--MVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLKP-IVVINKVDRP  133 (607)
T ss_pred             -EEecCCEEEEEEECCCcchh----HHHHHHHHH--hCCEEEEEEecccCccHHHHHHHHHHHHcCCCE-EEEEECcCCC
Confidence             01135788999999997542    223322333  348889999996541  11111111 2223444 5889999964

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.00  E-value=0.008  Score=68.05  Aligned_cols=73  Identities=15%  Similarity=0.110  Sum_probs=39.0

Q ss_pred             CCCcEEEEcCCCCccc-----cHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQI-----DKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~-----d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .+.++.++||||....     .......+......-..+.+++|+|++.+  ......+......-...-+|+||+|...
T Consensus       496 ~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~i~~~~~~~~~piIiV~NK~DL~~  575 (712)
T PRK09518        496 DGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLKVMSMAVDAGRALVLVFNKWDLMD  575 (712)
T ss_pred             CCCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEEchhcCC
Confidence            4567889999995321     11222222222222345788999999544  2222233322222234558999999643

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=96.99  E-value=0.0028  Score=57.62  Aligned_cols=17  Identities=47%  Similarity=0.700  Sum_probs=14.9

Q ss_pred             EEcCCCCCHHHHHHHHH
Q 011624          188 LAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       188 i~G~~GvGKTTta~~LA  204 (481)
                      +.|++||||||+...|.
T Consensus         1 iiG~~~~GKStll~~l~   17 (176)
T cd01881           1 LVGLPNVGKSTLLNALT   17 (176)
T ss_pred             CCCCCCCcHHHHHHHHh
Confidence            46999999999998876

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=96.99  E-value=0.0064  Score=55.32  Aligned_cols=83  Identities=14%  Similarity=0.141  Sum_probs=43.2

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH---H---HHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL---V---TTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~---~---~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|.||||.... .....   ...  -..+.+++|.|.....+....   .   ..+...-...-+|.||.|.... 
T Consensus        51 ~~~l~l~D~~g~~~~-~~~~~---~~~--~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~  124 (167)
T cd01867          51 KIKLQIWDTAGQERF-RTITT---AYY--RGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKR  124 (167)
T ss_pred             EEEEEEEeCCchHHH-HHHHH---HHh--CCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECccccccc
Confidence            356789999996321 11111   111  234788999998655432221   1   2221111234588899996422 


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+...+...+.|+.
T Consensus       125 ~~~~~~~~~~~~~~~~~~~  143 (167)
T cd01867         125 VVSKEEGEALADEYGIKFL  143 (167)
T ss_pred             CCCHHHHHHHHHHcCCEEE
Confidence               2233455556666663

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

>cd01865 Rab3 Rab3 subfamily

Probab=96.99  E-value=0.006  Score=55.40  Aligned_cols=83  Identities=14%  Similarity=0.102  Sum_probs=42.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHh---hhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTF---NIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f---~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.+.||||....  ..+.  ...  ....+.+++|.|.....+..   ......   .......-+|.||+|.... 
T Consensus        49 ~~~~~l~Dt~g~~~~--~~~~--~~~--~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~  122 (165)
T cd01865          49 RVKLQIWDTAGQERY--RTIT--TAY--YRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDER  122 (165)
T ss_pred             EEEEEEEECCChHHH--HHHH--HHH--ccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCccc
Confidence            356889999986321  1111  111  12347788899985443222   111122   1112235688999996432 


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ......+....+.|+.
T Consensus       123 ~~~~~~~~~~~~~~~~~~~  141 (165)
T cd01865         123 VVSSERGRQLADQLGFEFF  141 (165)
T ss_pred             ccCHHHHHHHHHHcCCEEE
Confidence               2333445566666653

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

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=96.98  E-value=0.0023  Score=71.45  Aligned_cols=64  Identities=19%  Similarity=0.243  Sum_probs=37.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      ++..++||||||...    +...+..  .....|.++||+|+..+   +  +....+..+.  .+..-|++||+|..
T Consensus       102 ~~~~~~liDtPG~~~----f~~~~~~--~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~~--~~~iivvvNK~D~~  170 (632)
T PRK05506        102 PKRKFIVADTPGHEQ----YTRNMVT--GASTADLAIILVDARKGVLTQTRRHSFIASLLG--IRHVVLAVNKMDLV  170 (632)
T ss_pred             CCceEEEEECCChHH----HHHHHHH--HHHhCCEEEEEEECCCCccccCHHHHHHHHHhC--CCeEEEEEEecccc
Confidence            567899999999532    2222222  22245888999999544   1  2222333222  22334689999975

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=96.98  E-value=0.00064  Score=69.97  Aligned_cols=144  Identities=24%  Similarity=0.294  Sum_probs=83.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      +-|.+...-.+||||++..+.++-   |+--.  .+|.-..+.+.......+.-|+.+-.....             +.|
T Consensus        38 rnigiiahidagktttterily~a---g~~~s--~g~vddgdtvtdfla~erergitiqsaav~-------------fdw   99 (753)
T KOG0464|consen   38 RNIGIIAHIDAGKTTTTERILYLA---GAIHS--AGDVDDGDTVTDFLAIERERGITIQSAAVN-------------FDW   99 (753)
T ss_pred             hcceeEEEecCCCchhHHHHHHHh---hhhhc--ccccCCCchHHHHHHHHHhcCceeeeeeee-------------ccc
Confidence            456666777899999999986433   22111  122222222222223334456666543221             237


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH-HHHhhhcCCe-eEEEEcCCCCC-Cch-h
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL-VTTFNIEIGI-TGAILTKLDGD-SRG-G  339 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~-~~~f~~~~~i-~GvIlnKvD~~-~~~-g  339 (481)
                      +++.+-+|||||...    +.-|+...++++  +.++.|.|++.|.++... ++......++ ..+.+||+|.. +.. .
T Consensus       100 kg~rinlidtpghvd----f~leverclrvl--dgavav~dasagve~qtltvwrqadk~~ip~~~finkmdk~~anfe~  173 (753)
T KOG0464|consen  100 KGHRINLIDTPGHVD----FRLEVERCLRVL--DGAVAVFDASAGVEAQTLTVWRQADKFKIPAHCFINKMDKLAANFEN  173 (753)
T ss_pred             ccceEeeecCCCcce----EEEEHHHHHHHh--cCeEEEEeccCCcccceeeeehhccccCCchhhhhhhhhhhhhhhhh
Confidence            899999999999875    334455555655  778999999777443221 2222222333 56789999954 333 3


Q ss_pred             HHHHHHHHhCCC
Q 011624          340 AALSVKEVSGKP  351 (481)
Q Consensus       340 ~~~~~~~~~glP  351 (481)
                      .+.++.+..|..
T Consensus       174 avdsi~ekl~ak  185 (753)
T KOG0464|consen  174 AVDSIEEKLGAK  185 (753)
T ss_pred             HHHHHHHHhCCc
Confidence            447788887754

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=96.98  E-value=0.0023  Score=61.84  Aligned_cols=81  Identities=20%  Similarity=0.235  Sum_probs=50.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .|..+++.|++|+||||++..|+       .++++++.|---       ..+....++++...+.. .+.+.+.+.+..+
T Consensus        11 ~~~~~liyG~~G~GKtt~a~~~~-------~~~~~~~~d~~~-------~~l~g~~~~~v~~~d~~-~~~~~~~d~l~~~   75 (220)
T TIGR01618        11 IPNMYLIYGKPGTGKTSTIKYLP-------GKTLVLSFDMSS-------KVLIGDENVDIADHDDM-PPIQAMVEFYVMQ   75 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHhcC-------CCCEEEeccccc-------hhccCCCCCceeecCCC-CCHHHHHHHHHHH
Confidence            36679999999999999998774       467888888521       11122223455443322 2333333444433


Q ss_pred             H--cCCCcEEEEcCCCCc
Q 011624          262 K--KKNVDVVIVDTAGRL  277 (481)
Q Consensus       262 ~--~~~~D~VIIDt~G~~  277 (481)
                      .  ..+||.||||+...+
T Consensus        76 ~~~~~~ydtVVIDsI~~l   93 (220)
T TIGR01618        76 NIQAVKYDNIVIDNISAL   93 (220)
T ss_pred             HhccccCCEEEEecHHHH
Confidence            2  257999999998664

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=96.97  E-value=0.011  Score=53.15  Aligned_cols=19  Identities=26%  Similarity=0.644  Sum_probs=17.0

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |++.|.+||||||++..+.
T Consensus         3 i~v~G~~~~GKTsli~~~~   21 (164)
T smart00173        3 LVVLGSGGVGKSALTIQFV   21 (164)
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6788999999999998875

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd04113 Rab4 Rab4 subfamily

Probab=96.97  E-value=0.0048  Score=55.46  Aligned_cols=82  Identities=20%  Similarity=0.114  Sum_probs=43.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---H---HHHhh-hcCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---L---VTTFN-IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~---~~~f~-~~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+.|+||||.....    .......  ..++.+++|+|.....+...   .   ++.+. +.. ..-+|.||.|....
T Consensus        48 ~~~l~l~D~~G~~~~~----~~~~~~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-~iivv~nK~D~~~~  120 (161)
T cd04113          48 RVKLQIWDTAGQERFR----SVTRSYY--RGAAGALLVYDITNRTSFEALPTWLSDARALASPNI-VVILVGNKSDLADQ  120 (161)
T ss_pred             EEEEEEEECcchHHHH----HhHHHHh--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC-eEEEEEEchhcchh
Confidence            4678899999963211    1111111  24578899999966533222   1   12222 222 34578899996432


Q ss_pred             ----hhHHHHHHHHhCCCeE
Q 011624          338 ----GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV~  353 (481)
                          ...+.......+.++.
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~  140 (161)
T cd04113         121 REVTFLEASRFAQENGLLFL  140 (161)
T ss_pred             ccCCHHHHHHHHHHcCCEEE
Confidence                2233445556665553

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

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.96  E-value=0.012  Score=54.58  Aligned_cols=34  Identities=32%  Similarity=0.534  Sum_probs=25.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec-cCCc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG-DVYR  223 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~-D~~r  223 (481)
                      +|++.|++||||||++..||..+   |  +..++. |..|
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~---~--~~~is~~d~lr   35 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF---G--FTHLSAGDLLR   35 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc---C--CeEEECChHHH
Confidence            57889999999999999998765   4  344554 5554

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.

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=96.96  E-value=0.036  Score=62.32  Aligned_cols=113  Identities=19%  Similarity=0.185  Sum_probs=57.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC-CCHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE-VKPSQIAKQGLEE  260 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~-~~~~~~l~~~l~~  260 (481)
                      +..++|+|+.|+||||++..||+.|.- .+.     +..+..  .-.....+....-.+++..+.. ....+.+++.++.
T Consensus        38 ~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~-----~~~PCG--~C~sCr~I~~G~h~DviEIDAas~rgVDdIReLIe~  110 (830)
T PRK07003         38 HHAYLFTGTRGVGKTTLSRIFAKALNCETGV-----TSQPCG--VCRACREIDEGRFVDYVEMDAASNRGVDEMAALLER  110 (830)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCccCC-----CCCCCc--ccHHHHHHhcCCCceEEEecccccccHHHHHHHHHH
Confidence            568889999999999999999988753 221     111110  0000111111111122222211 1223344555554


Q ss_pred             HH----cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          261 AK----KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       261 ~~----~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +.    ...|.++|||-.-++..  .....|.+++... +..+.|++-+
T Consensus       111 a~~~P~~gr~KVIIIDEah~LT~--~A~NALLKtLEEP-P~~v~FILaT  156 (830)
T PRK07003        111 AVYAPVDARFKVYMIDEVHMLTN--HAFNAMLKTLEEP-PPHVKFILAT  156 (830)
T ss_pred             HHhccccCCceEEEEeChhhCCH--HHHHHHHHHHHhc-CCCeEEEEEE
Confidence            32    24688999999887743  2334444444432 2344555433

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.94  E-value=0.00091  Score=68.75  Aligned_cols=39  Identities=26%  Similarity=0.430  Sum_probs=35.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYR  223 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~r  223 (481)
                      +++++|.+|+||||++..|+.+|. .+|++|.+++.|-+=
T Consensus         1 ~~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i   40 (340)
T TIGR03575         1 LCVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDII   40 (340)
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccccc
Confidence            367899999999999999999997 689999999999753

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>TIGR00235 udk uridine kinase

Probab=96.94  E-value=0.001  Score=63.48  Aligned_cols=39  Identities=33%  Similarity=0.490  Sum_probs=32.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++.+++++|++|+||||++..|+..+..  ..+.++..|.|
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~~--~~~~~i~~D~~   43 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLGK--LEIVIISQDNY   43 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhcc--cCCeEeccccc
Confidence            5679999999999999999999877653  56778888876

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>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=96.94  E-value=0.0014  Score=63.35  Aligned_cols=87  Identities=23%  Similarity=0.316  Sum_probs=57.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK--QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~--~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      .+.+.|++|+|||.+..+++.++.+  .+.+|.+++++.|-....+.+..            +   ..    .+....+ 
T Consensus        36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~------------~---~~----~~~~~~~-   95 (219)
T PF00308_consen   36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRD------------G---EI----EEFKDRL-   95 (219)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHT------------T---SH----HHHHHHH-
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHc------------c---cc----hhhhhhh-
Confidence            4678999999999999999998876  47899999998775544443311            0   01    1223333 


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhh
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKR  292 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~  292 (481)
                       ..+|+++||-...+........++-.+.+
T Consensus        96 -~~~DlL~iDDi~~l~~~~~~q~~lf~l~n  124 (219)
T PF00308_consen   96 -RSADLLIIDDIQFLAGKQRTQEELFHLFN  124 (219)
T ss_dssp             -CTSSEEEEETGGGGTTHHHHHHHHHHHHH
T ss_pred             -hcCCEEEEecchhhcCchHHHHHHHHHHH
Confidence             68999999998766543333344444444

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.94  E-value=0.006  Score=54.76  Aligned_cols=19  Identities=26%  Similarity=0.559  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||++..|.
T Consensus         3 i~~vG~~~vGKTsli~~l~   21 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYC   21 (168)
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6788999999999998875

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=96.93  E-value=0.0048  Score=56.82  Aligned_cols=67  Identities=16%  Similarity=0.207  Sum_probs=36.7

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhh-h---cCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFN-I---EIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~-~---~~~i~GvIlnKvD~~~  336 (481)
                      .+..+.++|+||.....    .......  ..++.+++|+|++......   .....+. .   .-...-+++||+|...
T Consensus        57 ~~~~~~l~D~~G~~~~~----~~~~~~~--~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~  130 (174)
T cd04153          57 KNIRFLMWDIGGQESLR----SSWNTYY--TNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG  130 (174)
T ss_pred             CCeEEEEEECCCCHHHH----HHHHHHh--hcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC
Confidence            35678999999974211    1111111  2457889999996553321   2122221 1   1123468999999643

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.

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=96.93  E-value=0.0028  Score=70.74  Aligned_cols=45  Identities=29%  Similarity=0.571  Sum_probs=41.0

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~  225 (481)
                      .+|.+|+++|.+|+||||++..|+..|...|..+.+++.|.+|..
T Consensus       458 ~~~~~i~~~G~~gsGKst~a~~l~~~l~~~~~~~~~l~~D~~r~~  502 (632)
T PRK05506        458 QKPATVWFTGLSGSGKSTIANLVERRLHALGRHTYLLDGDNVRHG  502 (632)
T ss_pred             CCcEEEEecCCCCchHHHHHHHHHHHHHHcCCCEEEEcChhhhhc
Confidence            358899999999999999999999999888999999999998764

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=96.93  E-value=0.003  Score=69.84  Aligned_cols=99  Identities=22%  Similarity=0.191  Sum_probs=53.6

Q ss_pred             CCcEEEEcCCCCccccHHHHH-HHH-hhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchh---
Q 011624          265 NVDVVIVDTAGRLQIDKAMMD-ELK-DVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGG---  339 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~-el~-~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g---  339 (481)
                      +..+.++||||.........+ ++. .......++-+++|+|++..+..........+.-...-+++||+|...+.+   
T Consensus        40 ~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~ler~l~l~~ql~~~~~PiIIVlNK~Dl~~~~~i~~  119 (591)
T TIGR00437        40 GEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLERNLYLTLQLLELGIPMILALNLVDEAEKKGIRI  119 (591)
T ss_pred             CeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcchhhHHHHHHHHhcCCCEEEEEehhHHHHhCCChh
Confidence            456899999997543221111 111 111222468889999996544333333222211223458999999743322   


Q ss_pred             HHHHHHHHhCCCeEEee--cCCCCCC
Q 011624          340 AALSVKEVSGKPIKLVG--RGERMED  363 (481)
Q Consensus       340 ~~~~~~~~~glPV~~ig--~g~~v~d  363 (481)
                      ....+.+..|.|+..+.  .++++++
T Consensus       120 d~~~L~~~lg~pvv~tSA~tg~Gi~e  145 (591)
T TIGR00437       120 DEEKLEERLGVPVVPTSATEGRGIER  145 (591)
T ss_pred             hHHHHHHHcCCCEEEEECCCCCCHHH
Confidence            23456677889986444  3444444

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.

>cd01868 Rab11_like Rab11-like

Probab=96.92  E-value=0.0067  Score=54.75  Aligned_cols=20  Identities=35%  Similarity=0.634  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -++++|.+||||||+..+|.
T Consensus         5 ki~vvG~~~~GKSsli~~l~   24 (165)
T cd01868           5 KIVLIGDSGVGKSNLLSRFT   24 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47788999999999998885

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

>PRK06921 hypothetical protein; Provisional

Probab=96.92  E-value=0.01  Score=59.16  Aligned_cols=37  Identities=30%  Similarity=0.354  Sum_probs=32.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEec
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAG  219 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~  219 (481)
                      ..-+++.|++|+|||+++.++|..+.++ |++|+++..
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~  154 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF  154 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence            3468889999999999999999999887 999998875

>cd00879 Sar1 Sar1 subfamily

Probab=96.91  E-value=0.0055  Score=56.92  Aligned_cols=21  Identities=43%  Similarity=0.566  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..+++.|++||||||+...|.
T Consensus        20 ~ki~ilG~~~~GKStLi~~l~   40 (190)
T cd00879          20 AKILFLGLDNAGKTTLLHMLK   40 (190)
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            345899999999999998774

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=96.91  E-value=0.0035  Score=69.24  Aligned_cols=23  Identities=30%  Similarity=0.495  Sum_probs=20.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +|.++++.|.+|+||||+..+|.
T Consensus         5 R~p~V~i~Gh~~~GKTSLl~~l~   27 (586)
T PRK04004          5 RQPIVVVLGHVDHGKTTLLDKIR   27 (586)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHh
Confidence            56699999999999999998883

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=96.91  E-value=0.011  Score=60.83  Aligned_cols=114  Identities=18%  Similarity=0.219  Sum_probs=59.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      =|.++|.++|||||+...|..      .++. |..-+|.        +.....|  ++..                  ..
T Consensus       160 dVglVG~PNaGKSTLln~ls~------a~~~-va~ypfT--------T~~p~~G--~v~~------------------~~  204 (335)
T PRK12299        160 DVGLVGLPNAGKSTLISAVSA------AKPK-IADYPFT--------TLHPNLG--VVRV------------------DD  204 (335)
T ss_pred             CEEEEcCCCCCHHHHHHHHHc------CCCc-cCCCCCc--------eeCceEE--EEEe------------------CC
Confidence            367889999999999988852      1222 1111221        1111111  1110                  12


Q ss_pred             CCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch---HHH---HHHHHHhhhcC--CeeEEEEcCCC
Q 011624          265 NVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEA---AALVTTFNIEI--GITGAILTKLD  333 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~---~~~~~~f~~~~--~i~GvIlnKvD  333 (481)
                      ...++|+|+||....   ...+..+..+  ..-..+.+++|+|++..   ++.   ...+..|.+.+  ...-+|+||+|
T Consensus       205 ~~~~~i~D~PGli~ga~~~~gLg~~flr--hie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiD  282 (335)
T PRK12299        205 YKSFVIADIPGLIEGASEGAGLGHRFLK--HIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKID  282 (335)
T ss_pred             CcEEEEEeCCCccCCCCccccHHHHHHH--HhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcc
Confidence            346899999998632   1122222111  11124678999998532   222   22233443321  34568999999


Q ss_pred             CC
Q 011624          334 GD  335 (481)
Q Consensus       334 ~~  335 (481)
                      ..
T Consensus       283 L~  284 (335)
T PRK12299        283 LL  284 (335)
T ss_pred             cC
Confidence            64

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.91  E-value=0.0045  Score=62.95  Aligned_cols=76  Identities=30%  Similarity=0.346  Sum_probs=53.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      +.-+.+.|++|+|||.++.++|..+.++|++|.++...    ..+..++..-   +     .+   .    ..+.+..+ 
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~----~l~~~lk~~~---~-----~~---~----~~~~l~~l-  215 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFP----EFIRELKNSI---S-----DG---S----VKEKIDAV-  215 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHH----HHHHHHHHHH---h-----cC---c----HHHHHHHh-
Confidence            34688899999999999999999999999999987664    4444442211   0     00   0    12334454 


Q ss_pred             cCCCcEEEEcCCCCccc
Q 011624          263 KKNVDVVIVDTAGRLQI  279 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~  279 (481)
                       ..+|++|||=-|....
T Consensus       216 -~~~dlLiIDDiG~e~~  231 (306)
T PRK08939        216 -KEAPVLMLDDIGAEQM  231 (306)
T ss_pred             -cCCCEEEEecCCCccc
Confidence             5899999999886543

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.90  E-value=0.0017  Score=61.00  Aligned_cols=37  Identities=27%  Similarity=0.503  Sum_probs=33.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      +.+|++.|..|+||||.+..|+.+|...|++|.++..
T Consensus         3 g~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~~   39 (195)
T TIGR00041         3 GMFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTRE   39 (195)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            4689999999999999999999999999999976543

Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.

>cd04157 Arl6 Arl6 subfamily

Probab=96.89  E-value=0.006  Score=54.64  Aligned_cols=66  Identities=12%  Similarity=0.159  Sum_probs=36.6

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHh------h-hcCCeeEEEEcCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTF------N-IEIGITGAILTKLD  333 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f------~-~~~~i~GvIlnKvD  333 (481)
                      .++.+.++||||.... ..+...   .  ....+.+++|+|++...+.   ......+      . ... ..-+|+||+|
T Consensus        43 ~~~~~~l~Dt~G~~~~-~~~~~~---~--~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~-p~iiv~NK~D  115 (162)
T cd04157          43 GNLSFTAFDMSGQGKY-RGLWEH---Y--YKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRV-PILFFANKMD  115 (162)
T ss_pred             CCEEEEEEECCCCHhh-HHHHHH---H--HccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCC-CEEEEEeCcc
Confidence            4567889999997531 111111   1  1245888999999654322   1112211      1 122 3558999999


Q ss_pred             CCC
Q 011624          334 GDS  336 (481)
Q Consensus       334 ~~~  336 (481)
                      ...
T Consensus       116 l~~  118 (162)
T cd04157         116 LPD  118 (162)
T ss_pred             ccC
Confidence            643

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

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

Probab=96.88  E-value=0.0077  Score=59.31  Aligned_cols=101  Identities=23%  Similarity=0.267  Sum_probs=52.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHH---HHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIA---KQGLE  259 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l---~~~l~  259 (481)
                      +.+++++|++|+||||++..++..+...+.  ..+....-.....+-+.......|++.-.    ....+..   .+.+.
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~--~~~~~~~~~~~~~~~l~~i~~~lG~~~~~----~~~~~~~~~l~~~l~  116 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERV--VAAKLVNTRVDAEDLLRMVAADFGLETEG----RDKAALLRELEDFLI  116 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCe--EEeeeeCCCCCHHHHHHHHHHHcCCCCCC----CCHHHHHHHHHHHHH
Confidence            458899999999999999999877764332  22221111122223344455556665321    1222222   22222


Q ss_pred             H-HHcCCCcEEEEcCCCCccccHHHHHHHHhhh
Q 011624          260 E-AKKKNVDVVIVDTAGRLQIDKAMMDELKDVK  291 (481)
Q Consensus       260 ~-~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~  291 (481)
                      . ...+..-++|||-+-.+.  ......+..+.
T Consensus       117 ~~~~~~~~~vliiDe~~~l~--~~~~~~l~~l~  147 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLT--PELLEELRMLS  147 (269)
T ss_pred             HHHhCCCCeEEEEECcccCC--HHHHHHHHHHh
Confidence            1 223455688888876553  23344444443

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.

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=96.87  E-value=0.0067  Score=66.73  Aligned_cols=34  Identities=24%  Similarity=0.390  Sum_probs=28.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEE
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCM  215 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVl  215 (481)
                      ++.|++|+||+|||||+++..+|.+|-++=+|..
T Consensus       437 qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfS  470 (906)
T KOG2004|consen  437 QGKILCFVGPPGVGKTSIAKSIARALNRKFFRFS  470 (906)
T ss_pred             CCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEe
Confidence            5679999999999999999999999976544433

>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=96.87  E-value=0.0015  Score=60.96  Aligned_cols=35  Identities=34%  Similarity=0.556  Sum_probs=31.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      +|++.|+.||||||++..|+.+|..+|++|..+.-
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~   36 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTRE   36 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            68899999999999999999999999999975543

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>cd04158 ARD1 ARD1 subfamily

Probab=96.87  E-value=0.006  Score=55.80  Aligned_cols=67  Identities=21%  Similarity=0.270  Sum_probs=36.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhhh--c--CCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFNI--E--IGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~~--~--~~i~GvIlnKvD~~~  336 (481)
                      .++.+.|+||||..... .....   ..  ...+.+++|+|.+..++..   .....+..  .  -...-++.||.|...
T Consensus        41 ~~~~i~l~Dt~G~~~~~-~~~~~---~~--~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  114 (169)
T cd04158          41 KNLKFTIWDVGGKHKLR-PLWKH---YY--LNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG  114 (169)
T ss_pred             CCEEEEEEECCCChhcc-hHHHH---Hh--ccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc
Confidence            45678999999964321 11111   11  2347889999986543222   21222211  1  123557899999753

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra

>cd01866 Rab2 Rab2 subfamily

Probab=96.87  E-value=0.009  Score=54.43  Aligned_cols=20  Identities=25%  Similarity=0.474  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -++++|.+||||||++..+.
T Consensus         6 ki~vvG~~~vGKSsLl~~l~   25 (168)
T cd01866           6 KYIIIGDTGVGKSCLLLQFT   25 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            57888999999999998774

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

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.85  E-value=0.0011  Score=62.11  Aligned_cols=37  Identities=38%  Similarity=0.523  Sum_probs=27.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe-ccCCchhH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA-GDVYRPAA  226 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId-~D~~rp~a  226 (481)
                      -|++.|++|+||||.|.+||..     ..+.-+| .|.+|++.
T Consensus         2 riiilG~pGaGK~T~A~~La~~-----~~i~hlstgd~~r~~~   39 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK-----LGLPHLDTGDILRAAI   39 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH-----hCCcEEcHhHHhHhhh
Confidence            3678899999999999999876     3445556 55666553

>cd04112 Rab26 Rab26 subfamily

Probab=96.85  E-value=0.0053  Score=57.49  Aligned_cols=82  Identities=17%  Similarity=0.148  Sum_probs=41.9

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||....    ........  ...+.+++|+|.....+.   .   ..+..+...-.+.-+|.||.|.... 
T Consensus        49 ~~~~~i~Dt~G~~~~----~~~~~~~~--~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~  122 (191)
T cd04112          49 KVKLQIWDTAGQERF----RSVTHAYY--RDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGER  122 (191)
T ss_pred             EEEEEEEeCCCcHHH----HHhhHHHc--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhcc
Confidence            456889999995321    11111111  234778999998554322   1   2222222211234578899996321 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ......+....+.|+
T Consensus       123 ~~~~~~~~~l~~~~~~~~  140 (191)
T cd04112         123 VVKREDGERLAKEYGVPF  140 (191)
T ss_pred             ccCHHHHHHHHHHcCCeE
Confidence               123344555566665

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.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=96.84  E-value=0.004  Score=59.29  Aligned_cols=20  Identities=40%  Similarity=0.564  Sum_probs=17.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      .++++|++|||||++...|.
T Consensus         2 ~vll~G~~~sGKTsL~~~l~   21 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLT   21 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHh
Confidence            47788999999999987774

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=96.84  E-value=0.0052  Score=53.71  Aligned_cols=20  Identities=35%  Similarity=0.532  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+|+||||+...|.
T Consensus         3 ki~~~G~~~~GKstl~~~l~   22 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLL   22 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47889999999999988775

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=96.84  E-value=0.0028  Score=57.12  Aligned_cols=65  Identities=22%  Similarity=0.182  Sum_probs=35.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HH---HHHhhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---AL---VTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~---~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      ....+.++||||.-. ...+...   ..  ..++.+++|.|.+...+..   ..   +...... .+.-+|.||.|..
T Consensus        50 ~~~~l~i~Dt~G~~~-~~~~~~~---~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~-~p~ilv~nK~Dl~  120 (164)
T cd04101          50 NTVELFIFDSAGQEL-YSDMVSN---YW--ESPSVFILVYDVSNKASFENCSRWVNKVRTASKH-MPGVLVGNKMDLA  120 (164)
T ss_pred             CEEEEEEEECCCHHH-HHHHHHH---Hh--CCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC-CCEEEEEECcccc
Confidence            346789999998532 1111111   11  2458889999986543322   11   1222211 2345789999964

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=96.84  E-value=0.0053  Score=54.12  Aligned_cols=19  Identities=42%  Similarity=0.683  Sum_probs=16.9

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||+...|.
T Consensus         3 v~liG~~~vGKSsL~~~l~   21 (142)
T TIGR02528         3 IMFIGSVGCGKTTLTQALQ   21 (142)
T ss_pred             EEEECCCCCCHHHHHHHHc
Confidence            6788999999999998774

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>cd01861 Rab6 Rab6 subfamily

Probab=96.84  E-value=0.0087  Score=53.62  Aligned_cols=81  Identities=16%  Similarity=0.115  Sum_probs=41.5

Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhhhcC---CeeEEEEcCCCCCCch-
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFNIEI---GITGAILTKLDGDSRG-  338 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~~~~---~i~GvIlnKvD~~~~~-  338 (481)
                      +.+.++||||... .....   .....  ..+.+++|.|.....+.   ......+....   ...-++.||+|...+. 
T Consensus        49 ~~l~~~D~~G~~~-~~~~~---~~~~~--~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~  122 (161)
T cd01861          49 VRLQLWDTAGQER-FRSLI---PSYIR--DSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQ  122 (161)
T ss_pred             EEEEEEECCCcHH-HHHHH---HHHhc--cCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCc
Confidence            4588999999642 11111   11222  34678899998654322   22222222111   2355889999973321 


Q ss_pred             ---hHHHHHHHHhCCCe
Q 011624          339 ---GAALSVKEVSGKPI  352 (481)
Q Consensus       339 ---g~~~~~~~~~glPV  352 (481)
                         ..........+.++
T Consensus       123 ~~~~~~~~~~~~~~~~~  139 (161)
T cd01861         123 VSTEEGEKKAKELNAMF  139 (161)
T ss_pred             cCHHHHHHHHHHhCCEE
Confidence               22334444555555

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

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=96.84  E-value=0.054  Score=56.54  Aligned_cols=93  Identities=22%  Similarity=0.268  Sum_probs=53.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcC--CeEEEEeccCCchhHHHHHHHhhhhc-CCCeecCCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQG--KSCMLVAGDVYRPAAIDQLVILGEQV-GVPVYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G--~kVlLId~D~~rp~aidql~~~~~~~-gv~v~~~~~~~~~~~~l~~~l  258 (481)
                      .|..++++|++|+||||++..++..+.+.+  ..+..|+|....... .-+....... +.+.-  .......+......
T Consensus        54 ~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~-~~~~~i~~~l~~~~~~--~~~~~~~~~~~~~~  130 (394)
T PRK00411         54 RPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRY-AIFSEIARQLFGHPPP--SSGLSFDELFDKIA  130 (394)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHH-HHHHHHHHHhcCCCCC--CCCCCHHHHHHHHH
Confidence            345678999999999999999999987764  778888887654211 1111111211 11110  11223344444444


Q ss_pred             HHHHc-CCCcEEEEcCCCCc
Q 011624          259 EEAKK-KNVDVVIVDTAGRL  277 (481)
Q Consensus       259 ~~~~~-~~~D~VIIDt~G~~  277 (481)
                      +.+.. +..-+|+||-...+
T Consensus       131 ~~l~~~~~~~viviDE~d~l  150 (394)
T PRK00411        131 EYLDERDRVLIVALDDINYL  150 (394)
T ss_pred             HHHHhcCCEEEEEECCHhHh
Confidence            44332 33467888887655

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.84  E-value=0.0032  Score=60.58  Aligned_cols=92  Identities=15%  Similarity=0.267  Sum_probs=49.7

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHH--HHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHH--HH
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLA--NYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQI--AK  255 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA--~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~--l~  255 (481)
                      ...+++++++|++|+||||+...++  ..++..|.-|.   ++..+..+.+|+..  ....-..+..+......++  +.
T Consensus        26 ~~~~~~~~itGpNg~GKStlLk~i~~~~~la~~G~~v~---a~~~~~~~~d~i~~--~l~~~~si~~~~S~f~~el~~l~  100 (213)
T cd03281          26 GGGPSIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVP---ADSATIGLVDKIFT--RMSSRESVSSGQSAFMIDLYQVS  100 (213)
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHHHHHHHhCCCeeE---cCCcEEeeeeeeee--eeCCccChhhccchHHHHHHHHH
Confidence            3335899999999999999999988  45666676443   33344444444311  1111111111111111111  22


Q ss_pred             HHHHHHHcCCCcEEEEcCCCCcc
Q 011624          256 QGLEEAKKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       256 ~~l~~~~~~~~D~VIIDt~G~~~  278 (481)
                      .++..  ..+..++|+|-|+..-
T Consensus       101 ~~l~~--~~~~slvllDE~~~gt  121 (213)
T cd03281         101 KALRL--ATRRSLVLIDEFGKGT  121 (213)
T ss_pred             HHHHh--CCCCcEEEeccccCCC
Confidence            22222  3567899999998753

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=96.83  E-value=0.0083  Score=54.79  Aligned_cols=82  Identities=20%  Similarity=0.200  Sum_probs=43.0

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHH---HHHhh--hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AAL---VTTFN--IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~---~~~f~--~~~~i~GvIlnKvD~~~  336 (481)
                      .+++.|+||+|.......+...   ..  ...+.+++|+|.....+.   ...   +....  ..+ ..-+|.||.|...
T Consensus        50 ~~~~~i~Dt~G~~~~~~~~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-p~iiv~nK~Dl~~  123 (170)
T cd04115          50 RIKVQLWDTAGQERFRKSMVQH---YY--RNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEV-PRILVGNKCDLRE  123 (170)
T ss_pred             EEEEEEEeCCChHHHHHhhHHH---hh--cCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCC-CEEEEEECccchh
Confidence            4678999999863211111111   11  234778999998654322   121   12221  122 3458899999642


Q ss_pred             c----hhHHHHHHHHhCCCe
Q 011624          337 R----GGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV  352 (481)
                      .    .......+...+.|+
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~  143 (170)
T cd04115         124 QIQVPTDLAQRFADAHSMPL  143 (170)
T ss_pred             hcCCCHHHHHHHHHHcCCcE
Confidence            2    233344555556665

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. 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

>PRK04213 GTP-binding protein; Provisional

Probab=96.83  E-value=0.02  Score=53.80  Aligned_cols=21  Identities=33%  Similarity=0.545  Sum_probs=18.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..|++.|.+||||||+...|.
T Consensus        10 ~~i~i~G~~~~GKSsLin~l~   30 (201)
T PRK04213         10 PEIVFVGRSNVGKSTLVRELT   30 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            457888999999999998874

>cd04151 Arl1 Arl1 subfamily

Probab=96.83  E-value=0.0059  Score=54.94  Aligned_cols=67  Identities=16%  Similarity=0.149  Sum_probs=36.1

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHh-hh---cCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTF-NI---EIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f-~~---~~~i~GvIlnKvD~~~  336 (481)
                      .+..+.++||||...... ...   ...  ..++.+++|+|+......   ......+ ..   .-.+.-+|+||+|...
T Consensus        41 ~~~~~~i~Dt~G~~~~~~-~~~---~~~--~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~  114 (158)
T cd04151          41 KNLKFQVWDLGGQTSIRP-YWR---CYY--SNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPG  114 (158)
T ss_pred             CCEEEEEEECCCCHHHHH-HHH---HHh--cCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCC
Confidence            356789999999743211 111   111  235788999998654221   1222111 11   1134568999999643

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

>PRK06851 hypothetical protein; Provisional

Probab=96.83  E-value=0.023  Score=59.04  Aligned_cols=43  Identities=23%  Similarity=0.356  Sum_probs=36.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      .+++++.|++|+||||++.+++..+.++|++|.+.-| ++-|+.
T Consensus       214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC-~~dPds  256 (367)
T PRK06851        214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHC-GFDPDS  256 (367)
T ss_pred             ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeC-CCCCCC
Confidence            5789999999999999999999999999999996655 344443

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=96.81  E-value=0.00056  Score=62.34  Aligned_cols=63  Identities=22%  Similarity=0.246  Sum_probs=35.8

Q ss_pred             CCcEEEEcCCCCcccc---HHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCC
Q 011624          265 NVDVVIVDTAGRLQID---KAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKL  332 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d---~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKv  332 (481)
                      ..+++||||||....+   ...+.+.   .  ...+.+++|+++...   .+.....+.........-+|+||+
T Consensus       100 ~~~~~lvDtPG~~~~~~~~~~~~~~~---~--~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nk~  168 (168)
T PF00350_consen  100 LRNLTLVDTPGLNSTNSEHTEITEEY---L--PKADVVIFVVDANQDLTESDMEFLKQMLDPDKSRTIFVLNKA  168 (168)
T ss_dssp             SCSEEEEEEEEBHSSHTTTSHHHHHH---H--STTEEEEEEEETTSTGGGHHHHHHHHHHTTTCSSEEEEEE-G
T ss_pred             ccceEEEeCCccccchhhhHHHHHHh---h--ccCCEEEEEeccCcccchHHHHHHHHHhcCCCCeEEEEEcCC
Confidence            3568999999986432   2333332   2  234788999998442   233333333344444577888884

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.81  E-value=0.0058  Score=56.72  Aligned_cols=83  Identities=20%  Similarity=0.267  Sum_probs=47.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc-CCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD-VYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D-~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      +++++|.+|+|||+++.+++..   .|.++.+++.- ++-....+....|...-+.......   .+.+ +.+.+...  
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~em~~rI~~H~~~R~~~w~t~E---~~~~-l~~~l~~~--   71 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEAFDDEMAERIARHRKRRPAHWRTIE---TPRD-LVSALKEL--   71 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCcCCHHHHHHHHHHHHhCCCCceEee---cHHH-HHHHHHhc--
Confidence            3678999999999999999765   56777777554 3322222233334333332222211   1222 23334332  


Q ss_pred             CCCcEEEEcCCCC
Q 011624          264 KNVDVVIVDTAGR  276 (481)
Q Consensus       264 ~~~D~VIIDt~G~  276 (481)
                      ...++|+|||-+.
T Consensus        72 ~~~~~VLIDclt~   84 (169)
T cd00544          72 DPGDVVLIDCLTL   84 (169)
T ss_pred             CCCCEEEEEcHhH
Confidence            2578999999654

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>cd01860 Rab5_related Rab5-related subfamily

Probab=96.81  E-value=0.0092  Score=53.56  Aligned_cols=20  Identities=25%  Similarity=0.493  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -++++|++|+||||++..|.
T Consensus         3 ki~v~G~~~~GKSsli~~l~   22 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFV   22 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            37788999999999998875

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=96.80  E-value=0.015  Score=59.72  Aligned_cols=20  Identities=30%  Similarity=0.471  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      =|+++|.++|||||+...|.
T Consensus       159 dV~lvG~pnaGKSTLl~~lt  178 (329)
T TIGR02729       159 DVGLVGLPNAGKSTLISAVS  178 (329)
T ss_pred             cEEEEcCCCCCHHHHHHHHh
Confidence            47788999999999998885

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

>cd04125 RabA_like RabA-like subfamily

Probab=96.80  E-value=0.0085  Score=55.73  Aligned_cols=82  Identities=20%  Similarity=0.183  Sum_probs=42.5

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+++.+.||||.... ....   ....  ...+.+++|.|.....+....      +..+.....+.-+|.||.|.... 
T Consensus        48 ~~~~~i~Dt~g~~~~-~~~~---~~~~--~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~  121 (188)
T cd04125          48 IIKLQIWDTNGQERF-RSLN---NSYY--RGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNK  121 (188)
T ss_pred             EEEEEEEECCCcHHH-HhhH---HHHc--cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccc
Confidence            456789999995321 1111   1111  235788999998655432221      22222222345678999996422 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.|+
T Consensus       122 ~v~~~~~~~~~~~~~~~~  139 (188)
T cd04125         122 VVDSNIAKSFCDSLNIPF  139 (188)
T ss_pred             cCCHHHHHHHHHHcCCeE
Confidence               122233444456655

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains 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-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.

>PLN02348 phosphoribulokinase

Probab=96.79  E-value=0.0021  Score=66.91  Aligned_cols=42  Identities=26%  Similarity=0.341  Sum_probs=36.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHc---------------CCeEEEEeccCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQ---------------GKSCMLVAGDVY  222 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~---------------G~kVlLId~D~~  222 (481)
                      ++|.+|.|+|.+||||||++..|+..|...               +..+.+|..|-|
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~Lg~~~~~~~~~~~~~~~l~~~~~~VI~lDDY  103 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVFGGAAKPPKGGNPDSNTLISDTTTVICLDDY  103 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhccCCCccccccccccccCceEEEEcccc
Confidence            467899999999999999999999999754               247889999976

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=96.79  E-value=0.0041  Score=68.43  Aligned_cols=118  Identities=18%  Similarity=0.187  Sum_probs=64.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..|+++|++|+||||++..|.      |.++..+  +.+++.....         .....                  ..
T Consensus       119 lrIvLVGKTGVGKSSLINSIL------Gekvf~v--ss~~~~TTr~---------~ei~~------------------~i  163 (763)
T TIGR00993       119 LNILVLGKSGVGKSATINSIF------GEVKFST--DAFGMGTTSV---------QEIEG------------------LV  163 (763)
T ss_pred             eEEEEECCCCCCHHHHHHHHh------ccccccc--cCCCCCceEE---------EEEEE------------------EE
Confidence            468899999999999999886      4444422  2233321100         00000                  01


Q ss_pred             CCCcEEEEcCCCCcccc------HHHHHHHHhhhhccCCceEEEEEeCc-ch---H--HHHHHH-HHhhhcC-CeeEEEE
Q 011624          264 KNVDVVIVDTAGRLQID------KAMMDELKDVKRVLNPTEVLLVVDAM-TG---Q--EAAALV-TTFNIEI-GITGAIL  329 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d------~~~~~el~~i~~~~~p~~vvLVvda~-~~---~--~~~~~~-~~f~~~~-~i~GvIl  329 (481)
                      .+..+.||||||.....      .....++...+....++.+++|.... ..   .  .++..+ ..|.+.+ .-.-|++
T Consensus       164 dG~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVF  243 (763)
T TIGR00993       164 QGVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTL  243 (763)
T ss_pred             CCceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEE
Confidence            34569999999987542      12333344444434567677776532 11   1  223333 3344332 4466889


Q ss_pred             cCCCCCC
Q 011624          330 TKLDGDS  336 (481)
Q Consensus       330 nKvD~~~  336 (481)
                      |+-|...
T Consensus       244 ThgD~lp  250 (763)
T TIGR00993       244 THAASAP  250 (763)
T ss_pred             eCCccCC
Confidence            9998653

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>TIGR01448 recD_rel helicase, putative, RecD/TraA family

Probab=96.79  E-value=0.0064  Score=68.85  Aligned_cols=109  Identities=28%  Similarity=0.378  Sum_probs=62.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcC--CeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCC--CHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQG--KSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEV--KPSQIAKQGLE  259 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G--~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~--~~~~~l~~~l~  259 (481)
                      ++++++|.+|+||||++..+...+...|  .+|.+ .+-+-+++.     ...+..|.+.......+  .+........+
T Consensus       339 ~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l-~ApTg~AA~-----~L~e~~g~~a~Tih~lL~~~~~~~~~~~~~  412 (720)
T TIGR01448       339 KVVILTGGPGTGKTTITRAIIELAEELGGLLPVGL-AAPTGRAAK-----RLGEVTGLTASTIHRLLGYGPDTFRHNHLE  412 (720)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEE-EeCchHHHH-----HHHHhcCCccccHHHHhhccCCccchhhhh
Confidence            4899999999999999999999888877  66664 444444331     22333444332211100  00000000000


Q ss_pred             HHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccC-CceEEEEEeC
Q 011624          260 EAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN-PTEVLLVVDA  305 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~-p~~vvLVvda  305 (481)
                        ....+|++|||=+++++  ..++..+.   ..+. ...++||-|.
T Consensus       413 --~~~~~~llIvDEaSMvd--~~~~~~Ll---~~~~~~~rlilvGD~  452 (720)
T TIGR01448       413 --DPIDCDLLIVDESSMMD--TWLALSLL---AALPDHARLLLVGDT  452 (720)
T ss_pred             --ccccCCEEEEeccccCC--HHHHHHHH---HhCCCCCEEEEECcc
Confidence              01368999999999874  44555543   3333 2456777775

This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.

>PRK04040 adenylate kinase; Provisional

Probab=96.79  E-value=0.0016  Score=61.46  Aligned_cols=32  Identities=38%  Similarity=0.516  Sum_probs=26.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEE
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCM  215 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVl  215 (481)
                      |.+|+++|.+|+||||++..|+..|. .+.+++
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~-~~~~~~   33 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLK-EDYKIV   33 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhc-cCCeEE
Confidence            57899999999999999999998774 245543

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=96.77  E-value=0.01  Score=55.18  Aligned_cols=21  Identities=33%  Similarity=0.485  Sum_probs=18.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-++++|.+|+||||+...|.
T Consensus        25 ~~v~ivG~~~~GKSsli~~l~   45 (196)
T PRK00454         25 PEIAFAGRSNVGKSSLINALT   45 (196)
T ss_pred             CEEEEEcCCCCCHHHHHHHHh
Confidence            357888999999999999886

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

Probab=96.77  E-value=0.028  Score=63.91  Aligned_cols=81  Identities=22%  Similarity=0.349  Sum_probs=48.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch-hHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP-AAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp-~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ..++|+||+|||||+++..||..+   +.++.-+|+..|.. .....+      .|-+.-..  ..+....+.+.+   +
T Consensus       485 ~~~lf~Gp~GvGKT~lA~~la~~l---~~~~~~~d~se~~~~~~~~~l------ig~~~gyv--g~~~~~~l~~~~---~  550 (731)
T TIGR02639       485 GSFLFTGPTGVGKTELAKQLAEAL---GVHLERFDMSEYMEKHTVSRL------IGAPPGYV--GFEQGGLLTEAV---R  550 (731)
T ss_pred             eeEEEECCCCccHHHHHHHHHHHh---cCCeEEEeCchhhhcccHHHH------hcCCCCCc--ccchhhHHHHHH---H
Confidence            468899999999999999999887   56677677655531 111111      12211001  112222333333   3


Q ss_pred             cCCCcEEEEcCCCCcc
Q 011624          263 KKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~  278 (481)
                      ...+.++++|-....+
T Consensus       551 ~~p~~VvllDEieka~  566 (731)
T TIGR02639       551 KHPHCVLLLDEIEKAH  566 (731)
T ss_pred             hCCCeEEEEechhhcC
Confidence            3678999999976654

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=96.76  E-value=0.006  Score=69.33  Aligned_cols=112  Identities=20%  Similarity=0.293  Sum_probs=59.4

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      .+|.+|++.|..++||||++..|-      +.+|.  +.. + ++       .....+  .+..                
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~~Lr------~~~v~--~~e-~-~G-------IT~~ig--a~~v----------------  332 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLDAIR------KTNVA--AGE-A-GG-------ITQHIG--AYQV----------------  332 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHH------hCCcc--ccc-c-Cc-------eeeecc--EEEE----------------
Confidence            466789999999999999997773      22221  100 0 00       000011  1100                


Q ss_pred             HHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHh-hhcCCeeEEEEcCCCCC
Q 011624          261 AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTF-NIEIGITGAILTKLDGD  335 (481)
Q Consensus       261 ~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f-~~~~~i~GvIlnKvD~~  335 (481)
                       ...++.+.|+||||....    .......  ....|.++||+|+..+  ......+... ...++ .-|++||+|..
T Consensus       333 -~~~~~~ItfiDTPGhe~F----~~m~~rg--a~~aDiaILVVdAddGv~~qT~e~i~~a~~~~vP-iIVviNKiDl~  402 (787)
T PRK05306        333 -ETNGGKITFLDTPGHEAF----TAMRARG--AQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVP-IIVAINKIDKP  402 (787)
T ss_pred             -EECCEEEEEEECCCCccc----hhHHHhh--hhhCCEEEEEEECCCCCCHhHHHHHHHHHhcCCc-EEEEEECcccc
Confidence             123567899999997532    1111111  2234788999998543  1222222211 12234 45889999974

>cd04122 Rab14 Rab14 subfamily

Probab=96.75  E-value=0.012  Score=53.38  Aligned_cols=82  Identities=18%  Similarity=0.170  Sum_probs=43.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHH---HhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVT---TFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~---~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|.||||.... ....   ....  -..+.+++|.|.+...+..   ..+.   .....-.+.-+|.||.|.... 
T Consensus        50 ~~~l~i~Dt~G~~~~-~~~~---~~~~--~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~  123 (166)
T cd04122          50 KIKLQIWDTAGQERF-RAVT---RSYY--RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQR  123 (166)
T ss_pred             EEEEEEEECCCcHHH-HHHH---HHHh--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc
Confidence            467889999986321 1111   1111  2357889999986543322   2121   121111235578999996432 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.++
T Consensus       124 ~~~~~~~~~~~~~~~~~~  141 (166)
T cd04122         124 DVTYEEAKQFADENGLLF  141 (166)
T ss_pred             CcCHHHHHHHHHHcCCEE
Confidence               233444555556655

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

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.74  E-value=0.0041  Score=62.18  Aligned_cols=40  Identities=30%  Similarity=0.484  Sum_probs=29.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +...|+++|++|||||||.+++..++-+.-.+..+-==||
T Consensus       124 ~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIEDP  163 (353)
T COG2805         124 PRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIEDP  163 (353)
T ss_pred             CCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEecCc
Confidence            3458999999999999999999999876544333333343

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=96.74  E-value=0.0052  Score=65.30  Aligned_cols=24  Identities=21%  Similarity=0.192  Sum_probs=20.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANY  206 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~  206 (481)
                      ...++++|+.++||||++..|...
T Consensus         7 ~~~v~i~Ghvd~GKSTL~~~ll~~   30 (426)
T TIGR00483         7 HINVAFIGHVDHGKSTTVGHLLYK   30 (426)
T ss_pred             eeEEEEEeccCCcHHHHHHHHHHH
Confidence            345788999999999999988753

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.73  E-value=0.022  Score=58.77  Aligned_cols=35  Identities=29%  Similarity=0.536  Sum_probs=27.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEE
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLV  217 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLI  217 (481)
                      ..+++++|++|+||||+...|..++.+. +.+|..+
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~ti  157 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITI  157 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEE
Confidence            3589999999999999999998877643 4555533

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.73  E-value=0.008  Score=53.93  Aligned_cols=84  Identities=18%  Similarity=0.136  Sum_probs=44.9

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---HHHHh---hhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---LVTTF---NIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~~~~f---~~~~~i~GvIlnKvD~~~~-  337 (481)
                      ..++.|+||||... .......   ..  ...+.+++|.|.....+...   ....+   ...++ .-+|.||+|...+ 
T Consensus        50 ~~~~~i~D~~G~~~-~~~~~~~---~~--~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~~p-~iiv~nK~Dl~~~~  122 (162)
T cd04106          50 DVRLMLWDTAGQEE-FDAITKA---YY--RGAQACILVFSTTDRESFEAIESWKEKVEAECGDIP-MVLVQTKIDLLDQA  122 (162)
T ss_pred             EEEEEEeeCCchHH-HHHhHHH---Hh--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC-EEEEEEChhccccc
Confidence            46789999999632 1111111   11  23477888888855432221   11112   22333 3488999996432 


Q ss_pred             ---hhHHHHHHHHhCCCeEEe
Q 011624          338 ---GGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~~i  355 (481)
                         ...+..+....+.|+..+
T Consensus       123 ~v~~~~~~~~~~~~~~~~~~~  143 (162)
T cd04106         123 VITNEEAEALAKRLQLPLFRT  143 (162)
T ss_pred             CCCHHHHHHHHHHcCCeEEEE
Confidence               223445566677776433

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

>cd01863 Rab18 Rab18 subfamily

Probab=96.73  E-value=0.014  Score=52.42  Aligned_cols=84  Identities=20%  Similarity=0.252  Sum_probs=44.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhhhcCC-eeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFNIEIG-ITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~~~~~-i~GvIlnKvD~~~~  337 (481)
                      .+++.++||||... .......   ..+  ..+.+++|+|.....+....      +..+....+ ..-+|.||.|....
T Consensus        48 ~~~~~l~D~~g~~~-~~~~~~~---~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~  121 (161)
T cd01863          48 KVKLAIWDTAGQER-FRTLTSS---YYR--GAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENR  121 (161)
T ss_pred             EEEEEEEECCCchh-hhhhhHH---HhC--CCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccccc
Confidence            46789999999532 1111111   111  35788999998654332221      222221111 24578899996522


Q ss_pred             ---hhHHHHHHHHhCCCeEE
Q 011624          338 ---GGAALSVKEVSGKPIKL  354 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~~  354 (481)
                         ...........+.|+..
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~  141 (161)
T cd01863         122 EVTREEGLKFARKHNMLFIE  141 (161)
T ss_pred             ccCHHHHHHHHHHcCCEEEE
Confidence               23344555556666643

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. 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 mos

>PRK06547 hypothetical protein; Provisional

Probab=96.73  E-value=0.0017  Score=60.47  Aligned_cols=38  Identities=32%  Similarity=0.333  Sum_probs=30.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .++.+|++.|++||||||++..|+..+     .+.+++.|.|-
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~-----~~~~~~~d~~~   50 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAART-----GFQLVHLDDLY   50 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh-----CCCeeccccee
Confidence            357899999999999999999998763     35566777653

>PRK01184 hypothetical protein; Provisional

Probab=96.72  E-value=0.02  Score=53.18  Aligned_cols=34  Identities=35%  Similarity=0.622  Sum_probs=23.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe-ccCCc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA-GDVYR  223 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId-~D~~r  223 (481)
                      .+|+++|++|+||||++ .+   +.+.|..+.  + .|..|
T Consensus         2 ~~i~l~G~~GsGKsT~a-~~---~~~~g~~~i--~~~d~lr   36 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFS-KI---AREMGIPVV--VMGDVIR   36 (184)
T ss_pred             cEEEEECCCCCCHHHHH-HH---HHHcCCcEE--EhhHHHH
Confidence            48899999999999975 34   345576653  4 35444

>cd01893 Miro1 Miro1 subfamily

Probab=96.71  E-value=0.0064  Score=55.34  Aligned_cols=66  Identities=18%  Similarity=0.135  Sum_probs=37.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH-------HHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA-------LVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~-------~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .++++.|+||||..........    ..  ...+.+++|+|.....+...       .++...... ..-+|.||+|...
T Consensus        45 ~~~~~~i~Dt~G~~~~~~~~~~----~~--~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~-pviiv~nK~Dl~~  117 (166)
T cd01893          45 ERVPTTIVDTSSRPQDRANLAA----EI--RKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKV-PIILVGNKSDLRD  117 (166)
T ss_pred             CeEEEEEEeCCCchhhhHHHhh----hc--ccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCC-CEEEEEEchhccc
Confidence            4578999999987532211111    11  23477889999865543322       122222223 3457889999643

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=96.71  E-value=0.027  Score=53.60  Aligned_cols=49  Identities=27%  Similarity=0.341  Sum_probs=39.8

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc-hh
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR-PA  225 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r-p~  225 (481)
                      .+......|..+-|++|+||||+..-||..|.-..-+|.+-.+|+.| |.
T Consensus        22 SF~ae~Gei~GlLG~NGAGKTT~LRmiatlL~P~~G~v~idg~d~~~~p~   71 (245)
T COG4555          22 SFEAEEGEITGLLGENGAGKTTLLRMIATLLIPDSGKVTIDGVDTVRDPS   71 (245)
T ss_pred             eEEeccceEEEEEcCCCCCchhHHHHHHHhccCCCceEEEeecccccChH
Confidence            34445678999999999999999999998887555578888888877 44

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=96.71  E-value=0.013  Score=64.05  Aligned_cols=122  Identities=25%  Similarity=0.330  Sum_probs=74.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCC--eEEEEeccCCchhHHHHHHHhhhhcCCCeec--------CC-----C-
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGK--SCMLVAGDVYRPAAIDQLVILGEQVGVPVYT--------AG-----T-  246 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~--kVlLId~D~~rp~aidql~~~~~~~gv~v~~--------~~-----~-  246 (481)
                      ..||+++|-+|+||||-.   +.+|-..|+  +=.+.+.-|.|.+++.-.+..++.+|+++-.        .+     + 
T Consensus       371 n~vvvivgETGSGKTTQl---~QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGYsIRFEdvT~~~T~  447 (1042)
T KOG0924|consen  371 NQVVVIVGETGSGKTTQL---AQYLYEDGYADNGMIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYSIRFEDVTSEDTK  447 (1042)
T ss_pred             CcEEEEEecCCCCchhhh---HHHHHhcccccCCeeeecCchHHHHHHHHHHHHHHhCCccccccceEEEeeecCCCcee
Confidence            469999999999999964   566666553  4466777788888887777777766543210        00     0 


Q ss_pred             --CCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHH-HHHHHHhhhhccCCceEEEEEeCcch
Q 011624          247 --EVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKA-MMDELKDVKRVLNPTEVLLVVDAMTG  308 (481)
Q Consensus       247 --~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~-~~~el~~i~~~~~p~~vvLVvda~~~  308 (481)
                        ++...-++++.+.......|.+||+|-+---..+.. ++.-+..++.- ..+--++|..|++.
T Consensus       448 IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~lar-RrdlKliVtSATm~  511 (1042)
T KOG0924|consen  448 IKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVLAR-RRDLKLIVTSATMD  511 (1042)
T ss_pred             EEEeccchHHHHHhhhhhhhheeEEEechhhhcccchHHHHHHHHHHHHh-hccceEEEeecccc
Confidence              122223456666554446799999999843222333 33333333332 23556788888543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=96.71  E-value=0.1  Score=53.85  Aligned_cols=106  Identities=23%  Similarity=0.330  Sum_probs=57.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc----C--CeEEEEeccCCchhHHHHHHHhhhhc---CCCeecCCCCCCHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ----G--KSCMLVAGDVYRPAAIDQLVILGEQV---GVPVYTAGTEVKPSQ  252 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~----G--~kVlLId~D~~rp~aidql~~~~~~~---gv~v~~~~~~~~~~~  252 (481)
                      .+..++++|++|+|||+++..++..+.+.    |  ..+..++|...+... +.+.......   +..+-.  ......+
T Consensus        39 ~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~-~~~~~i~~~l~~~~~~~~~--~~~~~~~  115 (365)
T TIGR02928        39 RPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLY-QVLVELANQLRGSGEEVPT--TGLSTSE  115 (365)
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHH-HHHHHHHHHHhhcCCCCCC--CCCCHHH
Confidence            35578999999999999999999888642    2  467777776554211 1111112222   332211  1122233


Q ss_pred             HHHHHHHHHHc-CCCcEEEEcCCCCccc-cHHHHHHHHhh
Q 011624          253 IAKQGLEEAKK-KNVDVVIVDTAGRLQI-DKAMMDELKDV  290 (481)
Q Consensus       253 ~l~~~l~~~~~-~~~D~VIIDt~G~~~~-d~~~~~el~~i  290 (481)
                      ........+.. ...-++|||-...+.. +...+.++..+
T Consensus       116 ~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~  155 (365)
T TIGR02928       116 VFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRA  155 (365)
T ss_pred             HHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhcc
Confidence            33333343321 3345788998876632 23445555444

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.

>PHA00729 NTP-binding motif containing protein

Probab=96.70  E-value=0.0023  Score=61.97  Aligned_cols=25  Identities=36%  Similarity=0.405  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      .-|+++|++|+||||+|.+|+..+.
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3688899999999999999998764

>CHL00189 infB translation initiation factor 2; Provisional

Probab=96.69  E-value=0.0046  Score=69.71  Aligned_cols=24  Identities=33%  Similarity=0.566  Sum_probs=20.5

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .++.+|++.|..|+||||++-.|.
T Consensus       242 ~r~p~V~IvGhvdvGKTSLld~L~  265 (742)
T CHL00189        242 NRPPIVTILGHVDHGKTTLLDKIR  265 (742)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHH
Confidence            356789999999999999997774

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=96.69  E-value=0.0077  Score=62.35  Aligned_cols=37  Identities=38%  Similarity=0.662  Sum_probs=31.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHH--HHcCCeEEEEecc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYL--KKQGKSCMLVAGD  220 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L--~~~G~kVlLId~D  220 (481)
                      .+++|.|.+|+|||.++..|+..+  ...+.++.++...
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n   40 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGN   40 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEec
Confidence            588999999999999999999999  6677777766554

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.68  E-value=0.033  Score=64.15  Aligned_cols=39  Identities=28%  Similarity=0.464  Sum_probs=30.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..++++||+|+|||+++..||..|-..+..+.-+|+.-|
T Consensus       540 ~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~  578 (821)
T CHL00095        540 ASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEY  578 (821)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhc
Confidence            457789999999999999999988655556665665444

>cd04149 Arf6 Arf6 subfamily

Probab=96.68  E-value=0.0089  Score=54.83  Aligned_cols=66  Identities=17%  Similarity=0.166  Sum_probs=36.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhhh----cCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFNI----EIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~~----~~~i~GvIlnKvD~~  335 (481)
                      .++.+.|.||||.... ..+...   .  ....+.+++|+|++...+..   ..+..+..    .-.+.-+|.||+|..
T Consensus        51 ~~~~~~l~Dt~G~~~~-~~~~~~---~--~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  123 (168)
T cd04149          51 KNVKFNVWDVGGQDKI-RPLWRH---Y--YTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLP  123 (168)
T ss_pred             CCEEEEEEECCCCHHH-HHHHHH---H--hccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCc
Confidence            3567899999997421 111111   1  12357889999986543222   22222211    112355889999964

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>cd03113 CTGs CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain

Probab=96.68  E-value=0.11  Score=50.69  Aligned_cols=161  Identities=20%  Similarity=0.265  Sum_probs=92.2

Q ss_pred             EEEEE-cC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc---hhHHHHHHHhhh------------------------
Q 011624          185 VILLA-GL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR---PAAIDQLVILGE------------------------  235 (481)
Q Consensus       185 VI~i~-G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r---p~aidql~~~~~------------------------  235 (481)
                      .|.++ |. +|.||-.+++.|+..|+.+|++|..+-.|||=   |+...+. .|++                        
T Consensus         2 yi~vtGgv~s~lgkgi~~as~g~ll~~~g~~v~~~K~DpYlNvd~GtmsP~-~HGEvfVt~DG~E~DlDlG~YERfl~~~   80 (255)
T cd03113           2 YIFVTGGVVSSLGKGITAASLGRLLKARGLKVTAQKLDPYLNVDPGTMSPY-QHGEVFVTDDGAETDLDLGHYERFLDTN   80 (255)
T ss_pred             EEEEeCCcccCcchHHHHHHHHHHHHHCCCeEEEEeecccccCCCCCCCCc-cceeEEEccCCCcccccccchhhhcCCC
Confidence            35555 44 99999999999999999999999999999983   3321111 1111                        


Q ss_pred             ------------------------hcCCCeecCCCCCCHHHHHHHHHHHHH-cCCCcEEEEcCCCCccc--cHHHHHHHH
Q 011624          236 ------------------------QVGVPVYTAGTEVKPSQIAKQGLEEAK-KKNVDVVIVDTAGRLQI--DKAMMDELK  288 (481)
Q Consensus       236 ------------------------~~gv~v~~~~~~~~~~~~l~~~l~~~~-~~~~D~VIIDt~G~~~~--d~~~~~el~  288 (481)
                                              .+|-.+-...   .-.+.+++.+..+. ..++|++|++-.|....  ..-.++.+.
T Consensus        81 l~~~~niTtGkiy~~vi~kER~G~ylG~TVQviP---Hit~eIk~~i~~~~~~~~~dv~i~EiGGTvGDiEs~pf~EAir  157 (255)
T cd03113          81 LSRDNNITTGKIYSSVIEKERRGDYLGKTVQVIP---HITDEIKERIRRVAEKSGADVVIVEIGGTVGDIESLPFLEAIR  157 (255)
T ss_pred             CcCccCcChHHHHHHHHHHhhccCccCceEEECc---CccHHHHHHHHHhhccCCCCEEEEEeCCccccccccHHHHHHH
Confidence                                    1111110000   00112334444432 35899999988776543  234566666


Q ss_pred             hhhhccCCceEEEE-------EeCc------chHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCe
Q 011624          289 DVKRVLNPTEVLLV-------VDAM------TGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPI  352 (481)
Q Consensus       289 ~i~~~~~p~~vvLV-------vda~------~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV  352 (481)
                      ++........++++       +.+.      ..|-.++.++.+  .+.+.++|+|--+ .........+..-+++|+
T Consensus       158 q~~~~~g~~n~~~ihvt~vp~~~~~gE~KTKPtQhSVeaLRs~--GIqPDgIVcRse~-pL~e~~keKIAlFcnVpv  231 (255)
T cd03113         158 QMKLELGRENVLFIHVTLVPYLKAAGELKTKPTQHSVKELRSI--GIQPDILVCRSEK-PLPPEIREKIALFCDVPP  231 (255)
T ss_pred             HHHHHhCcCcEEEEEEeeeeeecCCCccccCchHHHHHHHHhC--CCCCCEEEEeCCC-CCchHHHHHHHHhcCCCH
Confidence            66665544443322       1221      114445555544  4778999999832 222333345666788887

The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent ammonia to the acceptor substrate at the synthetase domain to form an aminated product. Glutaminase domains have evolved from the same ancestor, whereas the synthetase domains are evolutionarily unrelated and have different functions. This protein family is classified based on the N-terminal synthetase domain.

>cd04142 RRP22 RRP22 subfamily

Probab=96.68  E-value=0.0067  Score=57.54  Aligned_cols=19  Identities=32%  Similarity=0.604  Sum_probs=16.8

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |++.|.+||||||++..+.
T Consensus         3 I~ivG~~~vGKTsLi~~~~   21 (198)
T cd04142           3 VAVLGAPGVGKTAIVRQFL   21 (198)
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            6788999999999998775

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. 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. Like most Ras family proteins, RRP22 is farnesylated.

>cd04114 Rab30 Rab30 subfamily

Probab=96.67  E-value=0.0062  Score=55.13  Aligned_cols=21  Identities=38%  Similarity=0.569  Sum_probs=18.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-++++|.+||||||+...+.
T Consensus         8 ~~v~v~G~~~~GKSsli~~l~   28 (169)
T cd04114           8 FKIVLIGNAGVGKTCLVRRFT   28 (169)
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            468889999999999998875

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=96.66  E-value=0.017  Score=63.92  Aligned_cols=111  Identities=24%  Similarity=0.253  Sum_probs=59.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      +|+++|..++||||++.+|.      |..     .|.+...         ...|+.+-.....             +...
T Consensus         2 ~I~iiG~~d~GKTTLi~aLt------g~~-----~d~~~eE---------~~rGiTid~~~~~-------------~~~~   48 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALT------GIA-----ADRLPEE---------KKRGMTIDLGFAY-------------FPLP   48 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHh------Ccc-----CcCChhH---------hcCCceEEeEEEE-------------EEeC
Confidence            67889999999999998885      322     2332110         0112211100000             0113


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHH--HHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEA--AALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~--~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ++.+.|+||||.-.    +...+  +......+.+++|+|+..+   +..  ...+..+  .++-.-|++||+|...
T Consensus        49 ~~~v~~iDtPGhe~----f~~~~--~~g~~~aD~aILVVDa~~G~~~qT~ehl~il~~l--gi~~iIVVlNK~Dlv~  117 (581)
T TIGR00475        49 DYRLGFIDVPGHEK----FISNA--IAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLL--GIPHTIVVITKADRVN  117 (581)
T ss_pred             CEEEEEEECCCHHH----HHHHH--HhhhccCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCeEEEEEECCCCCC
Confidence            46789999999532    22222  1222345889999999643   221  2222222  2332457899999754

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=96.66  E-value=0.009  Score=63.98  Aligned_cols=91  Identities=21%  Similarity=0.268  Sum_probs=59.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK--QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~--~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      -+++.|++|+|||+++.+++.++.+  .|.+|.++.++-|-....+.+..     +            .+.+.+....+ 
T Consensus       143 pl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~-----~------------~~~~~~~~~~~-  204 (450)
T PRK14087        143 PLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQK-----T------------HKEIEQFKNEI-  204 (450)
T ss_pred             ceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHH-----h------------hhHHHHHHHHh-
Confidence            3788999999999999999998864  47999988887654333332211     0            01122233333 


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhcc
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL  294 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~  294 (481)
                       ..+|++|||-.+..........++-.+.+..
T Consensus       205 -~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~  235 (450)
T PRK14087        205 -CQNDVLIIDDVQFLSYKEKTNEIFFTIFNNF  235 (450)
T ss_pred             -ccCCEEEEeccccccCCHHHHHHHHHHHHHH
Confidence             5789999999987765445555555555543

>cd04123 Rab21 Rab21 subfamily

Probab=96.66  E-value=0.011  Score=52.55  Aligned_cols=83  Identities=17%  Similarity=0.085  Sum_probs=42.8

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---H---HHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---A---LVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~---~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      ...+.++||||... ...+...   ..  ...+.+++|+|........   .   .+..+...-...-+++||.|.... 
T Consensus        48 ~~~~~~~D~~g~~~-~~~~~~~---~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~  121 (162)
T cd04123          48 RIDLAIWDTAGQER-YHALGPI---YY--RDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQR  121 (162)
T ss_pred             EEEEEEEECCchHH-HHHhhHH---Hh--ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc
Confidence            34688999999632 1111111   11  2347889999986553321   1   112222221235578999996432 


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+.......+.++.
T Consensus       122 ~~~~~~~~~~~~~~~~~~~  140 (162)
T cd04123         122 VVSKSEAEEYAKSVGAKHF  140 (162)
T ss_pred             CCCHHHHHHHHHHcCCEEE
Confidence               2233444555666663

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

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.66  E-value=0.011  Score=64.40  Aligned_cols=28  Identities=25%  Similarity=0.342  Sum_probs=23.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      ++..++++|++|+||||++.-|+..+.-
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~~~p  387 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGLLDP  387 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            4568999999999999999888765543

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.66  E-value=0.026  Score=52.77  Aligned_cols=106  Identities=19%  Similarity=0.271  Sum_probs=53.2

Q ss_pred             ccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc-CC---chhHHHHHHHhhhhcCCCeecCC---CCCCH
Q 011624          178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD-VY---RPAAIDQLVILGEQVGVPVYTAG---TEVKP  250 (481)
Q Consensus       178 ~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D-~~---rp~aidql~~~~~~~gv~v~~~~---~~~~~  250 (481)
                      +.-.++.++++.|++|+||||+...+.   ...|. |.+..-+ .+   +..+..|. .+.+..++.-...+   ..+..
T Consensus        16 l~i~~G~~~~l~G~nG~GKSTLl~~il---~~~G~-v~~~~~~~~~~~~~~~~~~q~-~~l~~~~L~~~~~~~~~~~LSg   90 (176)
T cd03238          16 VSIPLNVLVVVTGVSGSGKSTLVNEGL---YASGK-ARLISFLPKFSRNKLIFIDQL-QFLIDVGLGYLTLGQKLSTLSG   90 (176)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHh---hcCCc-EEECCcccccccccEEEEhHH-HHHHHcCCCccccCCCcCcCCH
Confidence            344466799999999999999997663   23443 3322111 11   11223332 22233343211111   12233


Q ss_pred             HHHHHHHHHHHHcCC--CcEEEEcCCCCccccHHHHHHHHh
Q 011624          251 SQIAKQGLEEAKKKN--VDVVIVDTAGRLQIDKAMMDELKD  289 (481)
Q Consensus       251 ~~~l~~~l~~~~~~~--~D~VIIDt~G~~~~d~~~~~el~~  289 (481)
                      .+.-+-++..+...+  .+++|+|-|-.. .|......+.+
T Consensus        91 Gq~qrl~laral~~~~~p~llLlDEPt~~-LD~~~~~~l~~  130 (176)
T cd03238          91 GELQRVKLASELFSEPPGTLFILDEPSTG-LHQQDINQLLE  130 (176)
T ss_pred             HHHHHHHHHHHHhhCCCCCEEEEeCCccc-CCHHHHHHHHH
Confidence            333333444444456  899999998553 34444444333

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=96.66  E-value=0.072  Score=56.38  Aligned_cols=140  Identities=22%  Similarity=0.262  Sum_probs=74.4

Q ss_pred             HHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCC
Q 011624          160 IVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV  239 (481)
Q Consensus       160 ~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv  239 (481)
                      .+.+++.+++......-..  ..+.-++++|+|.||||++...|+      |...++|+-=   |+..           .
T Consensus       196 ~~~~~l~~ll~~~~~g~il--r~G~kvvIiG~PNvGKSSLLNaL~------~~d~AIVTdI---~GTT-----------R  253 (454)
T COG0486         196 ELIAELDELLATAKQGKIL--REGLKVVIIGRPNVGKSSLLNALL------GRDRAIVTDI---AGTT-----------R  253 (454)
T ss_pred             HHHHHHHHHHHhhhhhhhh--hcCceEEEECCCCCcHHHHHHHHh------cCCceEecCC---CCCc-----------c
Confidence            3455666665432211000  234578889999999999998887      5555544321   1210           1


Q ss_pred             CeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHH--HHhh-hhccCCceEEEEEeCcch--HHHHHH
Q 011624          240 PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDE--LKDV-KRVLNPTEVLLVVDAMTG--QEAAAL  314 (481)
Q Consensus       240 ~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~e--l~~i-~~~~~p~~vvLVvda~~~--~~~~~~  314 (481)
                      +++...               +.-+++.+-|+||+|.=..+. ..+.  +.+. ...-..+-+++|+|++..  ..-...
T Consensus       254 Dviee~---------------i~i~G~pv~l~DTAGiRet~d-~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~~  317 (454)
T COG0486         254 DVIEED---------------INLNGIPVRLVDTAGIRETDD-VVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLAL  317 (454)
T ss_pred             ceEEEE---------------EEECCEEEEEEecCCcccCcc-HHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHHH
Confidence            121110               012678899999999754421 1111  1111 111235889999999653  222222


Q ss_pred             HHHhhhcCCeeEEEEcCCCCCCch
Q 011624          315 VTTFNIEIGITGAILTKLDGDSRG  338 (481)
Q Consensus       315 ~~~f~~~~~i~GvIlnKvD~~~~~  338 (481)
                      .. ..+.-...-+|+||.|.....
T Consensus       318 ~~-~~~~~~~~i~v~NK~DL~~~~  340 (454)
T COG0486         318 IE-LLPKKKPIIVVLNKADLVSKI  340 (454)
T ss_pred             HH-hcccCCCEEEEEechhccccc
Confidence            22 222223345899999976543

>cd00157 Rho Rho (Ras homology) family

Probab=96.65  E-value=0.0031  Score=57.05  Aligned_cols=65  Identities=22%  Similarity=0.190  Sum_probs=35.7

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHH-------HhhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVT-------TFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~-------~f~~~~~i~GvIlnKvD~~  335 (481)
                      ..+.+.++||||.....     .+... .....+.+++|+|.....+......       .+... ...-+|.||.|..
T Consensus        46 ~~~~l~~~D~~g~~~~~-----~~~~~-~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~-~p~ivv~nK~Dl~  117 (171)
T cd00157          46 KQVNLGLWDTAGQEEYD-----RLRPL-SYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPN-VPIILVGTKIDLR  117 (171)
T ss_pred             EEEEEEEEeCCCccccc-----ccchh-hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCC-CCEEEEEccHHhh
Confidence            35678999999965321     11111 1123477899999865443332221       12222 2345889999954

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho 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 Rho protein

>PLN00223 ADP-ribosylation factor; Provisional

Probab=96.65  E-value=0.017  Score=53.85  Aligned_cols=80  Identities=18%  Similarity=0.212  Sum_probs=41.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHh-hh---cCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTF-NI---EIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f-~~---~~~i~GvIlnKvD~~~  336 (481)
                      ++..+.|.|+||.... ..+...   .  ....+.+++|+|++...+..   ..+..+ ..   .-.+.-++.||+|...
T Consensus        59 ~~~~~~i~D~~Gq~~~-~~~~~~---~--~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~  132 (181)
T PLN00223         59 KNISFTVWDVGGQDKI-RPLWRH---Y--FQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN  132 (181)
T ss_pred             CCEEEEEEECCCCHHH-HHHHHH---H--hccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCC
Confidence            4567899999996321 111111   1  12357889999996543322   222222 11   1123568899999643


Q ss_pred             chhHHHHHHHHhCC
Q 011624          337 RGGAALSVKEVSGK  350 (481)
Q Consensus       337 ~~g~~~~~~~~~gl  350 (481)
                      .. ....+.+..++
T Consensus       133 ~~-~~~~~~~~l~l  145 (181)
T PLN00223        133 AM-NAAEITDKLGL  145 (181)
T ss_pred             CC-CHHHHHHHhCc
Confidence            32 22334444444

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.63  E-value=0.025  Score=53.48  Aligned_cols=120  Identities=18%  Similarity=0.146  Sum_probs=64.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC-----CCHH---HHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE-----VKPS---QIAK  255 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~-----~~~~---~~l~  255 (481)
                      ..+.+.+.+|-||||.+..+|.....+|++|.++--=--...+-+ ........++.+...+..     .++.   ..++
T Consensus        23 g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE-~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~~  101 (191)
T PRK05986         23 GLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGE-RNLLEFGGGVEFHVMGTGFTWETQDRERDIAAAR  101 (191)
T ss_pred             CeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCH-HHHHhcCCCcEEEECCCCCcccCCCcHHHHHHHH
Confidence            467777889999999999999999999999998753221111111 112222224444433321     1111   1222


Q ss_pred             HHH----HHHHcCCCcEEEEcCCCCc-cccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          256 QGL----EEAKKKNVDVVIVDTAGRL-QIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       256 ~~l----~~~~~~~~D~VIIDt~G~~-~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +++    +.+..+.||++|+|--... ..+--..+++.+++.. .|..+-+|+-.
T Consensus       102 ~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~-rp~~~evVlTG  155 (191)
T PRK05986        102 EGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNA-RPGMQHVVITG  155 (191)
T ss_pred             HHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHc-CCCCCEEEEEC
Confidence            333    3334578999999985322 1111123344444443 34444555444

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=96.63  E-value=0.011  Score=65.41  Aligned_cols=23  Identities=30%  Similarity=0.530  Sum_probs=19.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +|.++++.|..++||||+...|.
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~  108 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIR  108 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHH
Confidence            55688999999999999998773

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>PF07755 DUF1611: Protein of unknown function (DUF1611); InterPro: IPR011669 This entry contains a number of hypothetical bacterial and archaeal proteins

Probab=96.62  E-value=0.037  Score=55.88  Aligned_cols=157  Identities=20%  Similarity=0.231  Sum_probs=84.9

Q ss_pred             CEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       183 ~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ..+++++|. .-+||=||+..|...+.++|.++.++.+...        -.+-...|+++-...... -...+..++.++
T Consensus       112 ~~rv~~vGTDcavGK~tTal~L~~~l~~~G~~a~fvaTGQT--------Gimia~~Gv~iDav~~DF-vaGavE~~v~~~  182 (301)
T PF07755_consen  112 AKRVLTVGTDCAVGKMTTALELRRALRERGINAGFVATGQT--------GIMIAGYGVPIDAVPSDF-VAGAVEALVPEA  182 (301)
T ss_dssp             SEEEEEEESSSSSSHHHHHHHHHHHHHHTT--EEEEE-SHH--------HHHCHSEC--GGGSBGGG-HHHHHHHHHHHH
T ss_pred             CCEEEEEccCccccHHHHHHHHHHHHHHcCCCceEEecCCc--------eEEEecCCeeccchhhhh-HHHHHHHHHHhh
Confidence            456666666 8899999999999999999999998877632        222234455442221111 122233444444


Q ss_pred             HcCCCcEEEEcCCCCcccc--HHHHHHHHhhhhccCCceEEEEEeCcc-------------hHHHHHHHHHhhh---cCC
Q 011624          262 KKKNVDVVIVDTAGRLQID--KAMMDELKDVKRVLNPTEVLLVVDAMT-------------GQEAAALVTTFNI---EIG  323 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d--~~~~~el~~i~~~~~p~~vvLVvda~~-------------~~~~~~~~~~f~~---~~~  323 (481)
                      . ++.|++||++-|.+...  ....-.   ++.-.+|+.++|.-++..             -++.++....+..   ..+
T Consensus       183 ~-~~~d~ivVEGQgsL~hPay~gvsl~---lL~Gs~Pd~lVL~H~p~r~~~~~~p~~~ip~l~~~I~l~e~la~~~~~~~  258 (301)
T PF07755_consen  183 A-EEHDWIVVEGQGSLSHPAYSGVSLG---LLHGSQPDALVLCHAPGRKHRDGFPHYPIPPLEEEIELIEALAGTKPPAK  258 (301)
T ss_dssp             C-CC-SEEEEE--S-TTSTTTHHCHHH---HHHHH--SEEEEEEETT-SC-TTSTTSC---HHHHHHHHHHCCCGC---E
T ss_pred             C-cCCCEEEEeccccccCccccccchh---hhccCCCCeEEEEecCCcccccCCCcCCCCCHHHHHHHHHHhhccCCCcc
Confidence            2 25599999998766432  232223   455567899999988721             1344455555532   234


Q ss_pred             eeEEEEcCCCCCCc--hhHHHHHHHHhCCCe
Q 011624          324 ITGAILTKLDGDSR--GGAALSVKEVSGKPI  352 (481)
Q Consensus       324 i~GvIlnKvD~~~~--~g~~~~~~~~~glPV  352 (481)
                      +.||-+|--+.+..  ...+..+.+++|+|+
T Consensus       259 VvgIslNt~~l~~~e~~~~~~~~~~e~glPv  289 (301)
T PF07755_consen  259 VVGISLNTSGLSEEEAKAAIERIEEELGLPV  289 (301)
T ss_dssp             EEEEECC-TTS-HHHHHHHHHHHHHHH-S-E
T ss_pred             EEEEEEECCCCCHHHHHHHHHHHHHHHCCCe
Confidence            88898988765432  233466778899999

The region is approximately 350 residues long. A member of this family (Q6M063 from SWISSPROT) is thought to associate with another subunit to form an H+-transporting ATPase, but no evidence has been found to support this.; PDB: 2G0T_A 2OBN_A.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=96.61  E-value=0.023  Score=50.59  Aligned_cols=19  Identities=32%  Similarity=0.702  Sum_probs=16.8

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |++.|.+||||||++..+.
T Consensus         4 i~iiG~~~vGKTsl~~~~~   22 (162)
T cd04138           4 LVVVGAGGVGKSALTIQLI   22 (162)
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6778999999999998775

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.

>cd04109 Rab28 Rab28 subfamily

Probab=96.60  E-value=0.01  Score=56.84  Aligned_cols=85  Identities=20%  Similarity=0.227  Sum_probs=44.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH------HHHHhhhc--CC-eeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA------LVTTFNIE--IG-ITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~------~~~~f~~~--~~-i~GvIlnKvD~~  335 (481)
                      .+.+.|.||+|.-. ...+...   .  ....+.+++|.|.+...+...      .+......  .+ +.-+|.||.|..
T Consensus        49 ~~~~~i~Dt~G~~~-~~~l~~~---~--~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~  122 (215)
T cd04109          49 NVTLQVWDIGGQSI-GGKMLDK---Y--IYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLE  122 (215)
T ss_pred             EEEEEEEECCCcHH-HHHHHHH---H--hhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccc
Confidence            45688999998631 1112111   1  224588899999865433222      12222111  11 345789999964


Q ss_pred             Cc----hhHHHHHHHHhCCCeEEe
Q 011624          336 SR----GGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       336 ~~----~g~~~~~~~~~glPV~~i  355 (481)
                      ..    ......++...+.+...+
T Consensus       123 ~~~~v~~~~~~~~~~~~~~~~~~i  146 (215)
T cd04109         123 HNRTVKDDKHARFAQANGMESCLV  146 (215)
T ss_pred             cccccCHHHHHHHHHHcCCEEEEE
Confidence            21    123345555666665433

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. 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

>PRK06761 hypothetical protein; Provisional

Probab=96.59  E-value=0.0024  Score=63.99  Aligned_cols=42  Identities=31%  Similarity=0.618  Sum_probs=35.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE-EeccCCch
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCML-VAGDVYRP  224 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlL-Id~D~~rp  224 (481)
                      +++|+++|++|+||||++..|+..|..+|.+|.. .+.|.++|
T Consensus         3 ~~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~~~~~~~~~~p   45 (282)
T PRK06761          3 TKLIIIEGLPGFGKSTTAKMLNDILSQNGIEVELYLEGNLDHP   45 (282)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCcCceEEEEEecCCCCCc
Confidence            3589999999999999999999999888988875 56666555

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=96.59  E-value=0.013  Score=53.16  Aligned_cols=66  Identities=20%  Similarity=0.249  Sum_probs=35.5

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH---HHHHHHHh-hh---cCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE---AAALVTTF-NI---EIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~---~~~~~~~f-~~---~~~i~GvIlnKvD~~  335 (481)
                      .+..+.+.||||..... ...   ...  ....+.+++|+|++...+   +....... ..   .-.+.-++.||.|..
T Consensus        42 ~~~~~~l~D~~G~~~~~-~~~---~~~--~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~  114 (159)
T cd04150          42 KNISFTVWDVGGQDKIR-PLW---RHY--FQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLP  114 (159)
T ss_pred             CCEEEEEEECCCCHhHH-HHH---HHH--hcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCC
Confidence            35668999999963211 111   111  123588899999965422   22222211 11   112345889999964

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

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=96.58  E-value=0.015  Score=53.56  Aligned_cols=66  Identities=20%  Similarity=0.237  Sum_probs=36.6

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH---HHHHHHHh-hh---cCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE---AAALVTTF-NI---EIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~---~~~~~~~f-~~---~~~i~GvIlnKvD~~  335 (481)
                      ++..+.|.||||.... ..+...   ..  ...+.+++|+|.+...+   +.+....+ ..   .-.+.-+|.||.|..
T Consensus        55 ~~~~l~l~D~~G~~~~-~~~~~~---~~--~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~  127 (175)
T smart00177       55 KNISFTVWDVGGQDKI-RPLWRH---YY--TNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLP  127 (175)
T ss_pred             CCEEEEEEECCCChhh-HHHHHH---Hh--CCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcc
Confidence            4567899999997431 111111   11  23578899999865432   22222222 11   112456899999964

Ras homologues involved in vesicular transport. Activator 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. Contains ATP/GTP-binding motif (P-loop).

>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=96.58  E-value=0.018  Score=57.20  Aligned_cols=91  Identities=20%  Similarity=0.231  Sum_probs=48.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CC-eEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-GK-SCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~-kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~  259 (481)
                      ..++++++|.+|+||||+|..++.....+ .+ .|..+++...-.. .+-+.......+..........+..+......+
T Consensus        18 ~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~-~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~   96 (287)
T PF00931_consen   18 EVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSL-EQLLEQILRQLGEPDSSISDPKDIEELQDQLRE   96 (287)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCC-HHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHH
T ss_pred             CeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccc-ccccccccccccccccccccccccccccccchh
Confidence            56899999999999999999998764432 23 4555555532211 122223334444442221223344444333333


Q ss_pred             HHHcCCCcEEEEcCC
Q 011624          260 EAKKKNVDVVIVDTA  274 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~  274 (481)
                      .+ .+..=++|+|..
T Consensus        97 ~L-~~~~~LlVlDdv  110 (287)
T PF00931_consen   97 LL-KDKRCLLVLDDV  110 (287)
T ss_dssp             HH-CCTSEEEEEEEE
T ss_pred             hh-ccccceeeeeee
Confidence            33 234446777764

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.58  E-value=0.15  Score=56.70  Aligned_cols=120  Identities=18%  Similarity=0.155  Sum_probs=59.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCe-EEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC-CCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKS-CMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE-VKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~k-VlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~-~~~~~~l~~~l~  259 (481)
                      -+..++|+|+.|+||||++..||..|--.+.. -.-++.++..  ............-.+++..+.. ....+.+++.++
T Consensus        37 LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG--~C~sC~~I~aG~hpDviEIdAas~~gVDdIReLie  114 (700)
T PRK12323         37 LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCG--QCRACTEIDAGRFVDYIEMDAASNRGVDEMAQLLD  114 (700)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCc--ccHHHHHHHcCCCCcceEecccccCCHHHHHHHHH
Confidence            36788999999999999999999888632110 0001111110  0000001111111222222211 122344455554


Q ss_pred             HHH----cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc
Q 011624          260 EAK----KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM  306 (481)
Q Consensus       260 ~~~----~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~  306 (481)
                      .+.    .++|.++|||-+-++..  .....|.+.+... |..++|++-++
T Consensus       115 ~~~~~P~~gr~KViIIDEah~Ls~--~AaNALLKTLEEP-P~~v~FILaTt  162 (700)
T PRK12323        115 KAVYAPTAGRFKVYMIDEVHMLTN--HAFNAMLKTLEEP-PEHVKFILATT  162 (700)
T ss_pred             HHHhchhcCCceEEEEEChHhcCH--HHHHHHHHhhccC-CCCceEEEEeC
Confidence            432    35688999999988753  3344454444432 23445554443

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.58  E-value=0.0022  Score=58.63  Aligned_cols=35  Identities=34%  Similarity=0.532  Sum_probs=28.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ++..|+++|++|+||||++..||..|   |  +.++|.|.
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l---~--~~~~d~d~   37 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRL---G--YDFIDTDH   37 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHh---C--CCEEEChH
Confidence            45689999999999999999999877   3  34567774

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.57  E-value=0.095  Score=58.28  Aligned_cols=111  Identities=18%  Similarity=0.223  Sum_probs=57.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC-CCHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE-VKPSQIAKQGLEE  260 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~-~~~~~~l~~~l~~  260 (481)
                      +..++|+|+.|+||||++..||..+-- .+.     +..+....  ...+........+++..+.. ....+.+++.+..
T Consensus        37 ~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~-----~~~pCg~C--~sC~~I~~g~hpDviEIDAAs~~~VddIReli~~  109 (702)
T PRK14960         37 HHAYLFTGTRGVGKTTIARILAKCLNCETGV-----TSTPCEVC--ATCKAVNEGRFIDLIEIDAASRTKVEDTRELLDN  109 (702)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCcCC-----CCCCCccC--HHHHHHhcCCCCceEEecccccCCHHHHHHHHHH
Confidence            578999999999999999999988752 221     11111100  00111111222233322221 1223344454443


Q ss_pred             HH----cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEE
Q 011624          261 AK----KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVV  303 (481)
Q Consensus       261 ~~----~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVv  303 (481)
                      +.    .+++.++|||-+-++..  .....+.+.+... |..+.+++
T Consensus       110 ~~y~P~~gk~KV~IIDEVh~LS~--~A~NALLKtLEEP-P~~v~FIL  153 (702)
T PRK14960        110 VPYAPTQGRFKVYLIDEVHMLST--HSFNALLKTLEEP-PEHVKFLF  153 (702)
T ss_pred             HhhhhhcCCcEEEEEechHhcCH--HHHHHHHHHHhcC-CCCcEEEE
Confidence            31    24688999999987743  2344454454432 23344444

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=96.57  E-value=0.012  Score=54.88  Aligned_cols=67  Identities=15%  Similarity=0.200  Sum_probs=36.1

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHh-hh---cCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTF-NI---EIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f-~~---~~~i~GvIlnKvD~~~  336 (481)
                      .++.+.|+||||.... ......   .  ....+.+++|+|++...+.   ...+..+ ..   .-...-+|.||.|...
T Consensus        59 ~~~~~~l~D~~G~~~~-~~~~~~---~--~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  132 (182)
T PTZ00133         59 KNLKFTMWDVGGQDKL-RPLWRH---Y--YQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPN  132 (182)
T ss_pred             CCEEEEEEECCCCHhH-HHHHHH---H--hcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCC
Confidence            4567899999997321 111111   1  1235788999998654322   2222222 11   1123558889999643

>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed

Probab=96.56  E-value=0.0094  Score=61.06  Aligned_cols=36  Identities=33%  Similarity=0.424  Sum_probs=31.9

Q ss_pred             EEEE--EcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          185 VILL--AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       185 VI~i--~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ||.+  .+.||+|||+++..|+.+|.++|++|+++.-.
T Consensus        51 vIsVGNi~vGGtGKTP~v~~L~~~l~~~g~~~~ilsRG   88 (325)
T PRK00652         51 VIVVGNITVGGTGKTPVVIALAEQLQARGLKPGVVSRG   88 (325)
T ss_pred             EEEEcCeeCCCCChHHHHHHHHHHHHHCCCeEEEECCC
Confidence            7777  46699999999999999999999999998744

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=96.56  E-value=0.068  Score=61.32  Aligned_cols=116  Identities=18%  Similarity=0.193  Sum_probs=58.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~l~~~l~  259 (481)
                      -+..++|.|+.|+||||++..||+.|. .+|....  -|...+.  ...+ ..+.....+++..+. .....+.+++..+
T Consensus        36 i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~--pCg~C~s--C~~~-~~g~~~~~dv~eidaas~~~Vd~iR~l~~  110 (824)
T PRK07764         36 INHAYLFSGPRGCGKTSSARILARSLNCVEGPTST--PCGECDS--CVAL-APGGPGSLDVTEIDAASHGGVDDARELRE  110 (824)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCC--CCcccHH--HHHH-HcCCCCCCcEEEecccccCCHHHHHHHHH
Confidence            356889999999999999999998875 2232110  1111111  0011 001011222322221 1112334444333


Q ss_pred             HH----HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          260 EA----KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       260 ~~----~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      .+    ....|.++|||-+-++..  .....|.+++... |..++|++-+
T Consensus       111 ~~~~~p~~~~~KV~IIDEad~lt~--~a~NaLLK~LEEp-P~~~~fIl~t  157 (824)
T PRK07764        111 RAFFAPAESRYKIFIIDEAHMVTP--QGFNALLKIVEEP-PEHLKFIFAT  157 (824)
T ss_pred             HHHhchhcCCceEEEEechhhcCH--HHHHHHHHHHhCC-CCCeEEEEEe
Confidence            32    125788999999887753  3344555555543 3445555544

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=96.56  E-value=0.017  Score=57.62  Aligned_cols=132  Identities=24%  Similarity=0.279  Sum_probs=73.0

Q ss_pred             CCCCEE-EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHH
Q 011624          180 KSRPTV-ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       180 ~~~~~V-I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l  258 (481)
                      ..+|.+ |..+|.---||||++++|...|+++|....      ..-+.+|.. -..+..|+.+-....+           
T Consensus         8 r~kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~------~~y~~id~a-PeEk~rGITIntahve-----------   69 (394)
T COG0050           8 RTKPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEA------KAYDQIDNA-PEEKARGITINTAHVE-----------   69 (394)
T ss_pred             CCCCeeEEEEeccccCchhhHHHHHHHHHHhhccccc------cchhhhccC-chHhhcCceeccceeE-----------
Confidence            345554 445699999999999999999998873322      111112211 1222345544322111           


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                        +...+--|.-+||||....-.+++      ..+.+-|..+||+.|..+   |.--.++-.-.-.++..-+++||+|..
T Consensus        70 --yet~~rhyahVDcPGHaDYvKNMI------tgAaqmDgAILVVsA~dGpmPqTrEHiLlarqvGvp~ivvflnK~Dmv  141 (394)
T COG0050          70 --YETANRHYAHVDCPGHADYVKNMI------TGAAQMDGAILVVAATDGPMPQTREHILLARQVGVPYIVVFLNKVDMV  141 (394)
T ss_pred             --EecCCceEEeccCCChHHHHHHHh------hhHHhcCccEEEEEcCCCCCCcchhhhhhhhhcCCcEEEEEEeccccc
Confidence              112345689999999754322222      223334888999988544   332222211111344566889999975


Q ss_pred             Cc
Q 011624          336 SR  337 (481)
Q Consensus       336 ~~  337 (481)
                      ..
T Consensus       142 dd  143 (394)
T COG0050         142 DD  143 (394)
T ss_pred             Cc
Confidence            54

>cd01862 Rab7 Rab7 subfamily

Probab=96.56  E-value=0.018  Score=52.06  Aligned_cols=19  Identities=32%  Similarity=0.628  Sum_probs=17.0

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||++..|.
T Consensus         3 i~viG~~~~GKSsl~~~l~   21 (172)
T cd01862           3 VIILGDSGVGKTSLMNQYV   21 (172)
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6788999999999998875

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-

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.55  E-value=0.025  Score=65.31  Aligned_cols=85  Identities=21%  Similarity=0.338  Sum_probs=52.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..++|.|++|+|||+++..||..+...+.++..+|+..|.....     .....|.|--..+  ......+...   ++.
T Consensus       596 ~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~-----~~~l~g~~~g~~g--~~~~g~l~~~---v~~  665 (852)
T TIGR03346       596 GSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHS-----VARLIGAPPGYVG--YEEGGQLTEA---VRR  665 (852)
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccch-----HHHhcCCCCCccC--cccccHHHHH---HHc
Confidence            57889999999999999999999887788899888887642211     1111222210011  1111122222   233


Q ss_pred             CCCcEEEEcCCCCcc
Q 011624          264 KNVDVVIVDTAGRLQ  278 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~  278 (481)
                      ..+.++++|-....+
T Consensus       666 ~p~~vlllDeieka~  680 (852)
T TIGR03346       666 KPYSVVLFDEVEKAH  680 (852)
T ss_pred             CCCcEEEEeccccCC
Confidence            578899999987664

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.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	481
2xxa_A	433	The Crystal Structure Of The Signal Recognition Par		1e-100
2j28_9	430	Model Of E. Coli Srp Bound To 70s Rncs Length = 430		1e-100
2ffh_A	425	The Signal Sequence Binding Protein Ffh From Thermu		2e-86
2iy3_A	432	Structure Of The E. Coli Signal Recognition Particl		7e-82
2v3c_C	432	Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna C		1e-75
3ndb_B	454	Crystal Structure Of A Signal Sequence Bound To The		1e-75
1rj9_B	300	Structure Of The Heterodimer Of The Conserved Gtpas		8e-75
1o87_A	297	A New Mggdp Complex Of The Ffh Ng Domain Length = 2		3e-74
2c03_A	297	Gdp Complex Of Srp Gtpase Ffh Ng Domain Length = 29		3e-74
1jpj_A	296	Gmppnp Complex Of Srp Gtpase Ng Domain Length = 296		9e-74
1ls1_A	295	T. Aquaticus Ffh Ng Domain At 1.1a Resolution Lengt		5e-73
3ng1_A	294	N And Gtpase Domains Of The Signal Sequence Recogni		2e-72
1ffh_A	294	N And Gtpase Domains Of The Signal Sequence Recogni		2e-72
2ng1_A	293	N And Gtpase Domains Of The Signal Sequence Recogni		1e-71
3dm5_A	443	Structures Of Srp54 And Srp19, The Two Proteins Ass		4e-65
3kl4_A	433	Recognition Of A Signal Peptide By The Signal Recog		2e-58
1qzw_A	440	Crystal Structure Of The Complete Core Of Archaeal		2e-58
2j37_W	504	Model Of Mammalian Srp Bound To 80s Rncs Length = 5		3e-55
1fts_A	295	Signal Recognition Particle Receptor From E. Coli L		3e-44
2xxa_B	302	The Crystal Structure Of The Signal Recognition Par		3e-44
2qy9_A	309	Structure Of The Ng+1 Construct Of The E. Coli Srp		3e-44
1j8m_F	297	Signal Recognition Particle Conserved Gtpase Domain		7e-44
2yhs_A	503	Structure Of The E. Coli Srp Receptor Ftsy Length =		1e-43
1j8y_F	297	Signal Recognition Particle Conserved Gtpase Domain		3e-43
3dmd_B	328	Structures And Conformations In Solution Of The Sig		4e-42
3dm9_B	328	Structures And Conformations In Solution Of The Sig		2e-40
2og2_A	359	Crystal Structure Of Chloroplast Ftsy From Arabidop		4e-39
3b9q_A	302	The Crystal Structure Of Cpftsy From Arabidopsis Th		5e-39
4ak9_A	318	Structure Of Chloroplast Ftsy From Physcomitrella P		3e-38
1vma_A	306	Crystal Structure Of Cell Division Protein Ftsy (Tm		2e-35
2q9a_A	304	Structure Of Apo Ftsy Length = 304		6e-31
1okk_D	303	Homo-Heterodimeric Complex Of The Srp Gtpases Lengt		7e-31
2j7p_D	283	Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpa		9e-31
2cnw_D	284	Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy Len		9e-31
1zu4_A	320	Crystal Structure Of Ftsy From Mycoplasma Mycoides-		1e-30
1rj9_A	304	Structure Of The Heterodimer Of The Conserved Gtpas		7e-30
2px0_A	296	Crystal Structure Of Flhf Complexed With GmppnpMG(2		8e-10
1hq1_A	105	Structural And Energetic Analysis Of Rna Recognitio		2e-06

>pdb|2XXA|A Chain A, The Crystal Structure Of The Signal Recognition Particle (Srp) In Complex With Its Receptor(Sr) Length = 433

Iteration: 1
 Score =  363 bits (932), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 192/385 (49%), Positives = 257/385 (66%), Gaps = 5/385 (1%)
Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  LT  L      + G   LT++N+ + +R++R ALLEADV+LPVVR F+  V E+AV
Sbjct: 1   MFDNLTDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAV 60
Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  + + + P Q+ VKIVR+ELV  MG E   L  A   P V+L+AGLQG GKTT   KL
Sbjct: 61  GHEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKL 120
Query: 204 ANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
             +L+ K  K  ++V+ DVYRPAAI QL  L EQVGV  + +    KP  I    L+EAK
Sbjct: 121 GKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKEAK 180
Query: 263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
            K  DV++VDTAGRL +D+AMMDE+K V   +NP E L VVDAMTGQ+AA     FN  +
Sbjct: 181 LKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEAL 240
Query: 323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
            +TG +LTK+DGD+RGGAALS++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDV
Sbjct: 241 PLTGVVLTKVDGDARGGAALSIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDV 300
Query: 383 LSFVEKAQEVMQQEDAEEMQKKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI 441
           LS +E  +  + +  AE++  K+   + FD NDFL+Q R +  MG M+ ++G +PGMG+I
Sbjct: 301 LSLIEDIESKVDRAQAEKLASKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI 360
Query: 442 TPAQVREA--EKSLKIMEAMIEAMT 464
            P  V+    +K L  MEA+I +MT
Sbjct: 361 -PDNVKSQMDDKVLVRMEAIINSMT 384

>pdb|2J28|9 Chain 9, Model Of E. Coli Srp Bound To 70s Rncs Length = 430

Iteration: 1
 Score =  361 bits (927), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 191/384 (49%), Positives = 256/384 (66%), Gaps = 5/384 (1%)
Query: 85  FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVG 144
           F  LT  L      + G   LT++N+ + +R++R ALLEADV+LPVVR F+  V E+AVG
Sbjct: 1   FDNLTDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAVG 60
Query: 145 VGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLA 204
             + + + P Q+ VKIVR+ELV  MG E   L  A   P V+L+AGLQG GKTT   KL 
Sbjct: 61  HEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLG 120
Query: 205 NYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
            +L+ K  K  ++V+ DVYRPAAI QL  L EQVGV  + +    KP  I    L+EAK 
Sbjct: 121 KFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKEAKL 180
Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           K  DV++VDTAGRL +D+AMMDE+K V   +NP E L VVDAMTGQ+AA     FN  + 
Sbjct: 181 KFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEALP 240
Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           +TG +LTK+DGD+RGGAALS++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDVL
Sbjct: 241 LTGVVLTKVDGDARGGAALSIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDVL 300
Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKIT 442
           S +E  +  + +  AE++  K+   + FD NDFL+Q R +  MG M+ ++G +PGMG+I 
Sbjct: 301 SLIEDIESKVDRAQAEKLASKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI- 359
Query: 443 PAQVREA--EKSLKIMEAMIEAMT 464
           P  V+    +K L  MEA+I +MT
Sbjct: 360 PDNVKSQMDDKVLVRMEAIINSMT 383

>pdb|2FFH|A Chain A, The Signal Sequence Binding Protein Ffh From Thermus Aquaticus Length = 425

Iteration: 1
 Score =  316 bits (810), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 174/382 (45%), Positives = 256/382 (67%), Gaps = 11/382 (2%)
Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEAL 60
Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKL 118
Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178
Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238
Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMGDV 
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDVA 298
Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
           S  EK +    + +A +  K++        DFLKQ + + R+G  S ++G++PG+    P
Sbjct: 299 SLAEKVRAAGLEAEAPKSAKEL-----SLEDFLKQMQNLKRLGPFSEILGLLPGV----P 349
Query: 444 AQVREAEKSLKIMEAMIEAMTP 465
             ++  EK++K +EA++ +MTP
Sbjct: 350 QGLKVDEKAIKRLEAIVLSMTP 371

>pdb|2IY3|A Chain A, Structure Of The E. Coli Signal Recognition Particle Bound To A Translating Ribosome Length = 432

Iteration: 1
 Score =  301 bits (770), Expect = 7e-82,   Method: Compositional matrix adjust.
 Identities = 172/382 (45%), Positives = 249/382 (65%), Gaps = 13/382 (3%)
Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEAL 60
Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKL 118
Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178
Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238
Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMGD+ 
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDIE 298
Query: 384 SFVEKAQEVMQQEDAEEMQKKIMS-----ANFDFNDFLKQTRTVARMGSMSRVIGMIPGM 438
           S +EK + +   E+ +++QKK+             D   Q   + +MG +S+V+  IPG+
Sbjct: 299 SILEKVKGL---EEYDKIQKKMEDVMEGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGL 355
Query: 439 GKITPAQVREAEKSLKIMEAMI 460
           G + P     +E  LKI E  I
Sbjct: 356 GIMLPTP---SEDQLKIGEEKI 374

>pdb|2V3C|C Chain C, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex Of M. Jannaschii Length = 432

Iteration: 1
 Score =  280 bits (716), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 155/381 (40%), Positives = 234/381 (61%), Gaps = 6/381 (1%)
Query: 87  QLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVG 146
           +L   L  A NKLK    + K+ I E ++DI+RAL++ADV++ +V +  + +  +A+   
Sbjct: 3   KLGENLNKALNKLKAAAFVDKKLIKEVIKDIQRALIQADVNVKLVLKMSKEIERRALEEK 62
Query: 147 LIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANY 206
             +G+   + ++KIV +ELVKL+G E  +L     +  VILL G+QG GKTT +AKLA Y
Sbjct: 63  TPKGLSKKEHIIKIVYEELVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARY 122
Query: 207 LKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVK-PSQIAKQGLEEAKKKN 265
           ++K+G    L+A D YRPAA +QL  L E++ VP+Y   T  K P  I K+G+E+ KK  
Sbjct: 123 IQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEKFKK-- 180
Query: 266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGIT 325
            DV+I+DTAGR + +K +++E+K +K + NP E++LV+D   GQ+A      F   +G  
Sbjct: 181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQAGIQAKAFKEAVGEI 240
Query: 326 GAIL-TKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLS 384
           G+I+ TKLDG ++GG ALS    +  PIK +G GE ++DLEPF P +   R+LGMGD+ S
Sbjct: 241 GSIIVTKLDGSAKGGGALSAVAETKAPIKFIGIGEGIDDLEPFDPKKFISRLLGMGDLES 300
Query: 385 FVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA 444
            +EKA++ M  E  EE    IM   F  N+ + Q   +  MGSM +++ MIPG G   P 
Sbjct: 301 LLEKAED-MVDEKTEESIDAIMRGKFTLNELMTQLEAIENMGSMKKILSMIPGFGGAMPK 359
Query: 445 QVRE-AEKSLKIMEAMIEAMT 464
           ++    E  +K  + +I +MT
Sbjct: 360 ELSHLTEAKIKKYKVIISSMT 380

>pdb|3NDB|B Chain B, Crystal Structure Of A Signal Sequence Bound To The Signal Recognition Particle Length = 454

Iteration: 1
 Score =  280 bits (716), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 155/381 (40%), Positives = 234/381 (61%), Gaps = 6/381 (1%)
Query: 87  QLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVG 146
           +L   L  A NKLK    + K+ I E ++DI+RAL++ADV++ +V +  + +  +A+   
Sbjct: 3   KLGENLNKALNKLKAAAFVDKKLIKEVIKDIQRALIQADVNVKLVLKMSKEIERRALEEK 62
Query: 147 LIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANY 206
             +G+   + ++KIV +ELVKL+G E  +L     +  VILL G+QG GKTT +AKLA Y
Sbjct: 63  TPKGLSKKEHIIKIVYEELVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARY 122
Query: 207 LKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVK-PSQIAKQGLEEAKKKN 265
           ++K+G    L+A D YRPAA +QL  L E++ VP+Y   T  K P  I K+G+E+ KK  
Sbjct: 123 IQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEKFKK-- 180
Query: 266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGIT 325
            DV+I+DTAGR + +K +++E+K +K + NP E++LV+D   GQ+A      F   +G  
Sbjct: 181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQAGIQAKAFKEAVGEI 240
Query: 326 GAIL-TKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLS 384
           G+I+ TKLDG ++GG ALS    +  PIK +G GE ++DLEPF P +   R+LGMGD+ S
Sbjct: 241 GSIIVTKLDGSAKGGGALSAVAETKAPIKFIGIGEGIDDLEPFDPKKFISRLLGMGDLES 300
Query: 385 FVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA 444
            +EKA++ M  E  EE    IM   F  N+ + Q   +  MGSM +++ MIPG G   P 
Sbjct: 301 LLEKAED-MVDEKTEESIDAIMRGKFTLNELMTQLEAIENMGSMKKILSMIPGFGGAMPK 359
Query: 445 QVRE-AEKSLKIMEAMIEAMT 464
           ++    E  +K  + +I +MT
Sbjct: 360 ELSHLTEAKIKKYKVIISSMT 380

>pdb|1RJ9|B Chain B, Structure Of The Heterodimer Of The Conserved Gtpase Domains Signal Recognition Particle (Ffh) And Its Receptor (Ftsy) Length = 300

Iteration: 1
 Score =  277 bits (709), Expect = 8e-75,   Method: Compositional matrix adjust.
 Identities = 150/302 (49%), Positives = 210/302 (69%), Gaps = 2/302 (0%)
Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEAL 60
Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKL 118
Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178
Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238
Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMGDV 
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDVA 298
Query: 384 SF 385
           S 
Sbjct: 299 SL 300

>pdb|1O87|A Chain A, A New Mggdp Complex Of The Ffh Ng Domain Length = 297

Iteration: 1
 Score =  275 bits (704), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 149/299 (49%), Positives = 209/299 (69%), Gaps = 2/299 (0%)
Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEAL 60
Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKL 118
Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178
Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238
Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMGDV
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDV 297

>pdb|2C03|A Chain A, Gdp Complex Of Srp Gtpase Ffh Ng Domain Length = 297

Iteration: 1
 Score =  275 bits (704), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 149/299 (49%), Positives = 209/299 (69%), Gaps = 2/299 (0%)
Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEAL 60
Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKL 118
Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178
Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238
Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMGDV
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDV 297

>pdb|1JPJ|A Chain A, Gmppnp Complex Of Srp Gtpase Ng Domain Length = 296

Iteration: 1
 Score =  274 bits (700), Expect = 9e-74,   Method: Compositional matrix adjust.
 Identities = 148/298 (49%), Positives = 208/298 (69%), Gaps = 2/298 (0%)
Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEAL 60
Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKL 118
Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178
Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238
Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGD 381
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMGD
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGD 296

>pdb|1LS1|A Chain A, T. Aquaticus Ffh Ng Domain At 1.1a Resolution Length = 295

Iteration: 1
 Score =  271 bits (693), Expect = 5e-73,   Method: Compositional matrix adjust.
 Identities = 147/297 (49%), Positives = 207/297 (69%), Gaps = 2/297 (0%)
Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEAL 60
Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKL 118
Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178
Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238
Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG 380
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMG
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMG 295

>pdb|3NG1|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition Protein Ffh From Thermus Aquaticus Length = 294

Iteration: 1
 Score =  269 bits (688), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 146/296 (49%), Positives = 206/296 (69%), Gaps = 2/296 (0%)
Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEAL 60
Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKL 118
Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178
Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238
Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGM 379
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGM
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGM 294

>pdb|1FFH|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition Protein Ffh From Thermus Aquaticus Length = 294

Iteration: 1
 Score =  269 bits (688), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 146/296 (49%), Positives = 206/296 (69%), Gaps = 2/296 (0%)
Query: 85  FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVG 144
           F QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+G
Sbjct: 1   FQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEALG 60
Query: 145 VGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLA 204
             ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKLA
Sbjct: 61  KQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKLA 118
Query: 205 NYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK 264
            Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ +
Sbjct: 119 LYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLE 178
Query: 265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGI 324
             D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G+
Sbjct: 179 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGV 238
Query: 325 TGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG 380
           TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMG
Sbjct: 239 TGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMG 294

>pdb|2NG1|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition Protein Ffh From Thermus Aquaticus Length = 293

Iteration: 1
 Score =  267 bits (683), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 145/295 (49%), Positives = 205/295 (69%), Gaps = 2/295 (0%)
Query: 85  FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVG 144
           F QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+G
Sbjct: 1   FQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEALG 60
Query: 145 VGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLA 204
             ++  + P + ++  V + L + +GGE + L   K R  +  L GLQG GKTT +AKLA
Sbjct: 61  KQVLESLTPAEVILATVYEALKEALGGE-ARLPVLKDR-NLWFLVGLQGSGKTTTAAKLA 118
Query: 205 NYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK 264
            Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ +
Sbjct: 119 LYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLE 178
Query: 265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGI 324
             D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G+
Sbjct: 179 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGV 238
Query: 325 TGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGM 379
           TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGM
Sbjct: 239 TGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGM 293

>pdb|3DM5|A Chain A, Structures Of Srp54 And Srp19, The Two Proteins Assembling The Ribonucleic Core Of The Signal Recognition Particle From The Archaeon Pyrococcus Furiosus. Length = 443

Iteration: 1
 Score =  245 bits (625), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 133/357 (37%), Positives = 216/357 (60%), Gaps = 3/357 (0%)
Query: 110 IVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLM 169
           I E +RDI+RAL++ADV++ +V +  + +  +A+      G+   + ++KIV +EL K +
Sbjct: 28  IKELVRDIQRALIQADVNVRLVLQLTREIQRRALEEKPPAGISKKEHIIKIVYEELTKFL 87
Query: 170 GGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQ 229
           G E   +   K +PT++L+ G+QG GKTT  AKLA Y +K+G    +V  D +RP A  Q
Sbjct: 88  GTEAKPIEI-KEKPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQ 146
Query: 230 LVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKD 289
           L  L ++  + V+    E    ++AK+G++  K K VD++IVDTAGR + DKA+++E+K 
Sbjct: 147 LRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYFKSKGVDIIIVDTAGRHKEDKALIEEMKQ 206
Query: 290 VKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSG 349
           +  V++P EV+LV+D   GQ+A      F     I   I+TKLDG ++GG ALS    +G
Sbjct: 207 ISNVIHPHEVILVIDGTIGQQAYNQALAFKEATPIGSIIVTKLDGSAKGGGALSAVAATG 266
Query: 350 KPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQ-EDAEEMQKKIMSA 408
            PIK +G GE+++D+EPF P R   R+LG+GD+   +EK +E+ ++ E  EE  ++ +  
Sbjct: 267 APIKFIGTGEKIDDIEPFDPPRFVSRLLGLGDIQGLLEKFKELEKEVEIKEEDIERFLRG 326
Query: 409 NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVRE-AEKSLKIMEAMIEAMT 464
            F   D   Q   + +MG + +++ MIPG+G   P  V    E+ LK  + ++++MT
Sbjct: 327 KFTLKDMYAQLEAMRKMGPLKQILRMIPGLGYSLPDDVISIGEERLKKFKVIMDSMT 383

>pdb|3KL4|A Chain A, Recognition Of A Signal Peptide By The Signal Recognition Particle Length = 433

Iteration: 1
 Score =  223 bits (568), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 133/364 (36%), Positives = 211/364 (57%), Gaps = 14/364 (3%)
Query: 112 EPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGG 171
           E ++D++++L+ +DV++ +V      + E+         +   +  + IV DEL KL GG
Sbjct: 26  EFIKDLQKSLISSDVNVKLVFSLTAKIKERLNKEKPPSVLERKEWFISIVYDELSKLFGG 85
Query: 172 EVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV 231
           +    V     P +I+L G+QG GKTT + KLA + KK+G    LVA DVYRPAA DQL+
Sbjct: 86  DKEPNVNPTKLPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLL 145
Query: 232 ILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI--DKAMMDELKD 289
            LG Q+GV VY       P +IAK+G++   K  +D++IVDTAGR     +  +++E+K+
Sbjct: 146 QLGNQIGVQVYGEPNNQNPIEIAKKGVDIFVKNKMDIIIVDTAGRHGYGEETKLLEEMKE 205
Query: 290 VKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSG 349
           +  VL P +V+LV+DA  GQ+A  L + F+    I   I+TK+DG ++GG ALS    +G
Sbjct: 206 MYDVLKPDDVILVIDASIGQKAYDLASRFHQASPIGSVIITKMDGTAKGGGALSAVVATG 265
Query: 350 KPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMS-- 407
             IK +G GE++++LE F   R   RILGMGD+ S +EK + +   E+ +++QKK+    
Sbjct: 266 ATIKFIGTGEKIDELETFNAKRFVSRILGMGDIESILEKVKGL---EEYDKIQKKMEDVM 322
Query: 408 ---ANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA----QVREAEKSLKIMEAMI 460
                    D   Q   + +MG +S+V+  IPG+G + P     Q++  E+ ++   A +
Sbjct: 323 EGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKIRRWLAAL 382
Query: 461 EAMT 464
            +MT
Sbjct: 383 NSMT 386

>pdb|1QZW|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And Implications For Inter-Domain Communication Length = 440

Iteration: 1
 Score =  223 bits (568), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 133/364 (36%), Positives = 211/364 (57%), Gaps = 14/364 (3%)
Query: 112 EPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGG 171
           E ++D++++L+ +DV++ +V      + E+         +   +  + IV DEL KL GG
Sbjct: 33  EFIKDLQKSLISSDVNVKLVFSLTAKIKERLNKEKPPSVLERKEWFISIVYDELSKLFGG 92
Query: 172 EVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV 231
           +    V     P +I+L G+QG GKTT + KLA + KK+G    LVA DVYRPAA DQL+
Sbjct: 93  DKEPNVNPTKLPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLL 152
Query: 232 ILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI--DKAMMDELKD 289
            LG Q+GV VY       P +IAK+G++   K  +D++IVDTAGR     +  +++E+K+
Sbjct: 153 QLGNQIGVQVYGEPNNQNPIEIAKKGVDIFVKNKMDIIIVDTAGRHGYGEETKLLEEMKE 212
Query: 290 VKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSG 349
           +  VL P +V+LV+DA  GQ+A  L + F+    I   I+TK+DG ++GG ALS    +G
Sbjct: 213 MYDVLKPDDVILVIDASIGQKAYDLASRFHQASPIGSVIITKMDGTAKGGGALSAVVATG 272
Query: 350 KPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMS-- 407
             IK +G GE++++LE F   R   RILGMGD+ S +EK + +   E+ +++QKK+    
Sbjct: 273 ATIKFIGTGEKIDELETFNAKRFVSRILGMGDIESILEKVKGL---EEYDKIQKKMEDVM 329
Query: 408 ---ANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA----QVREAEKSLKIMEAMI 460
                    D   Q   + +MG +S+V+  IPG+G + P     Q++  E+ ++   A +
Sbjct: 330 EGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKIRRWLAAL 389
Query: 461 EAMT 464
            +MT
Sbjct: 390 NSMT 393

>pdb|2J37|W Chain W, Model Of Mammalian Srp Bound To 80s Rncs Length = 504

Iteration: 1
 Score =  212 bits (540), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 123/385 (31%), Positives = 208/385 (54%), Gaps = 13/385 (3%)
Query: 82  AEMFGQLTSGLEAAWNKLKGEETLTKENIVEPM-RDIRRALLEADVSLPVVRRFVQAVSE 140
           A++  ++TS L +  N      T+  E ++  M +++  ALLEADV++ +V++  + V  
Sbjct: 4   ADLGRKITSALRSLSN-----ATIINEEVLNAMLKEVCTALLEADVNIKLVKQLRENVKS 58
Query: 141 QAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVS 200
                 +  G+   + +   V  ELVKL+   V      K +  VI+  GLQG GKTT  
Sbjct: 59  AIDLEEMASGLNKRKMIQHAVFKELVKLVDPGVKAWTPTKGKQNVIMFVGLQGSGKTTTC 118
Query: 201 AKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE 260
           +KLA Y +++G    L+  D +R  A DQL     +  +P Y + TE+ P  IA +G+E+
Sbjct: 119 SKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEK 178
Query: 261 AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNI 320
            K +N +++IVDT+GR + + ++ +E+  V   + P  ++ V+DA  GQ   A    F  
Sbjct: 179 FKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEAQAKAFKD 238
Query: 321 EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG 380
           ++ +   I+TKLDG ++GG ALS    +  PI  +G GE ++D EPF       ++LGMG
Sbjct: 239 KVDVASVIVTKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMG 298
Query: 381 DVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK 440
           D+   ++K  E ++ +D E + +K+    F   D  +Q + + +MG  S+++GMIPG G 
Sbjct: 299 DIEGLIDKVNE-LKLDDNEALIEKLKHGQFTLRDMYEQFQNIMKMGPFSQILGMIPGFGT 357
Query: 441 ITPAQVREAE------KSLKIMEAM 459
              ++  E E      K + IM++M
Sbjct: 358 DFMSKGNEQESMARLKKLMTIMDSM 382

>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli Length = 295

Iteration: 1
 Score =  176 bits (446), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 98/253 (38%), Positives = 148/253 (58%), Gaps = 10/253 (3%)
Query: 124 ADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRP 183
           ADV +   R+ +  ++E A      + +R  + L  ++++E+ +++      L      P
Sbjct: 38  ADVGVETTRKIITNLTEGASR----KQLRDAEALYGLLKEEMGEILAKVDEPLNVEGKAP 93
Query: 184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT 243
            VIL+ G+ GVGKTT   KLA   ++QGKS ML AGD +R AA++QL + G++  +PV  
Sbjct: 94  FVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIA 153
Query: 244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN------PT 297
             T    + +    ++ AK +N+DV+I DTAGRLQ    +M+ELK + RV+       P 
Sbjct: 154 QHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPH 213
Query: 298 EVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGR 357
           EV+L +DA TGQ A +    F+  +G+TG  LTKLDG ++GG   SV +  G PI+ +G 
Sbjct: 214 EVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYIGV 273
Query: 358 GERMEDLEPFYPD 370
           GER+EDL PF  D
Sbjct: 274 GERIEDLRPFKAD 286

>pdb|2XXA|B Chain B, The Crystal Structure Of The Signal Recognition Particle (Srp) In Complex With Its Receptor(Sr) Length = 302

Iteration: 1
 Score =  176 bits (446), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 98/253 (38%), Positives = 148/253 (58%), Gaps = 10/253 (3%)
Query: 124 ADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRP 183
           ADV +   R+ +  ++E A      + +R  + L  ++++E+ +++      L      P
Sbjct: 43  ADVGVETTRKIITNLTEGASR----KQLRDAEALYGLLKEEMGEILAKVDEPLNVEGKAP 98
Query: 184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT 243
            VIL+ G+ GVGKTT   KLA   ++QGKS ML AGD +R AA++QL + G++  +PV  
Sbjct: 99  FVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIA 158
Query: 244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN------PT 297
             T    + +    ++ AK +N+DV+I DTAGRLQ    +M+ELK + RV+       P 
Sbjct: 159 QHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPH 218
Query: 298 EVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGR 357
           EV+L +DA TGQ A +    F+  +G+TG  LTKLDG ++GG   SV +  G PI+ +G 
Sbjct: 219 EVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYIGV 278
Query: 358 GERMEDLEPFYPD 370
           GER+EDL PF  D
Sbjct: 279 GERIEDLRPFKAD 291

>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp Receptor Ftsy Length = 309

Iteration: 1
 Score =  176 bits (446), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 98/253 (38%), Positives = 148/253 (58%), Gaps = 10/253 (3%)
Query: 124 ADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRP 183
           ADV +   R+ +  ++E A      + +R  + L  ++++E+ +++      L      P
Sbjct: 44  ADVGVETTRKIITNLTEGASR----KQLRDAEALYGLLKEEMGEILAKVDEPLNVEGKAP 99
Query: 184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT 243
            VIL+ G+ GVGKTT   KLA   ++QGKS ML AGD +R AA++QL + G++  +PV  
Sbjct: 100 FVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIA 159
Query: 244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN------PT 297
             T    + +    ++ AK +N+DV+I DTAGRLQ    +M+ELK + RV+       P 
Sbjct: 160 QHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPH 219
Query: 298 EVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGR 357
           EV+L +DA TGQ A +    F+  +G+TG  LTKLDG ++GG   SV +  G PI+ +G 
Sbjct: 220 EVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYIGV 279
Query: 358 GERMEDLEPFYPD 370
           GER+EDL PF  D
Sbjct: 280 GERIEDLRPFKAD 292

>pdb|1J8M|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From A. Ambivalens Length = 297

Iteration: 1
 Score =  174 bits (442), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 104/265 (39%), Positives = 160/265 (60%), Gaps = 2/265 (0%)
Query: 114 MRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEV 173
           +++++++L+ ADV++ +V      + E+         +   +  +KIV DEL  L GG+ 
Sbjct: 29  IKELQKSLISADVNVKLVFSLTNKIKERLKNEKPPTYIERREWFIKIVYDELSNLFGGDK 88
Query: 174 SELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVIL 233
              V     P VI+L G+QG GKTT + KLA + KK+G    LV  DVYRPAA++QL  L
Sbjct: 89  EPKVIPDKIPYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQL 148
Query: 234 GEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI--DKAMMDELKDVK 291
           G+Q+GVPVY    E     IAK+G+E+   + ++++IVDTAGR     + A+++E+K++ 
Sbjct: 149 GQQIGVPVYGEPGEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIY 208
Query: 292 RVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKP 351
             + P EV LV+DA  GQ+A  L + FN    I   I+TK+DG ++GG ALS    +G  
Sbjct: 209 EAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKGGGALSAVAATGAT 268
Query: 352 IKLVGRGERMEDLEPFYPDRMAGRI 376
           IK +G GE++++LE F P R   R+
Sbjct: 269 IKFIGTGEKIDELEVFNPRRFVARL 293

>pdb|2YHS|A Chain A, Structure Of The E. Coli Srp Receptor Ftsy Length = 503

Iteration: 1
 Score =  174 bits (441), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 98/253 (38%), Positives = 148/253 (58%), Gaps = 10/253 (3%)
Query: 124 ADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRP 183
           ADV +   R+ +  ++E A      + +R  + L  ++++E+ +++      L      P
Sbjct: 238 ADVGVETTRKIITNLTEGASR----KQLRDAEALYGLLKEEMGEILAKVDEPLNVEGKAP 293
Query: 184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT 243
            VIL+ G+ GVGKTT   KLA   ++QGKS ML AGD +R AA++QL + G++  +PV  
Sbjct: 294 FVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIA 353
Query: 244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN------PT 297
             T    + +    ++ AK +N+DV+I DTAGRLQ    +M+ELK + RV+       P 
Sbjct: 354 QHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPH 413
Query: 298 EVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGR 357
           EV+L +DA TGQ A +    F+  +G+TG  LTKLDG ++GG   SV +  G PI+ +G 
Sbjct: 414 EVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYIGV 473
Query: 358 GERMEDLEPFYPD 370
           GER+EDL PF  D
Sbjct: 474 GERIEDLRPFKAD 486

>pdb|1J8Y|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From A. Ambivalens T112a Mutant Length = 297

Iteration: 1
 Score =  172 bits (437), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 103/265 (38%), Positives = 159/265 (60%), Gaps = 2/265 (0%)
Query: 114 MRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEV 173
           +++++++L+ ADV++ +V      + E+         +   +  +KIV DEL  L GG+ 
Sbjct: 29  IKELQKSLISADVNVKLVFSLTNKIKERLKNEKPPTYIERREWFIKIVYDELSNLFGGDK 88
Query: 174 SELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVIL 233
              V     P VI+L G+QG GK T + KLA + KK+G    LV  DVYRPAA++QL  L
Sbjct: 89  EPKVIPDKIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQL 148
Query: 234 GEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI--DKAMMDELKDVK 291
           G+Q+GVPVY    E     IAK+G+E+   + ++++IVDTAGR     + A+++E+K++ 
Sbjct: 149 GQQIGVPVYGEPGEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIY 208
Query: 292 RVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKP 351
             + P EV LV+DA  GQ+A  L + FN    I   I+TK+DG ++GG ALS    +G  
Sbjct: 209 EAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKGGGALSAVAATGAT 268
Query: 352 IKLVGRGERMEDLEPFYPDRMAGRI 376
           IK +G GE++++LE F P R   R+
Sbjct: 269 IKFIGTGEKIDELEVFNPRRFVARL 293

>pdb|3DMD|B Chain B, Structures And Conformations In Solution Of The Signal Recognition Particle Receptor From The Archaeon Pyrococcus Furiosus Length = 328

Iteration: 1
 Score =  169 bits (427), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 99/262 (37%), Positives = 146/262 (55%), Gaps = 4/262 (1%)
Query: 121 LLEADVSLPVVRRFVQAVSEQAVG----VGLIRGVRPDQQLVKIVRDELVKLMGGEVSEL 176
           LLEADV+L VV    + + ++ VG    +G  +G   ++ + + V + L      ++ E 
Sbjct: 63  LLEADVALEVVDALREKIKQKLVGKKVRIGTDKGKIIEEAVKEAVSEILETSRRIDLIEE 122
Query: 177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ 236
           +    +P VI+  G  G GKTT  AKLAN+LK  G S ++ A D +R  AI+QL    ++
Sbjct: 123 IRKAEKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEHAKR 182
Query: 237 VGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNP 296
           +GV V        P+ +A   ++ AK + +DVV++DTAGR + ++ +MDE+K + RV  P
Sbjct: 183 IGVKVIKHSYGADPAAVAYDAIQHAKARGIDVVLIDTAGRSETNRNLMDEMKKIARVTKP 242
Query: 297 TEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG 356
             V+ V DA+ G         FN  + I G ILTKLD D+RGGAALS+  V   PI  VG
Sbjct: 243 NLVIFVGDALAGNAIVEQARQFNEAVKIDGIILTKLDADARGGAALSISYVIDAPILFVG 302
Query: 357 RGERMEDLEPFYPDRMAGRILG 378
            G+  +DL PF  +    RI G
Sbjct: 303 VGQGYDDLRPFEKEWFLERIFG 324

>pdb|3DM9|B Chain B, Structures And Conformations In Solution Of The Signal Recognition Particle Receptor From The Archaeon Pyrococcus Furiosus Length = 328

Iteration: 1
 Score =  163 bits (413), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 98/262 (37%), Positives = 143/262 (54%), Gaps = 4/262 (1%)
Query: 121 LLEADVSLPVVRRFVQAVSEQAVG----VGLIRGVRPDQQLVKIVRDELVKLMGGEVSEL 176
           LLEADV+L VV    + + ++ VG    +G  +G   ++ + + V + L      ++ E 
Sbjct: 63  LLEADVALEVVDALREKIKQKLVGKKVRIGTDKGKIIEEAVKEAVSEILETSRRIDLIEE 122
Query: 177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ 236
           +    +P VI   G  G GKTT  AKLAN+LK  G S ++ A D +R  AI+QL    ++
Sbjct: 123 IRKAEKPYVIXFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEHAKR 182
Query: 237 VGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNP 296
           +GV V        P+ +A   ++ AK + +DVV++DTAGR + ++ + DE K + RV  P
Sbjct: 183 IGVKVIKHSYGADPAAVAYDAIQHAKARGIDVVLIDTAGRSETNRNLXDEXKKIARVTKP 242
Query: 297 TEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG 356
             V+ V DA+ G         FN  + I G ILTKLD D+RGGAALS+  V   PI  VG
Sbjct: 243 NLVIFVGDALAGNAIVEQARQFNEAVKIDGIILTKLDADARGGAALSISYVIDAPILFVG 302
Query: 357 RGERMEDLEPFYPDRMAGRILG 378
            G+  +DL PF  +    RI G
Sbjct: 303 VGQGYDDLRPFEKEWFLERIFG 324

>pdb|2OG2|A Chain A, Crystal Structure Of Chloroplast Ftsy From Arabidopsis Thaliana Length = 359

Iteration: 1
 Score =  159 bits (401), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 103/286 (36%), Positives = 152/286 (53%), Gaps = 12/286 (4%)
Query: 102 EETLTKENIVEPMR---DIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLV 158
           +E L   N+ E  R   ++  ALL +D    +  R V+ + E  +   L  G      L 
Sbjct: 75  DELLLFWNLAETDRVLDELEEALLVSDFGPKITVRIVERLREDIMSGKLKSGSEIKDALK 134
Query: 159 KIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA 218
           + V + L K      +EL     +P VI++ G+ G GKTT   KLA+ LK +G   ++ A
Sbjct: 135 ESVLEMLAK--KNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAA 192
Query: 219 GDVYRPAAIDQLVILGEQVGVPVYTA-GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRL 277
           GD +R AA DQL I  E+ G  +  A G + K + +  + ++  K++  DVV+ DT+GRL
Sbjct: 193 GDTFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKAVKRGKEEGYDVVLCDTSGRL 252
Query: 278 QIDKAMMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTK 331
             + ++M+EL   K+ +       P E+LLV+D  TG         FN  +GITG ILTK
Sbjct: 253 HTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQAREFNEVVGITGLILTK 312
Query: 332 LDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRIL 377
           LDG +RGG  +SV E  G P+K +G GE +EDL+PF P+     I 
Sbjct: 313 LDGSARGGCVVSVVEELGIPVKFIGVGEAVEDLQPFDPEAFVNAIF 358

>pdb|3B9Q|A Chain A, The Crystal Structure Of Cpftsy From Arabidopsis Thaliana Length = 302

Iteration: 1
 Score =  158 bits (400), Expect = 5e-39,   Method: Compositional matrix adjust.
 Identities = 103/286 (36%), Positives = 152/286 (53%), Gaps = 12/286 (4%)
Query: 102 EETLTKENIVEPMR---DIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLV 158
           +E L   N+ E  R   ++  ALL +D    +  R V+ + E  +   L  G      L 
Sbjct: 18  DELLLFWNLAETDRVLDELEEALLVSDFGPKITVRIVERLREDIMSGKLKSGSEIKDALK 77
Query: 159 KIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA 218
           + V + L K      +EL     +P VI++ G+ G GKTT   KLA+ LK +G   ++ A
Sbjct: 78  ESVLEMLAK--KNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAA 135
Query: 219 GDVYRPAAIDQLVILGEQVGVPVYTA-GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRL 277
           GD +R AA DQL I  E+ G  +  A G + K + +  + ++  K++  DVV+ DT+GRL
Sbjct: 136 GDTFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKAVKRGKEEGYDVVLCDTSGRL 195
Query: 278 QIDKAMMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTK 331
             + ++M+EL   K+ +       P E+LLV+D  TG         FN  +GITG ILTK
Sbjct: 196 HTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQAREFNEVVGITGLILTK 255
Query: 332 LDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRIL 377
           LDG +RGG  +SV E  G P+K +G GE +EDL+PF P+     I 
Sbjct: 256 LDGSARGGCVVSVVEELGIPVKFIGVGEAVEDLQPFDPEAFVNAIF 301

>pdb|4AK9|A Chain A, Structure Of Chloroplast Ftsy From Physcomitrella Patens Length = 318

Iteration: 1
 Score =  156 bits (394), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 99/278 (35%), Positives = 154/278 (55%), Gaps = 16/278 (5%)
Query: 102 EETLTKENIVEP---MRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLV 158
           +E LT  N+ E    + ++   LL +D       + V  + +  +   L  G     Q+ 
Sbjct: 34  DELLTYWNLDESESILDELEEVLLVSDFGPKTALKIVDTIRKDILAGRLKSG----PQIK 89
Query: 159 KIVRDELVKLMGGEVS--ELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCML 216
           + ++  + KL+   V+  EL    SRP V+++ G+ G GKTT   KLAN  KK+G   ++
Sbjct: 90  EALKKNIFKLLTERVTTTELQLGNSRPAVLMIVGVNGGGKTTTLGKLANRFKKEGVKVLM 149
Query: 217 VAGDVYRPAAIDQLVILGEQVGVPVYTA-GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAG 275
            AGD +R AA +QL +  ++ G  +  A G + +P+ +  Q +  A +++ DVV+ DT+G
Sbjct: 150 AAGDTFRAAAGEQLEVWAQRTGSEIVMAEGPKPRPAAVLSQAVRRAVEEDFDVVLCDTSG 209
Query: 276 RLQIDKAMMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAIL 329
           RL  +  +M+EL+  KR ++      P EVLLV+D  TG    A    FN  IG+TG IL
Sbjct: 210 RLHTNYNLMEELRGCKRAVSKALSSAPNEVLLVLDGTTGLNMLAQAREFNQVIGVTGFIL 269
Query: 330 TKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPF 367
           TKLDG +RGG  +SV +    P+K VG GE ++DL+PF
Sbjct: 270 TKLDGTARGGCVVSVVDELSIPVKFVGVGEGIDDLQPF 307

>pdb|1VMA|A Chain A, Crystal Structure Of Cell Division Protein Ftsy (Tm0570) From Thermotoga Maritima At 1.60 A Resolution Length = 306

Iteration: 1
 Score =  146 bits (369), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 87/194 (44%), Positives = 115/194 (59%), Gaps = 6/194 (3%)
Query: 183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY 242
           P VI++ G+ G GKTT   KLA     +GKS +L A D +R AAI+QL I GE+VG  V 
Sbjct: 104 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVI 163
Query: 243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN------P 296
           +      P+ +A   +  A  +N DVVI+DTAGRL   K +M+EL+ V RV+       P
Sbjct: 164 SHSEGADPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAP 223
Query: 297 TEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVG 356
            E LLV+DA TGQ        F   + +TG ILTKLDG ++GG  L++    G PIK +G
Sbjct: 224 HETLLVIDATTGQNGLVQAKIFKEAVNVTGIILTKLDGTAKGGITLAIARELGIPIKFIG 283
Query: 357 RGERMEDLEPFYPD 370
            GE+ EDL PF P+
Sbjct: 284 VGEKAEDLRPFDPE 297

>pdb|2Q9A|A Chain A, Structure Of Apo Ftsy Length = 304

Iteration: 1
 Score =  131 bits (330), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 72/181 (39%), Positives = 101/181 (55%), Gaps = 6/181 (3%)
Query: 196 KTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAK 255
           KTT  AKL  Y +  GK  M  AGD +R A   QL   G+++ +PV        P+ +A 
Sbjct: 115 KTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAY 174
Query: 256 QGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAMTGQ 309
             ++  K +  D++ VDTAGRL     +M+ELK VKR +       P EV LV+DA+TGQ
Sbjct: 175 DAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ 234
Query: 310 EAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYP 369
                   F+  +G+TG I+TKLDG ++GG  + +      PIK VG GE  +DL+PF P
Sbjct: 235 NGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDP 294
Query: 370 D 370
           +
Sbjct: 295 E 295

>pdb|1OKK|D Chain D, Homo-Heterodimeric Complex Of The Srp Gtpases Length = 303

Iteration: 1
 Score =  131 bits (330), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 72/181 (39%), Positives = 101/181 (55%), Gaps = 6/181 (3%)
Query: 196 KTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAK 255
           KTT  AKL  Y +  GK  M  AGD +R A   QL   G+++ +PV        P+ +A 
Sbjct: 114 KTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAY 173
Query: 256 QGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAMTGQ 309
             ++  K +  D++ VDTAGRL     +M+ELK VKR +       P EV LV+DA+TGQ
Sbjct: 174 DAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ 233
Query: 310 EAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYP 369
                   F+  +G+TG I+TKLDG ++GG  + +      PIK VG GE  +DL+PF P
Sbjct: 234 NGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDP 293
Query: 370 D 370
           +
Sbjct: 294 E 294

>pdb|2J7P|D Chain D, Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpases Ffh And Ftsy Length = 283

Iteration: 1
 Score =  131 bits (329), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 72/181 (39%), Positives = 101/181 (55%), Gaps = 6/181 (3%)
Query: 196 KTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAK 255
           KTT  AKL  Y +  GK  M  AGD +R A   QL   G+++ +PV        P+ +A 
Sbjct: 94  KTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAY 153
Query: 256 QGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAMTGQ 309
             ++  K +  D++ VDTAGRL     +M+ELK VKR +       P EV LV+DA+TGQ
Sbjct: 154 DAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ 213
Query: 310 EAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYP 369
                   F+  +G+TG I+TKLDG ++GG  + +      PIK VG GE  +DL+PF P
Sbjct: 214 NGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDP 273
Query: 370 D 370
           +
Sbjct: 274 E 274

>pdb|2CNW|D Chain D, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy Length = 284

Iteration: 1
 Score =  131 bits (329), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 72/181 (39%), Positives = 101/181 (55%), Gaps = 6/181 (3%)
Query: 196 KTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAK 255
           KTT  AKL  Y +  GK  M  AGD +R A   QL   G+++ +PV        P+ +A 
Sbjct: 95  KTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAY 154
Query: 256 QGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAMTGQ 309
             ++  K +  D++ VDTAGRL     +M+ELK VKR +       P EV LV+DA+TGQ
Sbjct: 155 DAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ 214
Query: 310 EAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYP 369
                   F+  +G+TG I+TKLDG ++GG  + +      PIK VG GE  +DL+PF P
Sbjct: 215 NGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDP 274
Query: 370 D 370
           +
Sbjct: 275 E 275

>pdb|1ZU4|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space Group P21212 Length = 320

Iteration: 1
 Score =  130 bits (328), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 73/205 (35%), Positives = 117/205 (57%), Gaps = 12/205 (5%)
Query: 178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQL-----VI 232
           F ++R  + +L G+ G GKTT  AK+ANY  + G   ++ A D +R  A  QL       
Sbjct: 100 FKENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADTFRAGATQQLEEWIKTR 159
Query: 233 LGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKR 292
           L  +V + V        P+ +    +++AK++N D++++DTAGRLQ    +M EL+ + +
Sbjct: 160 LNNKVDL-VKANKLNADPASVVFDAIKKAKEQNYDLLLIDTAGRLQNKTNLMAELEKMNK 218
Query: 293 VLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKE 346
           ++       P EVLLV+DA TGQ        F+    ++G ILTK+D  S+GG  L++KE
Sbjct: 219 IIQQVEKSAPHEVLLVIDATTGQNGVIQAEEFSKVADVSGIILTKMDSTSKGGIGLAIKE 278
Query: 347 VSGKPIKLVGRGERMEDLEPFYPDR 371
           +   PIK++G GE+++DL  F  D+
Sbjct: 279 LLNIPIKMIGVGEKVDDLLAFDIDQ 303

>pdb|1RJ9|A Chain A, Structure Of The Heterodimer Of The Conserved Gtpase Domains Signal Recognition Particle (Ffh) And Its Receptor (Ftsy) Length = 304

Iteration: 1
 Score =  128 bits (321), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 71/181 (39%), Positives = 100/181 (55%), Gaps = 6/181 (3%)
Query: 196 KTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAK 255
           KTT  AKL  Y +  GK  M  AGD +R A   QL   G+++ +PV         + +A 
Sbjct: 115 KTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDSAALAY 174
Query: 256 QGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAMTGQ 309
             ++  K +  D++ VDTAGRL     +M+ELK VKR +       P EV LV+DA+TGQ
Sbjct: 175 DAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ 234
Query: 310 EAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYP 369
                   F+  +G+TG I+TKLDG ++GG  + +      PIK VG GE  +DL+PF P
Sbjct: 235 NGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDP 294
Query: 370 D 370
           +
Sbjct: 295 E 295

>pdb|2PX0|A Chain A, Crystal Structure Of Flhf Complexed With GmppnpMG(2+) Length = 296

Iteration: 1
 Score = 62.0 bits (149), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 55/189 (29%), Positives = 86/189 (45%), Gaps = 14/189 (7%)
Query: 186 ILLAGLQGVGKTTVSAKLA--NYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT 243
           I+L G  G GKTT  AKLA  + L+K  K    +  D YR AA++QL    E +  P+  
Sbjct: 108 IVLFGSTGAGKTTTLAKLAAISMLEKH-KKIAFITTDTYRIAAVEQLKTYAELLQAPLEV 166
Query: 244 AGTEVKPSQIAKQGLEEAKK--KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLL 301
             T        K+  ++AK+     D V VDTAGR   D   +DELK+     +  +  L
Sbjct: 167 CYT--------KEEFQQAKELFSEYDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFL 218
Query: 302 VVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM 361
           V+ A    E    +      + +   I TK+D  +  G+  ++   S   +  +  G+ +
Sbjct: 219 VLSATAKYEDMKHIVKRFSSVPVNQYIFTKIDETTSLGSVFNILAESKIGVGFMTNGQNV 278
Query: 362 -EDLEPFYP 369
            ED++   P
Sbjct: 279 PEDIQTVSP 287

>pdb|1HQ1|A Chain A, Structural And Energetic Analysis Of Rna Recognition By A Universally Conserved Protein From The Signal Recognition Particle Length = 105

Iteration: 1
 Score = 50.8 bits (120), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/57 (47%), Positives = 38/57 (66%), Gaps = 3/57 (5%)
Query: 410 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREA--EKSLKIMEAMIEAMT 464
           FD NDFL+Q R +  MG M+ ++G +PGMG+I P  V+    +K L  MEA+I +MT
Sbjct: 2   FDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI-PDNVKSQMDDKVLVRMEAIINSMT 57

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	481
2xxa_A	433	Signal recognition particle protein; protein trans	0.0
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	0.0
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	0.0
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	0.0
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	0.0
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	0.0
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	1e-171
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	1e-168
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	3e-92
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	1e-85
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	4e-71
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	5e-71
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	4e-70
2og2_A	359	Putative signal recognition particle receptor; nuc	5e-70
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	3e-68
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	3e-67
1mfq_C	129	SRP54, signal recognition particle 54KDA protein;	1e-19
2jqe_A	119	SRP54, signal recognition 54 kDa protein; AF54, st	7e-17
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-15
1hq1_A	105	Signal recognition particle protein; protein-RNA c	1e-14
1qb2_A	109	SRP54, human signal recognition particle 54 KD pro	1e-14
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	1e-06
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	1e-05
3fgn_A	251	Dethiobiotin synthetase; biotin biosynthesis, BIOD	7e-05
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	2e-04
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	2e-04
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	2e-04
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	2e-04
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	3e-04
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	4e-04
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	6e-04
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	6e-04
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	9e-04

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9 Length = 433

 Score =  575 bits (1484), Expect = 0.0
 Identities = 190/385 (49%), Positives = 256/385 (66%), Gaps = 3/385 (0%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF  LT  L      + G   LT++N+ + +R++R ALLEADV+LPVVR F+  V E+AV
Sbjct: 1   MFDNLTDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAV 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  + + + P Q+ VKIVR+ELV  MG E   L  A   P V+L+AGLQG GKTT   KL
Sbjct: 61  GHEVNKSLTPGQEFVKIVRNELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKL 120

Query: 204 ANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK 262
             +L+ K  K  ++V+ DVYRPAAI QL  L EQVGV  + +    KP  I    L+EAK
Sbjct: 121 GKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKEAK 180

Query: 263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI 322
            K  DV++VDTAGRL +D+AMMDE+K V   +NP E L VVDAMTGQ+AA     FN  +
Sbjct: 181 LKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEAL 240

Query: 323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 382
            +TG +LTK+DGD+RGGAALS++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDV
Sbjct: 241 PLTGVVLTKVDGDARGGAALSIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDV 300

Query: 383 LSFVEKAQEVMQQEDAEEMQKKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI 441
           LS +E  +  + +  AE++  K+   + FD NDFL+Q R +  MG M+ ++G +PGMG+I
Sbjct: 301 LSLIEDIESKVDRAQAEKLASKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI 360

Query: 442 TP-AQVREAEKSLKIMEAMIEAMTP 465
               + +  +K L  MEA+I +MT 
Sbjct: 361 PDNVKSQMDDKVLVRMEAIINSMTM 385

>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 Length = 433

 Score =  569 bits (1470), Expect = 0.0
 Identities = 133/382 (34%), Positives = 215/382 (56%), Gaps = 8/382 (2%)

Query: 92  LEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGV 151
           +  A  K     T  ++ + E ++D++++L+ +DV++ +V      + E+         +
Sbjct: 6   IRDAVRKFLTGSTPYEKAVDEFIKDLQKSLISSDVNVKLVFSLTAKIKERLNKEKPPSVL 65

Query: 152 RPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQG 211
              +  + IV DEL KL GG+    V     P +I+L G+QG GKTT + KLA + KK+G
Sbjct: 66  ERKEWFISIVYDELSKLFGGDKEPNVNPTKLPFIIMLVGVQGSGKTTTAGKLAYFYKKRG 125

Query: 212 KSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIV 271
               LVA DVYRPAA DQL+ LG Q+GV VY       P +IAK+G++   K  +D++IV
Sbjct: 126 YKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDIFVKNKMDIIIV 185

Query: 272 DTAGRLQID--KAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAIL 329
           DTAGR        +++E+K++  VL P +V+LV+DA  GQ+A  L + F+    I   I+
Sbjct: 186 DTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQASPIGSVII 245

Query: 330 TKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKA 389
           TK+DG ++GG ALS    +G  IK +G GE++++LE F   R   RILGMGD+ S +EK 
Sbjct: 246 TKMDGTAKGGGALSAVVATGATIKFIGTGEKIDELETFNAKRFVSRILGMGDIESILEKV 305

Query: 390 QEVMQQEDAEEMQKKIMSAN--FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA--- 444
           + + + +  ++  + +M         D   Q   + +MG +S+V+  IPG+G + P    
Sbjct: 306 KGLEEYDKIQKKMEDVMEGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSE 365

Query: 445 -QVREAEKSLKIMEAMIEAMTP 465
            Q++  E+ ++   A + +MT 
Sbjct: 366 DQLKIGEEKIRRWLAALNSMTY 387

>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} Length = 443

 Score =  569 bits (1468), Expect = 0.0
 Identities = 135/384 (35%), Positives = 222/384 (57%), Gaps = 3/384 (0%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           +   L   L     K+    ++ +  I E +RDI+RAL++ADV++ +V +  + +  +A+
Sbjct: 2   VLDNLGKALANTLKKIARASSVDEALIKELVRDIQRALIQADVNVRLVLQLTREIQRRAL 61

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
                 G+   + ++KIV +EL K +G E   +   K +PT++L+ G+QG GKTT  AKL
Sbjct: 62  EEKPPAGISKKEHIIKIVYEELTKFLGTEAKPIEI-KEKPTILLMVGIQGSGKTTTVAKL 120

Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y +K+G    +V  D +RP A  QL  L ++  + V+    E    ++AK+G++  K 
Sbjct: 121 ARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYFKS 180

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           K VD++IVDTAGR + DKA+++E+K +  V++P EV+LV+D   GQ+A      F     
Sbjct: 181 KGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQALAFKEATP 240

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           I   I+TKLDG ++GG ALS    +G PIK +G GE+++D+EPF P R   R+LG+GD+ 
Sbjct: 241 IGSIIVTKLDGSAKGGGALSAVAATGAPIKFIGTGEKIDDIEPFDPPRFVSRLLGLGDIQ 300

Query: 384 SFVEKAQE-VMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKIT 442
             +EK +E   + E  EE  ++ +   F   D   Q   + +MG + +++ MIPG+G   
Sbjct: 301 GLLEKFKELEKEVEIKEEDIERFLRGKFTLKDMYAQLEAMRKMGPLKQILRMIPGLGYSL 360

Query: 443 P-AQVREAEKSLKIMEAMIEAMTP 465
           P   +   E+ LK  + ++++MT 
Sbjct: 361 PDDVISIGEERLKKFKVIMDSMTE 384

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A Length = 425

 Score =  567 bits (1465), Expect = 0.0
 Identities = 171/382 (44%), Positives = 252/382 (65%), Gaps = 11/382 (2%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEAL 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE    V       +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGEARLPVLKD--RNLWFLVGLQGSGKTTTAAKL 118

Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMGDV 
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDVA 298

Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
           S  EK +    + +A +  K+         DFLKQ + + R+G  S ++G++PG+ +   
Sbjct: 299 SLAEKVRAAGLEAEAPKSAKE-----LSLEDFLKQMQNLKRLGPFSEILGLLPGVPQ--- 350

Query: 444 AQVREAEKSLKIMEAMIEAMTP 465
             ++  EK++K +EA++ +MTP
Sbjct: 351 -GLKVDEKAIKRLEAIVLSMTP 371

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A Length = 504

 Score =  567 bits (1464), Expect = 0.0
 Identities = 117/384 (30%), Positives = 205/384 (53%), Gaps = 3/384 (0%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           +   L   + +A   L     + +E +   ++++  ALLEADV++ +V++  + V     
Sbjct: 2   VLADLGRKITSALRSLSNATIINEEVLNAMLKEVCTALLEADVNIKLVKQLRENVKSAID 61

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
              +  G+   + +   V  ELVKL+   V      K +  VI+  GLQG GKTT  +KL
Sbjct: 62  LEEMASGLNKRKMIQHAVFKELVKLVDPGVKAWTPTKGKQNVIMFVGLQGSGKTTTCSKL 121

Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y +++G    L+  D +R  A DQL     +  +P Y + TE+ P  IA +G+E+ K 
Sbjct: 122 AYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKFKN 181

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +N +++IVDT+GR + + ++ +E+  V   + P  ++ V+DA  GQ   A    F  ++ 
Sbjct: 182 ENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEAQAKAFKDKVD 241

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVL 383
           +   I+TKLDG ++GG ALS    +  PI  +G GE ++D EPF       ++LGMGD+ 
Sbjct: 242 VASVIVTKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIE 301

Query: 384 SFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP 443
             ++K  E+ + +D E + +K+    F   D  +Q + + +MG  S+++GMIPG G    
Sbjct: 302 GLIDKVNEL-KLDDNEALIEKLKHGQFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFM 360

Query: 444 AQ--VREAEKSLKIMEAMIEAMTP 465
           ++   +E+   LK +  ++++M  
Sbjct: 361 SKGNEQESMARLKKLMTIMDSMND 384

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B Length = 432

 Score =  557 bits (1439), Expect = 0.0
 Identities = 154/381 (40%), Positives = 232/381 (60%), Gaps = 6/381 (1%)

Query: 88  LTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGL 147
           L   L  A NKLK    + K+ I E ++DI+RAL++ADV++ +V +  + +  +A+    
Sbjct: 4   LGENLNKALNKLKAAAFVDKKLIKEVIKDIQRALIQADVNVKLVLKMSKEIERRALEEKT 63

Query: 148 IRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYL 207
            +G+   + ++KIV +ELVKL+G E  +L     +  VILL G+QG GKTT +AKLA Y+
Sbjct: 64  PKGLSKKEHIIKIVYEELVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARYI 123

Query: 208 KKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVK-PSQIAKQGLEEAKKKNV 266
           +K+G    L+A D YRPAA +QL  L E++ VP+Y   T  K P  I K+G+E+ KK   
Sbjct: 124 QKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEKFKKA-- 181

Query: 267 DVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITG 326
           DV+I+DTAGR + +K +++E+K +K + NP E++LV+D   GQ+A      F   +G  G
Sbjct: 182 DVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQAGIQAKAFKEAVGEIG 241

Query: 327 A-ILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSF 385
           + I+TKLDG ++GG ALS    +  PIK +G GE ++DLEPF P +   R+LGMGD+ S 
Sbjct: 242 SIIVTKLDGSAKGGGALSAVAETKAPIKFIGIGEGIDDLEPFDPKKFISRLLGMGDLESL 301

Query: 386 VEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP-A 444
           +EKA++++  E  EE    IM   F  N+ + Q   +  MGSM +++ MIPG G   P  
Sbjct: 302 LEKAEDMV-DEKTEESIDAIMRGKFTLNELMTQLEAIENMGSMKKILSMIPGFGGAMPKE 360

Query: 445 QVREAEKSLKIMEAMIEAMTP 465
                E  +K  + +I +MT 
Sbjct: 361 LSHLTEAKIKKYKVIISSMTK 381

>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* Length = 295

 Score =  482 bits (1243), Expect = e-171
 Identities = 145/297 (48%), Positives = 204/297 (68%), Gaps = 2/297 (0%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEAL 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKL 203
           G  ++  + P + ++  V + L + +GGE    V       +  L GLQG GKTT +AKL
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGGEARLPVLKD--RNLWFLVGLQGSGKTTTAAKL 118

Query: 204 ANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK 263
           A Y K +G+  +LVA D  RPAA +QL +LGE+VGVPV        P  I ++  E+A+ 
Sbjct: 119 ALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARL 178

Query: 264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG 323
           +  D+++VDTAGRLQID+ +M EL  +K VL P EVLLV+DAMTGQEA ++   F+ ++G
Sbjct: 179 EARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG 238

Query: 324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG 380
           +TG +LTKLDGD+RGGAALS + V+GKPI   G  E+ E LEPFYP+R+AGRILGMG
Sbjct: 239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMG 295

>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 Length = 297

 Score =  475 bits (1225), Expect = e-168
 Identities = 107/294 (36%), Positives = 167/294 (56%), Gaps = 2/294 (0%)

Query: 87  QLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVG 146
           +L   L     K     +   + + + +++++++L+ ADV++ +V      + E+     
Sbjct: 2   KLLDNLRDTVRKFLTGSSSYDKAVEDFIKELQKSLISADVNVKLVFSLTNKIKERLKNEK 61

Query: 147 LIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANY 206
               +   +  +KIV DEL  L GG+    V     P VI+L G+QG GKTT + KLA +
Sbjct: 62  PPTYIERREWFIKIVYDELSNLFGGDKEPKVIPDKIPYVIMLVGVQGTGKTTTAGKLAYF 121

Query: 207 LKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNV 266
            KK+G    LV  DVYRPAA++QL  LG+Q+GVPVY    E     IAK+G+E+   + +
Sbjct: 122 YKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFLSEKM 181

Query: 267 DVVIVDTAGRLQID--KAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGI 324
           +++IVDTAGR       A+++E+K++   + P EV LV+DA  GQ+A  L + FN    I
Sbjct: 182 EIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKI 241

Query: 325 TGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG 378
              I+TK+DG ++GG ALS    +G  IK +G GE++++LE F P R   R+  
Sbjct: 242 GTIIITKMDGTAKGGGALSAVAATGATIKFIGTGEKIDELEVFNPRRFVARLHH 295

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A* Length = 296

 Score =  281 bits (720), Expect = 3e-92
 Identities = 65/308 (21%), Positives = 121/308 (39%), Gaps = 18/308 (5%)

Query: 74  GRRRLIVRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRR 133
           G       +    + T   +    +  G+ +  +  + EP+R   + L E  +       
Sbjct: 2   GHHHHHHSSPKIEERTYPPQIPAQQELGDFSAYQSVLPEPLRKAEKLLQETGIKESTKTN 61

Query: 134 FVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQG 193
            ++ +   +V      G   ++ +V  +++ L  ++                I+L G  G
Sbjct: 62  TLKKLLRFSVE----AGGLTEENVVGKLQEILCDMLPSADKWQE--PIHSKYIVLFGSTG 115

Query: 194 VGKTTVSAKLAN-YLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQ 252
            GKTT  AKLA   + ++ K    +  D YR AA++QL    E +  P+    T      
Sbjct: 116 AGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYT------ 169

Query: 253 IAKQGLEEAKK--KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE 310
             K+  ++AK+     D V VDTAGR   D   +DELK+     +  +  LV+ A    E
Sbjct: 170 --KEEFQQAKELFSEYDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAKYE 227

Query: 311 AAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM-EDLEPFYP 369
               +      + +   I TK+D  +  G+  ++   S   +  +  G+ + ED++   P
Sbjct: 228 DMKHIVKRFSSVPVNQYIFTKIDETTSLGSVFNILAESKIGVGFMTNGQNVPEDIQTVSP 287

Query: 370 DRMAGRIL 377
                 + 
Sbjct: 288 LGFVRMLC 295

>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* Length = 328

 Score =  265 bits (679), Expect = 1e-85
 Identities = 97/278 (34%), Positives = 156/278 (56%), Gaps = 4/278 (1%)

Query: 105 LTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDE 164
           + ++++ + + ++   LLEADV+L VV    + + ++ VG  +  G    + + + V++ 
Sbjct: 47  IKEKDVDKALDELEIDLLEADVALEVVDALREKIKQKLVGKKVRIGTDKGKIIEEAVKEA 106

Query: 165 LVKLMGG----EVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD 220
           + +++      ++ E +    +P VI+  G  G GKTT  AKLAN+LK  G S ++ A D
Sbjct: 107 VSEILETSRRIDLIEEIRKAEKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASD 166

Query: 221 VYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQID 280
            +R  AI+QL    +++GV V        P+ +A   ++ AK + +DVV++DTAGR + +
Sbjct: 167 TFRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQHAKARGIDVVLIDTAGRSETN 226

Query: 281 KAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGA 340
           + +MDE+K + RV  P  V+ V DA+ G         FN  + I G ILTKLD D+RGGA
Sbjct: 227 RNLMDEMKKIARVTKPNLVIFVGDALAGNAIVEQARQFNEAVKIDGIILTKLDADARGGA 286

Query: 341 ALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG 378
           ALS+  V   PI  VG G+  +DL PF  +    RI G
Sbjct: 287 ALSISYVIDAPILFVGVGQGYDDLRPFEKEWFLERIFG 324

>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 Length = 306

 Score =  227 bits (581), Expect = 4e-71
 Identities = 94/256 (36%), Positives = 141/256 (55%), Gaps = 19/256 (7%)

Query: 121 LLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAK 180
           L++ADV +      ++ + E+            D   ++ +++ +++++    ++L    
Sbjct: 55  LIQADVGVETTEYILERLEEK------------DGDALESLKEIILEILN-FDTKLNVPP 101

Query: 181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVP 240
             P VI++ G+ G GKTT   KLA     +GKS +L A D +R AAI+QL I GE+VG  
Sbjct: 102 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGAT 161

Query: 241 VYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN----- 295
           V +      P+ +A   +  A  +N DVVI+DTAGRL   K +M+EL+ V RV+      
Sbjct: 162 VISHSEGADPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPD 221

Query: 296 -PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKL 354
            P E LLV+DA TGQ        F   + +TG ILTKLDG ++GG  L++    G PIK 
Sbjct: 222 APHETLLVIDATTGQNGLVQAKIFKEAVNVTGIILTKLDGTAKGGITLAIARELGIPIKF 281

Query: 355 VGRGERMEDLEPFYPD 370
           +G GE+ EDL PF P+
Sbjct: 282 IGVGEKAEDLRPFDPE 297

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana} Length = 302

 Score =  227 bits (580), Expect = 5e-71
 Identities = 90/260 (34%), Positives = 145/260 (55%), Gaps = 13/260 (5%)

Query: 120 ALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLM--GGEVSELV 177
           ALL +D    +  R V+ + E      +   ++   ++   +++ +++++      +EL 
Sbjct: 39  ALLVSDFGPKITVRIVERLREDI----MSGKLKSGSEIKDALKESVLEMLAKKNSKTELQ 94

Query: 178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQV 237
               +P VI++ G+ G GKTT   KLA+ LK +G   ++ AGD +R AA DQL I  E+ 
Sbjct: 95  LGFRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASDQLEIWAERT 154

Query: 238 GVPVYTAGTE-VKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN- 295
           G  +  A  +  K + +  + ++  K++  DVV+ DT+GRL  + ++M+EL   K+ +  
Sbjct: 155 GCEIVVAEGDKAKAATVLSKAVKRGKEEGYDVVLCDTSGRLHTNYSLMEELIACKKAVGK 214

Query: 296 -----PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGK 350
                P E+LLV+D  TG         FN  +GITG ILTKLDG +RGG  +SV E  G 
Sbjct: 215 IVSGAPNEILLVLDGNTGLNMLPQAREFNEVVGITGLILTKLDGSARGGCVVSVVEELGI 274

Query: 351 PIKLVGRGERMEDLEPFYPD 370
           P+K +G GE +EDL+PF P+
Sbjct: 275 PVKFIGVGEAVEDLQPFDPE 294

>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 Length = 503

 Score =  230 bits (588), Expect = 4e-70
 Identities = 101/268 (37%), Positives = 152/268 (56%), Gaps = 10/268 (3%)

Query: 120 ALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFA 179
            LL ADV +   R+ +  ++E A      + +R  + L  ++++E+ +++      L   
Sbjct: 234 QLLIADVGVETTRKIITNLTEGASR----KQLRDAEALYGLLKEEMGEILAKVDEPLNVE 289

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV 239
              P VIL+ G+ GVGKTT   KLA   ++QGKS ML AGD +R AA++QL + G++  +
Sbjct: 290 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNI 349

Query: 240 PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN---- 295
           PV    T    + +    ++ AK +N+DV+I DTAGRLQ    +M+ELK + RV+     
Sbjct: 350 PVIAQHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDV 409

Query: 296 --PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIK 353
             P EV+L +DA TGQ A +    F+  +G+TG  LTKLDG ++GG   SV +  G PI+
Sbjct: 410 EAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIR 469

Query: 354 LVGRGERMEDLEPFYPDRMAGRILGMGD 381
            +G GER+EDL PF  D     +    D
Sbjct: 470 YIGVGERIEDLRPFKADDFIEALFARED 497

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana} Length = 359

 Score =  226 bits (578), Expect = 5e-70
 Identities = 90/260 (34%), Positives = 145/260 (55%), Gaps = 13/260 (5%)

Query: 120 ALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLM--GGEVSELV 177
           ALL +D    +  R V+ + E      +   ++   ++   +++ +++++      +EL 
Sbjct: 96  ALLVSDFGPKITVRIVERLREDI----MSGKLKSGSEIKDALKESVLEMLAKKNSKTELQ 151

Query: 178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQV 237
               +P VI++ G+ G GKTT   KLA+ LK +G   ++ AGD +R AA DQL I  E+ 
Sbjct: 152 LGFRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASDQLEIWAERT 211

Query: 238 GVPVYTAGTE-VKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN- 295
           G  +  A  +  K + +  + ++  K++  DVV+ DT+GRL  + ++M+EL   K+ +  
Sbjct: 212 GCEIVVAEGDKAKAATVLSKAVKRGKEEGYDVVLCDTSGRLHTNYSLMEELIACKKAVGK 271

Query: 296 -----PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGK 350
                P E+LLV+D  TG         FN  +GITG ILTKLDG +RGG  +SV E  G 
Sbjct: 272 IVSGAPNEILLVLDGNTGLNMLPQAREFNEVVGITGLILTKLDGSARGGCVVSVVEELGI 331

Query: 351 PIKLVGRGERMEDLEPFYPD 370
           P+K +G GE +EDL+PF P+
Sbjct: 332 PVKFIGVGEAVEDLQPFDPE 351

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A Length = 320

 Score =  220 bits (562), Expect = 3e-68
 Identities = 77/265 (29%), Positives = 136/265 (51%), Gaps = 21/265 (7%)

Query: 121 LLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLM-----GGEVSE 175
           L++ D+ + +V +    V ++       +     + +   + + L +         +   
Sbjct: 44  LIQTDMGMKMVLKVSNLVRKK------TKRDTSFENIKDALVESLYQAYTDNDWTNKKYR 97

Query: 176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE 235
           + F ++R  + +L G+ G GKTT  AK+ANY  + G   ++ A D +R  A  QL    +
Sbjct: 98  IDFKENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADTFRAGATQQLEEWIK 157

Query: 236 Q---VGVPVYTAGTE-VKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVK 291
                 V +  A      P+ +    +++AK++N D++++DTAGRLQ    +M EL+ + 
Sbjct: 158 TRLNNKVDLVKANKLNADPASVVFDAIKKAKEQNYDLLLIDTAGRLQNKTNLMAELEKMN 217

Query: 292 RVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVK 345
           +++       P EVLLV+DA TGQ        F+    ++G ILTK+D  S+GG  L++K
Sbjct: 218 KIIQQVEKSAPHEVLLVIDATTGQNGVIQAEEFSKVADVSGIILTKMDSTSKGGIGLAIK 277

Query: 346 EVSGKPIKLVGRGERMEDLEPFYPD 370
           E+   PIK++G GE+++DL  F  D
Sbjct: 278 ELLNIPIKMIGVGEKVDDLLAFDID 302

>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* Length = 304

 Score =  217 bits (554), Expect = 3e-67
 Identities = 91/261 (34%), Positives = 135/261 (51%), Gaps = 13/261 (4%)

Query: 120 ALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLM----GGEVSE 175
           ALL ADV L      +Q V   +    L   V+  ++LV ++  +  +      G    +
Sbjct: 38  ALLAADVGLSATEEILQEV-RASGRKDLKEAVK--EKLVGMLEPDERRATLRKLGFNPQK 94

Query: 176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE 235
               + +  V+L+ G+ GVGKTT  AKL  Y +  GK  M  AGD +R A   QL   G+
Sbjct: 95  PKPVEPKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGK 154

Query: 236 QVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN 295
           ++ +PV         + +A   ++  K +  D++ VDTAGRL     +M+ELK VKR + 
Sbjct: 155 RLSIPVIQGPEGTDSAALAYDAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIA 214

Query: 296 ------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSG 349
                 P EV LV+DA+TGQ        F+  +G+TG I+TKLDG ++GG  + +     
Sbjct: 215 KADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLK 274

Query: 350 KPIKLVGRGERMEDLEPFYPD 370
            PIK VG GE  +DL+PF P+
Sbjct: 275 VPIKFVGVGEGPDDLQPFDPE 295

>1mfq_C SRP54, signal recognition particle 54KDA protein; RNA-protein complex, A-minor motif, 3-helix junction, signaling protein/RNA complex; HET: CCC; 3.10A {Homo sapiens} SCOP: a.36.1.1 Length = 129

 Score = 83.5 bits (207), Expect = 1e-19
 Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 2/70 (2%)

Query: 398 AEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP--AQVREAEKSLKI 455
                       F   D  +Q + + +MG  S+++GMIPG G         +E+   LK 
Sbjct: 3   GSHHHHHHKHGQFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKK 62

Query: 456 MEAMIEAMTP 465
           +  ++++M  
Sbjct: 63  LMTIMDSMND 72

>2jqe_A SRP54, signal recognition 54 kDa protein; AF54, structure, solution, signaling protein; NMR {Archaeoglobus fulgidus} Length = 119

 Score = 75.7 bits (187), Expect = 7e-17
 Identities = 11/65 (16%), Positives = 27/65 (41%), Gaps = 2/65 (3%)

Query: 403 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP--AQVREAEKSLKIMEAMI 460
             +    F   D  KQ   + +MG + ++  M+P    +      +   ++ +K    ++
Sbjct: 3   GTMEKGTFTLKDIYKQIEAMNKMGPVRKIFEMLPFGLGLKVDNDVMEMTQEKMKKFRVIM 62

Query: 461 EAMTP 465
           ++MT 
Sbjct: 63  DSMTE 67

>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 = 77.6 bits (190), Expect = 3e-15
 Identities = 71/470 (15%), Positives = 136/470 (28%), Gaps = 143/470 (30%)

Query: 34  FVSSWAASSDPARLSSTSRNLFT-RETWGLINSKSVTIRRNGRRRL--IVR------AEM 84
           F  ++  + D   +    +++ +  E   +I SK      +G  RL   +        + 
Sbjct: 25  FEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD---AVSGTLRLFWTLLSKQEEMVQK 81

Query: 85  FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIR-----RALLEADVSLPVVRRFVQAVS 139
           F  +   L   +  L     +  E   +P    R     R  L  D      +  V    
Sbjct: 82  F--VEEVLRINYKFLM--SPIKTEQR-QPSMMTRMYIEQRDRLYNDNQ-VFAKYNVS--- 132

Query: 140 EQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRP-TVILLAGLQGVGKTT 198
                       R   Q    +R  L++L             RP   +L+ G+ G GKT 
Sbjct: 133 ------------RL--QPYLKLRQALLEL-------------RPAKNVLIDGVLGSGKTW 165

Query: 199 VSAKLANYLKKQGKSCM------LVAGDVYRPAAI-DQLVILGEQVGVPVYTAGTEVKPS 251
           V+  +    K Q    M      L   +   P  + + L  L  Q+  P +T+ ++   S
Sbjct: 166 VALDVCLSYKVQ--CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI-DPNWTSRSD--HS 220

Query: 252 QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKA------MMDELKDVKRVLNPTEVLLVVDA 305
              K  +   + +           RL   K       ++  +++ K            +A
Sbjct: 221 SNIKLRIHSIQAELR---------RLLKSKPYENCLLVLLNVQNAK----------AWNA 261

Query: 306 MTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLE 365
                   L+TT   ++                     +   +   I L           
Sbjct: 262 FNLS-CKILLTTRFKQV------------------TDFLSAATTTHISLD------HHSM 296

Query: 366 PFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQK------KIMSANF-DFNDFLKQ 418
              PD          +V S + K  +   Q+   E+         I++ +  D       
Sbjct: 297 TLTPD----------EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346

Query: 419 TRTVARMGSMSRVIGMIPGMGKITPAQVREA-------EKSLKIMEAMIE 461
            + V     ++ +I     +  + PA+ R+          S  I   ++ 
Sbjct: 347 WKHVNCD-KLTTIIES--SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS 393

>1hq1_A Signal recognition particle protein; protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.52A {Escherichia coli} SCOP: a.36.1.1 PDB: 3lqx_A* 2pxb_A 2pxd_A 2pxe_A 2pxf_A 2pxk_A 2pxl_A 2pxp_A 2pxq_A 2pxt_A 2pxu_A 2pxv_A Length = 105

 Score = 68.7 bits (169), Expect = 1e-14
 Identities = 25/57 (43%), Positives = 37/57 (64%), Gaps = 1/57 (1%)

Query: 410 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP-AQVREAEKSLKIMEAMIEAMTP 465
           FD NDFL+Q R +  MG M+ ++G +PGMG+I    + +  +K L  MEA+I +MT 
Sbjct: 2   FDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNVKSQMDDKVLVRMEAIINSMTM 58

>1qb2_A SRP54, human signal recognition particle 54 KD protein; alpha-helix, helix-turn-helix, signaling protein; 2.10A {Homo sapiens} SCOP: a.36.1.1 PDB: 1ry1_W* 2go5_W Length = 109

 Score = 68.8 bits (169), Expect = 1e-14
 Identities = 16/58 (27%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 410 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVRE--AEKSLKIMEAMIEAMTP 465
           F   D  +Q + + +MG  S+++GMIPG G    ++  E  +   LK +  ++++M  
Sbjct: 2   FTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMND 59

>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* Length = 260

 Score = 48.7 bits (116), Expect = 1e-06
 Identities = 28/125 (22%), Positives = 50/125 (40%), Gaps = 18/125 (14%)

Query: 181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVP 240
               +I+L GL GVGK+T S  LA  L K     +++  D+ R                P
Sbjct: 2   GDIMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIR-------------ESFP 48

Query: 241 VYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVL 300
           V+    E    +   + ++ A K    V++ DT        +M  +L ++ +  N    +
Sbjct: 49  VWKEKYEEFIKKSTYRLIDSALKNYW-VIVDDTN----YYNSMRRDLINIAKKYNKNYAI 103

Query: 301 LVVDA 305
           + + A
Sbjct: 104 IYLKA 108

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1 Length = 194

 Score = 44.7 bits (105), Expect = 1e-05
 Identities = 27/120 (22%), Positives = 49/120 (40%), Gaps = 2/120 (1%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV-AGDVYRPAAIDQLVILGEQVGVPVYT 243
           + ++ G+ GVGK+TV AK+   L  QG +  ++  GD     A+             +  
Sbjct: 3   IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINYGDFMLATALKLGYAKDRDEMRKLSV 62

Query: 244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDEL-KDVKRVLNPTEVLLV 302
              +      AK   EEA+      + +DT   ++     +  L   V   +NP+ + L+
Sbjct: 63  EKQKKLQIDAAKGIAEEARAGGEGYLFIDTHAVIRTPSGYLPGLPSYVITEINPSVIFLL 122

>3fgn_A Dethiobiotin synthetase; biotin biosynthesis, BIOD, ATP-BIND ligase, magnesium, nucleotide-binding; 1.85A {Mycobacterium tuberculosis} PDB: 3fmf_A* 3fmi_A* 3fpa_A* Length = 251

 Score = 43.2 bits (102), Expect = 7e-05
 Identities = 30/149 (20%), Positives = 51/149 (34%), Gaps = 33/149 (22%)

Query: 193 GVGKTTVSAKLANYLKKQGKS----------CMLVAGDVYRPAAIDQLVILGEQVGVPVY 242
           GVGKT V A LA+  ++ G                  D+   A + +L  + +  G+  Y
Sbjct: 37  GVGKTVVCAALASAARQAGIDVAVCKPVQTGTARGDDDL---AEVGRLAGVTQLAGLARY 93

Query: 243 T-----------AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAG----RLQIDKAMMDEL 287
                       AG  +       + + +  +    + +V+ AG     L         L
Sbjct: 94  PQPMAPAAAAEHAGMALPARDQIVRLIADLDRPG-RLTLVEGAGGLLVELAEPGVT---L 149

Query: 288 KDVKRVLNPTEVLLVVDAMTGQEAAALVT 316
           +DV   +     L+VV A  G      +T
Sbjct: 150 RDVAVDVAA-AALVVVTADLGTLNHTKLT 177

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae} Length = 253

 Score = 42.2 bits (98), Expect = 2e-04
 Identities = 27/136 (19%), Positives = 51/136 (37%), Gaps = 10/136 (7%)

Query: 154 DQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKS 213
           D +    +   L  L  G+ S       +P  ILL G  G GKTT+        K+   +
Sbjct: 8   DSEFKHALARNLRSLTRGKKSS-----KQPIAILLGGQSGAGKTTIHRIK---QKEFQGN 59

Query: 214 CMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDT 273
            +++ GD +R      L +  E          T+    ++ +  + +      +++I  T
Sbjct: 60  IVIIDGDSFRSQHPHYLELQQE--YGKDSVEYTKDFAGKMVESLVTKLSSLGYNLLIEGT 117

Query: 274 AGRLQIDKAMMDELKD 289
              + + K     LK+
Sbjct: 118 LRTVDVPKKTAQLLKN 133

>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* Length = 206

 Score = 41.6 bits (98), Expect = 2e-04
 Identities = 23/85 (27%), Positives = 31/85 (36%), Gaps = 9/85 (10%)

Query: 193 GVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQ 252
           G GKTT    +A  L + G +  +V  D               +    V+TA +E     
Sbjct: 12  GSGKTTAVINIATALSRSGYNIAVVDTDPQMSLT---NWSKAGKAAFDVFTAASEKDVYG 68

Query: 253 IAKQGLEEAKKKNVDVVIVDTAGRL 277
           I K         + D  IVD AG L
Sbjct: 69  IRKD------LADYDFAIVDGAGSL 87

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A Length = 192

 Score = 41.2 bits (96), Expect = 2e-04
 Identities = 29/120 (24%), Positives = 51/120 (42%), Gaps = 5/120 (4%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV-AGDVYRPAAIDQLVILGEQVGVPVYT 243
           V+++ G+ GVG TT S    + L+K+G +  +V  G V    A ++ ++        +  
Sbjct: 5   VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFGSVMFEVAKEENLVSDRD---QMRK 61

Query: 244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDEL-KDVKRVLNPTEVLLV 302
              E +       G + A+      V VDT   +   K  +  L   V   LNP  +++V
Sbjct: 62  MDPETQKRIQKMAGRKIAEMAKESPVAVDTHSTVSTPKGYLPGLPSWVLNELNPDLIIVV 121

>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} Length = 193

 Score = 41.1 bits (96), Expect = 2e-04
 Identities = 23/109 (21%), Positives = 41/109 (37%), Gaps = 11/109 (10%)

Query: 181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVP 240
             P +I++ G    GKTT+S  LA  L        L++ D ++    D L     +    
Sbjct: 3   QTPALIIVTGHPATGKTTLSQALATGL-----RLPLLSKDAFKEVMFDGLGWSDREWSRR 57

Query: 241 VYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKD 289
           V      +     A   L+  +      +I+++  R+ +D   M  L  
Sbjct: 58  VGATAIMM-LYHTAATILQSGQ-----SLIMESNFRVDLDTERMQNLHT 100

>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 Length = 174

 Score = 41.0 bits (95), Expect = 3e-04
 Identities = 25/157 (15%), Positives = 48/157 (30%), Gaps = 16/157 (10%)

Query: 179 AKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD--------------VYRP 224
            K+   ++  A   G GKTT+  KL   L  +G    L+                   R 
Sbjct: 2   GKTMIPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHDMDVDKPGKDSYELRK 61

Query: 225 AAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMM 284
           A   Q ++  +Q    +     E +     +          +D+++V+     +I K ++
Sbjct: 62  AGAAQTIVASQQRWALMTETPDEEELD--LQFLASRMDTSKLDLILVEGFKHEEIAKIVL 119

Query: 285 DELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIE 321
                  R         V+   +       V   +I 
Sbjct: 120 FRDGAGHRPEELVIDRHVIAVASDVPLNLDVALLDIN 156

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6 Length = 201

 Score = 40.4 bits (95), Expect = 4e-04
 Identities = 13/61 (21%), Positives = 29/61 (47%), Gaps = 2/61 (3%)

Query: 162 RDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV 221
             + +  +   +  +    +   V+ + GL   GKTT++ +L+  L++QG S  +   D 
Sbjct: 3   LRDRIDFLCKTILAI--KTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDD 60

Query: 222 Y 222
           +
Sbjct: 61  H 61

>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 Length = 189

 Score = 39.9 bits (93), Expect = 6e-04
 Identities = 17/120 (14%), Positives = 39/120 (32%), Gaps = 12/120 (10%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTA 244
           + ++ G  GVGK+T   +LA  L         + GD+     +        +        
Sbjct: 4   LYIITGPAGVGKSTTCKRLAAQLDN----SAYIEGDIIN-HMVVGGYRPPWE-----SDE 53

Query: 245 GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVD 304
              +    I    +     +N   V++D        +A+   ++     +    ++L  +
Sbjct: 54  LLALTWKNITDLTVNFLLAQN--DVVLDYIAFPDEAEALAQTVQAKVDDVEIRFIILWTN 111

>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 Length = 301

 Score = 40.8 bits (95), Expect = 6e-04
 Identities = 21/125 (16%), Positives = 37/125 (29%), Gaps = 14/125 (11%)

Query: 183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY 242
             +IL  G  G GK+T     A     +      +  D YR     Q ++  E+     Y
Sbjct: 2   KKIILTIGCPGSGKST----WAREFIAKNPGFYNINRDDYR-----QSIMAHEERDEYKY 52

Query: 243 TAGTEVKPSQIAKQGLEEA--KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVL 300
           T   E   + +     +       +V  VI+       ++       +   +        
Sbjct: 53  TKKKEGIVTGMQFDTAKSILYGGDSVKGVIISDTN---LNPERRLAWETFAKEYGWKVEH 109

Query: 301 LVVDA 305
            V D 
Sbjct: 110 KVFDV 114

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A* Length = 211

 Score = 39.5 bits (93), Expect = 9e-04
 Identities = 25/90 (27%), Positives = 33/90 (36%), Gaps = 29/90 (32%)

Query: 179 AKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY---------------- 222
           +  +P VI +AG    GKTT++  LA  L   G+   L+  D Y                
Sbjct: 2   SAPKPFVIGIAGGTASGKTTLAQALARTL---GERVALLPMDHYYKDLGHLPLEERLRVN 58

Query: 223 --RPAAID------QLVIL--GEQVGVPVY 242
              P A D          L  G  V +PVY
Sbjct: 59  YDHPDAFDLALYLEHAQALLRGLPVEMPVY 88

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	481
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	100.0
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	100.0
2xxa_A	433	Signal recognition particle protein; protein trans	100.0
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	100.0
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	100.0
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	100.0
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	100.0
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	100.0
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	100.0
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	100.0
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	100.0
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	100.0
2og2_A	359	Putative signal recognition particle receptor; nuc	100.0
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	100.0
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	100.0
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	100.0
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	99.66
3end_A	307	Light-independent protochlorophyllide reductase ir	99.64
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	99.63
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	99.63
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	99.63
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	99.62
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	99.61
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	99.6
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	99.6
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	99.59
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	99.58
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	99.58
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	99.58
3fwy_A	314	Light-independent protochlorophyllide reductase I	99.57
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	99.56
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	99.56
3cwq_A	209	Para family chromosome partitioning protein; alpha	99.53
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	99.52
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	99.51
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	99.5
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	99.49
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	99.44
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	99.43
3fgn_A	251	Dethiobiotin synthetase; biotin biosynthesis, BIOD	99.42
2jqe_A	119	SRP54, signal recognition 54 kDa protein; AF54, st	99.42
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	99.41
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	99.4
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.39
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	99.39
3of5_A	228	Dethiobiotin synthetase; structural genomics, cent	99.38
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	99.37
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	99.37
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	99.36
1hq1_A	105	Signal recognition particle protein; protein-RNA c	99.34
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	99.29
1mfq_C	129	SRP54, signal recognition particle 54KDA protein;	99.29
3qxc_A	242	Dethiobiotin synthetase; DTBS, structural genomics	99.28
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.27
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	99.25
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.24
1qb2_A	109	SRP54, human signal recognition particle 54 KD pro	99.2
3igf_A	374	ALL4481 protein; two-domained protein consisting o	99.19
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	99.07
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.94
4a0g_A	831	Adenosylmethionine-8-amino-7-oxononanoate aminotra	98.87
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.84
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.77
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.7
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.39
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.37
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.28
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	98.27
2cvh_A	220	DNA repair and recombination protein RADB; filamen	98.24
2obn_A	349	Hypothetical protein; structural genomics, joint c	98.23
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	98.19
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	98.18
1xp8_A	366	RECA protein, recombinase A; recombination, radior	98.16
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	98.16
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	98.14
1u94_A	356	RECA protein, recombinase A; homologous recombinat	98.13
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.1
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	98.1
2z43_A	324	DNA repair and recombination protein RADA; archaea	98.1
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.1
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.08
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	98.07
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	98.06
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	98.06
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.05
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	98.04
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	98.04
2r6a_A	454	DNAB helicase, replicative helicase; replication,	98.03
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	98.01
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	98.0
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.0
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.97
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	97.96
3io5_A	333	Recombination and repair protein; storage dimer, i	97.93
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	97.92
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	97.92
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	97.91
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	97.87
2ged_A	193	SR-beta, signal recognition particle receptor beta	97.85
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	97.85
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	97.83
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	97.83
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.83
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	97.82
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.82
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	97.78
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	97.77
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.76
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.73
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	97.72
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.7
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.69
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.69
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	97.68
2wji_A	165	Ferrous iron transport protein B homolog; membrane	97.68
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.67
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.65
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.65
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	97.63
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	97.63
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.63
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	97.63
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	97.63
3bos_A	242	Putative DNA replication factor; P-loop containing	97.61
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	97.61
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.6
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	97.59
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	97.59
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.58
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	97.57
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	97.57
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.57
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	97.54
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	97.53
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.52
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	97.51
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	97.5
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.49
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	97.49
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	97.49
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	97.49
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	97.48
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	97.48
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	97.48
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	97.47
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	97.46
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	97.45
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	97.44
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	97.44
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	97.44
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	97.44
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	97.44
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	97.43
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.43
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.42
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	97.41
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.41
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	97.41
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	97.41
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	97.4
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	97.4
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	97.39
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	97.38
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	97.38
2g0t_A	350	Conserved hypothetical protein; structural genomic	97.37
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	97.37
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	97.37
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	97.37
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	97.36
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	97.36
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	97.35
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	97.35
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	97.35
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.35
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	97.35
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	97.35
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.34
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	97.33
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	97.33
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	97.33
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.33
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	97.32
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.32
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	97.32
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.31
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.31
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	97.31
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	97.31
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	97.3
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	97.3
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	97.29
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.29
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	97.29
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	97.28
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	97.27
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.26
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.26
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.25
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	97.24
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	97.24
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	97.23
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	97.23
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	97.23
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.22
1dul_A	69	Signal recognition particle protein (fifty-four ho	97.22
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.21
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.21
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.21
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.21
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	97.2
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	97.2
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	97.2
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	97.2
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.2
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	97.2
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	97.19
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	97.18
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.17
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	97.16
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	97.15
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	97.15
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	97.15
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	97.14
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	97.14
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	97.14
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	97.13
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	97.13
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	97.13
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.13
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.13
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	97.12
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	97.12
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	97.1
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	97.08
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	97.07
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	97.07
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	97.06
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	97.06
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	97.05
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	97.04
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	97.03
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	97.02
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	97.02
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	97.02
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	97.01
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.01
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	97.0
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.0
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.99
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	96.99
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	96.98
2fh5_B	214	SR-beta, signal recognition particle receptor beta	96.98
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	96.98
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	96.96
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.96
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	96.95
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.95
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.94
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.93
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.92
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	96.91
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.91
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	96.91
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	96.9
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.9
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	96.89
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	96.89
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.89
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	96.88
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	96.87
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	96.87
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.85
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	96.85
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	96.84
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.84
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.83
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	96.83
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	96.83
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	96.83
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.82
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	96.8
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	96.79
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.79
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	96.78
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	96.77
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.77
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.76
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.75
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.73
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.72
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	96.72
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.72
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	96.71
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	96.71
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.7
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	96.7
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.69
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	96.68
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	96.68
1vco_A	550	CTP synthetase; tetramer, riken structural genomic	96.67
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	96.67
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.67
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.66
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.64
1s1m_A	545	CTP synthase; CTP synthetase, UTP:ammonia ligase (	96.64
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	96.63
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	96.63
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.63
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	96.62
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.61
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.61
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.61
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.59
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	96.59
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	96.59
1wb1_A	482	Translation elongation factor SELB; selenocysteine	96.58
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	96.57
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	96.56
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	96.54
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	96.54
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.52
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.51
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.51
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.5
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	96.5
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.5
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.49
3llu_A	196	RAS-related GTP-binding protein C; structural geno	96.48
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.47
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.47
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.46
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	96.45
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	96.44
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	96.42
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.4
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.4
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.4
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	96.39
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	96.39
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.38
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.38
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	96.38
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.36
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.36
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.36
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.35
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	96.35
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	96.34
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.33
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	96.3
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	96.28
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	96.27
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	96.26
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	96.25
2qgz_A	308	Helicase loader, putative primosome component; str	96.24
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.24
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.23
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.23
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.23
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.22
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.22
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	96.21
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.18
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	96.17
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.17
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.17
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	96.16
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.15
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.14
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	96.11
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.11
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.11
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.11
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.08
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.07
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	96.06
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.04
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	96.03
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	96.0
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.99
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.98
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.98
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.97
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	95.97
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	95.97
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.97
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.96
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.96
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.94
3pzx_A	557	Formate--tetrahydrofolate ligase; HET: TOE; 2.20A	95.94
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.94
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	95.91
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.91
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	95.9
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.88
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.88
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.88
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.87
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.86
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.84
1wxq_A	397	GTP-binding protein; structural genomics, riken st	95.84
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.84
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.83
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.82
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	95.8
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.77
2c5m_A	294	CTP synthase; cytidine 5-prime triphosphate synthe	95.76
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.74
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	95.73
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.73
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.72
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	95.71
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.71
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.7
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	95.69
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	95.68
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.68
2vo1_A	295	CTP synthase 1; pyrimidine biosynthesis, glutamine	95.67
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	95.67
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	95.66
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.66
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.64
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	95.62
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.62
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.6
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.59
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.55
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.54
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.54
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.54
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	95.52
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	95.49
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	95.48
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.47
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	95.47
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	95.46
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.46
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.46
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.45
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	95.44
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.43
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.39
1via_A	175	Shikimate kinase; structural genomics, transferase	95.36
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.34
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.32
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	95.31
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.3
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	95.3
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.26
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.25
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.25
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.24
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.21
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	95.2
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.2
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	95.19
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.19
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	95.19
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.18
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	95.14
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.11
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	95.11
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	95.07
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.06
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.02
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	94.98
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	94.95
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	94.94
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.9
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	94.89
3nva_A	535	CTP synthase; rossman fold, nucleotide binding, LI	94.88
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	94.87
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	94.86
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.82
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.81
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	94.81
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	94.81
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	94.79
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	94.78
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	94.77
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	94.77
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	94.77
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	94.76
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	94.74
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	94.72
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.72
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	94.66
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	94.56
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	94.53
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	94.44
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	94.4
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	94.35
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	94.28
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	94.28
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	94.21
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	94.19
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	94.15
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	94.15
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	94.11

>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=100.00  E-value=1.9e-69  Score=566.46  Aligned_cols=397  Identities=34%  Similarity=0.597  Sum_probs=355.7

Q ss_pred             HHHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHH
Q 011624           83 EMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVR  162 (481)
Q Consensus        83 ~~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~  162 (481)
                      |||++|+++|+++++++.+...++++++++++++|+.+|+++||+.+++.+|++++++...+.++..++++.+++.++++
T Consensus         1 m~~~~l~~~l~~~~~~l~~~~~l~e~~~~~~l~ei~~~Ll~adv~~~~~~~~~~~v~~~~~~~~v~~~~~~~~~v~~~l~   80 (443)
T 3dm5_A            1 MVLDNLGKALANTLKKIARASSVDEALIKELVRDIQRALIQADVNVRLVLQLTREIQRRALEEKPPAGISKKEHIIKIVY   80 (443)
T ss_dssp             CCSTHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCCCTTCCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhhccccccCCcHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999888888999999999999


Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      ++|.+++++....+... .+|.+|+++|++||||||++++||.+|+++|++|+++++|+|||++++|+..|++..|++++
T Consensus        81 ~eL~~~L~~~~~~~~~~-~~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~  159 (443)
T 3dm5_A           81 EELTKFLGTEAKPIEIK-EKPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVF  159 (443)
T ss_dssp             HHHHHHTTSSCCCCCCC-SSSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEE
T ss_pred             HHHHHHhcCcccccccC-CCCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEE
Confidence            99999998743333332 36899999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcC
Q 011624          243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI  322 (481)
Q Consensus       243 ~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~  322 (481)
                      ..+...+|.+++++++..++.++||+|||||||+.+.+..++.++..+.....|+.++||+|+++++++.++++.|++.+
T Consensus       160 ~~~~~~dp~~i~~~al~~a~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~a~~f~~~~  239 (443)
T 3dm5_A          160 GNPQEKDAIKLAKEGVDYFKSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQALAFKEAT  239 (443)
T ss_dssp             CCTTCCCHHHHHHHHHHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHSC
T ss_pred             ecCCCCCHHHHHHHHHHHHHhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHHHHHHHhhC
Confidence            88888899999999999987678999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhH--HHH
Q 011624          323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQED--AEE  400 (481)
Q Consensus       323 ~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~--~~~  400 (481)
                      ++.|||+||+|+++++|.++++...+|+||.|+|+|++++||++|+|+++++++||+||+.+|+|++++..++++  . +
T Consensus       240 ~i~gVIlTKlD~~~~gG~~ls~~~~~g~PI~fig~Ge~vddL~~f~~~~~~~~llg~gd~~~l~e~~~~~~~~~~~~~-~  318 (443)
T 3dm5_A          240 PIGSIIVTKLDGSAKGGGALSAVAATGAPIKFIGTGEKIDDIEPFDPPRFVSRLLGLGDIQGLLEKFKELEKEVEIKE-E  318 (443)
T ss_dssp             TTEEEEEECCSSCSSHHHHHHHHHTTCCCEEEEECSSSTTCEEECCHHHHHHHHTTTTCHHHHHHHHHHHHTTHHHHH-H
T ss_pred             CCeEEEEECCCCcccccHHHHHHHHHCCCEEEEEcCCChHHhhhCCHHHHHHHHcCCCcHHHHHHHHHHhhhhhHHHH-H
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998775  5 4


Q ss_pred             HHHhhhcccccHHHHHHHHhhhhccCCccccccCCCCCCC-ccccccchhhhcchhHHHHHHccChhhhccCCccccccc
Q 011624          401 MQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK-ITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTF  479 (481)
Q Consensus       401 ~~~k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~-~~~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~  479 (481)
                      +.+++.+++|||+||++|++++.+||+++++++|+||+++ +........+..|+++++||+|||++|+.+|.|+++||+
T Consensus       319 ~~~k~~~~~f~l~d~~~q~~~~~kmg~~~~~~~m~pg~~~~~~~~~~~~~~~~~~~~~~ii~smt~~e~~~p~~~~~sr~  398 (443)
T 3dm5_A          319 DIERFLRGKFTLKDMYAQLEAMRKMGPLKQILRMIPGLGYSLPDDVISIGEERLKKFKVIMDSMTEEELLNPEIINYSRI  398 (443)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHTTCC-------------------CCCCHHHHHHHHHHHTTSCHHHHHCGGGCCHHHH
T ss_pred             HHHHHhhCCcCHHHHHHHHHHHHhccCHHHHHHHCCCchhhcchhhhhhhHHHHHHHHHHHHcCCHHHhcCchhcChHHH
Confidence            8889999999999999999999999999999999999873 433333445778899999999999999999999999998


Q ss_pred             CC
Q 011624          480 KR  481 (481)
Q Consensus       480 ~~  481 (481)
                      +|
T Consensus       399 ~r  400 (443)
T 3dm5_A          399 KR  400 (443)
T ss_dssp             HH
T ss_pred             HH
Confidence            86

>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=100.00  E-value=1.1e-65  Score=538.03  Aligned_cols=392  Identities=34%  Similarity=0.554  Sum_probs=346.1

Q ss_pred             HHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHh
Q 011624           90 SGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLM  169 (481)
Q Consensus        90 ~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l  169 (481)
                      ++|+++++++.+...++++++++++++|+.+|+++||+.+++.+|++++++.+.+.++..++++.+++.++++++|.+++
T Consensus         4 ~~l~~~~~~l~~~~~l~e~~~~~~l~el~~~Ll~aDv~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~v~~~v~~eL~~~L   83 (433)
T 3kl4_A            4 ENIRDAVRKFLTGSTPYEKAVDEFIKDLQKSLISSDVNVKLVFSLTAKIKERLNKEKPPSVLERKEWFISIVYDELSKLF   83 (433)
T ss_dssp             TTHHHHHHHHTTTCSCHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHSCCCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHhcccccccCChHHHHHHHHHHHHHHhc
Confidence            35678899999999999999999999999999999999999999999999999998888889999999999999999999


Q ss_pred             cCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCC
Q 011624          170 GGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVK  249 (481)
Q Consensus       170 ~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~  249 (481)
                      ++..........+|++++++|++||||||++++||.+|+++|++|+++++|+||+++++|+..+++..|++++......+
T Consensus        84 ~~~~~~~~~~~~~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~d  163 (433)
T 3kl4_A           84 GGDKEPNVNPTKLPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQN  163 (433)
T ss_dssp             CSSSCCCCSCCSSSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSC
T ss_pred             CccccccccccCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCC
Confidence            97533222233468999999999999999999999999999999999999999999999999999999999998887888


Q ss_pred             HHHHHHHHHHHHHcCCCcEEEEcCCCCcc--ccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEE
Q 011624          250 PSQIAKQGLEEAKKKNVDVVIVDTAGRLQ--IDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGA  327 (481)
Q Consensus       250 ~~~~l~~~l~~~~~~~~D~VIIDt~G~~~--~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~Gv  327 (481)
                      |..++..++..+...+||+|||||||+.+  .+..++.++..+.....|++++||+|+++++++.++++.|++.+++.||
T Consensus       164 p~~i~~~al~~a~~~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~a~~f~~~~~~~gV  243 (433)
T 3kl4_A          164 PIEIAKKGVDIFVKNKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQASPIGSV  243 (433)
T ss_dssp             HHHHHHHHHHHTTTTTCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHHHHHHHHHCSSEEE
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHHHHHHhcccCCcEE
Confidence            99988888888866799999999999998  8999999999999999999999999999999999999999989999999


Q ss_pred             EEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHHhhhc
Q 011624          328 ILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMS  407 (481)
Q Consensus       328 IlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~k~~~  407 (481)
                      |+||+|+++++|.++++...+|+||.|+|+|++++||++|+|+++++++||+||+.+++|++++..++++.+++.+++.+
T Consensus       244 IlTKlD~~a~~G~als~~~~~g~Pi~fig~Ge~v~dL~~f~p~~~~~~llg~gd~~~l~e~~~~~~~~~~~~~~~~k~~~  323 (433)
T 3kl4_A          244 IITKMDGTAKGGGALSAVVATGATIKFIGTGEKIDELETFNAKRFVSRILGMGDIESILEKVKGLEEYDKIQKKMEDVME  323 (433)
T ss_dssp             EEECGGGCSCHHHHHHHHHHHTCEEEEEECCSSSSCEEECCHHHHHHHHHCSSHHHHHHHHHHHC---------------
T ss_pred             EEecccccccchHHHHHHHHHCCCEEEEECCCChHhCccCCHHHHHHHhcCCchHHHHHHHHHHhhhHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999998888889999999


Q ss_pred             c--cccHHHHHHHHhhhhccCCccccccCCCCCCC-cc---ccccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          408 A--NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK-IT---PAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       408 ~--~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~-~~---~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      +  +||++||++|++++.+||+++++++|+||+++ ++   .......+..|+++++||+|||++|+.+|.|+++||++|
T Consensus       324 g~~~f~~~d~~~q~~~~~kmg~~~~~~~m~pg~~~~~~~~~~~~~~~~~~~~~~~~~ii~smt~~e~~~p~~~~~sr~~r  403 (433)
T 3kl4_A          324 GKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKIRRWLAALNSMTYKELENPNIIDKSRMRR  403 (433)
T ss_dssp             ----CCHHHHHHHHHHHHHCCSSSGGGGTTTCCCCCSSTTHHHHHHTTSSCCCSHHHHHHSSCSSTTTCGGGCCHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHhccCHHHHHHhCCCCccccccchhhhhhhhHHHHHHHHHHHHcCCHHHhhCchhccHHHHHH
Confidence            9  89999999999999999999999999999874 32   122334567889999999999999999999999999886

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=100.00  E-value=1.2e-62  Score=516.74  Aligned_cols=398  Identities=48%  Similarity=0.769  Sum_probs=356.1

Q ss_pred             HHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHH
Q 011624           84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRD  163 (481)
Q Consensus        84 ~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  163 (481)
                      ||++|+++|+++++++.++..++++++++++++|+.+|+++||+.+++++|+++++++..+.++..+.+|.+++.+++++
T Consensus         1 m~~~l~~~l~~~~~~~~~~~~~~e~~~~~~l~e~~~~Ll~adv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (433)
T 2xxa_A            1 MFDNLTDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAVGHEVNKSLTPGQEFVKIVRN   80 (433)
T ss_dssp             ---CHHHHHHHHHHHSCCCSCCCHHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHSSSCCCSSSCTTTTTHHHHHH
T ss_pred             ChHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcccccccCChHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999988889999999999999


Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      ++.+++++...++.+...+|++|+++|++||||||++++||.+|+++ |++|++||+|+||+++++|+..++...|++++
T Consensus        81 ~l~~~l~~~~~~~~~~~~~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~  160 (433)
T 2xxa_A           81 ELVAAMGEENQTLNLAAQPPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFF  160 (433)
T ss_dssp             HHHHHHCSSSCCCCCCSSSSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEEC
T ss_pred             HHHHHhccccccccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEE
Confidence            99999997655566555678999999999999999999999999998 99999999999999999999889999999999


Q ss_pred             cCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcC
Q 011624          243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI  322 (481)
Q Consensus       243 ~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~  322 (481)
                      ..+...+|.+++++++..+...+||+|||||||+++.+..++.++..+..+..|+++++|+|+++++++...++.|+..+
T Consensus       161 ~~~~~~dp~~i~~~~l~~~~~~~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~~~~~~~f~~~l  240 (433)
T 2xxa_A          161 PSDVGQKPVDIVNAALKEAKLKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEAL  240 (433)
T ss_dssp             CCCSSSCHHHHHHHHHHHHHHTTCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTHHHHHHHHHHHS
T ss_pred             eCCCCCCHHHHHHHHHHHHHhCCCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHHHHHHHHHhccC
Confidence            88777788888888888876578999999999999888889999988888888999999999988889999999998889


Q ss_pred             CeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHH
Q 011624          323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ  402 (481)
Q Consensus       323 ~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~  402 (481)
                      ++.|||+||+|++++++.++++...+++|+.|+|.|++++++.+|+|++++++++|+||+.+++|.+++.+++++..++.
T Consensus       241 ~i~gvVlnK~D~~~~~g~~l~i~~~~~~Pi~~iG~ge~v~dl~~f~p~~~a~~l~g~gD~~~Lie~a~~~~~~~~~~~l~  320 (433)
T 2xxa_A          241 PLTGVVLTKVDGDARGGAALSIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDVLSLIEDIESKVDRAQAEKLA  320 (433)
T ss_dssp             CCCCEEEECTTSSSCCTHHHHHHHHHCCCEEEEECSSSSSCEEECCHHHHHHHHHCCCTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEecCCCCccHHHHHHHHHHHCCCeEEEecCCCchhhhhcChHHHHHHHhCccchHHHHHHHHHhhhhhhhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999988777788899


Q ss_pred             Hhhhcc-cccHHHHHHHHhhhhccCCccccccCCCCCCCcccccc-chhhhcchhHHHHHHccChhhhccCCcccccccC
Q 011624          403 KKIMSA-NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQV-REAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFK  480 (481)
Q Consensus       403 ~k~~~~-~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~-~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~  480 (481)
                      +|+.++ +|+++++++|++++.+||+++++++|+||++.+..... ...+..++++++||.|||++||.+|.++++||+|
T Consensus       321 ~k~~~~~~f~~~d~~~ql~~~~~~g~~~~~~~~lPg~~~~~~~~~~~~~~~~~~~~~~ii~smt~~er~~~~~~~~sr~~  400 (433)
T 2xxa_A          321 SKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNVKSQMDDKVLVRMEAIINSMTMKERAKPEIIKGSRKR  400 (433)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHSCSSCHHHHCC---------------CHHHHHHHHHHHHTSCHHHHHCGGGCCHHHHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHHhcCCchhhhhcCcCcchhhhhhhccccHHHHHHHHHHHHcCCHHHhcCccccCHHHHH
Confidence            999999 89999999999999999999999999999865431111 0234568999999999999999999999999987


Q ss_pred             C
Q 011624          481 R  481 (481)
Q Consensus       481 ~  481 (481)
                      |
T Consensus       401 r  401 (433)
T 2xxa_A          401 R  401 (433)
T ss_dssp             H
T ss_pred             H
Confidence            6

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=100.00  E-value=5e-62  Score=509.53  Aligned_cols=387  Identities=45%  Similarity=0.726  Sum_probs=349.8

Q ss_pred             HHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHH
Q 011624           84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRD  163 (481)
Q Consensus        84 ~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  163 (481)
                      ||++|+++|+++++++.++..++++++++.+++|+.+|+++||+.+++++|+++++++..+.++..+.+|.+++.+++++
T Consensus         1 m~~~l~~~l~~~~~~l~~~~~~~e~~~~~~l~e~~~~Ll~adv~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~v~~   80 (425)
T 2ffh_A            1 MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEALGKQVLESLTPAEVILATVYE   80 (425)
T ss_dssp             CCHHHHHHHHHHHHTTTTCCSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTTGGGCSCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHccccccccCCcHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999988889999999999999


Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeec
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT  243 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~  243 (481)
                      +|...++....++.+.  +|.+++++|++|+||||++.+||.+++.+|++|+++++|+|||++.+|+..+++..|++++.
T Consensus        81 ~L~~~~~~~~~~i~l~--~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~qL~~~~~~~gv~v~~  158 (425)
T 2ffh_A           81 ALKEALGGEARLPVLK--DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLE  158 (425)
T ss_dssp             HHHHHTTSSCCCCCCC--SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEE
T ss_pred             HHHHHhCCCcccccCC--CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHHHHHHhcccCCccEEe
Confidence            9999998755455555  68899999999999999999999999999999999999999999999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCC
Q 011624          244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG  323 (481)
Q Consensus       244 ~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~  323 (481)
                      .+...+|.++++++++.++..+||+|||||||+++.+..++.++..+.....|++++||+|+++++++++.++.|++.++
T Consensus       159 ~~~~~~p~~i~~~~l~~~~~~~~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~tgq~av~~a~~f~~~l~  238 (425)
T 2ffh_A          159 VMDGESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG  238 (425)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTTHHHHHHHHHHHHTC
T ss_pred             cCCCCCHHHHHHHHHHHHHHCCCCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccchHHHHHHHHHHHhcCC
Confidence            87777888888888888755799999999999998888899999988888889999999999888999999999998899


Q ss_pred             eeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHHH
Q 011624          324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQK  403 (481)
Q Consensus       324 i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~~  403 (481)
                      +.|||+||+|++.++|.++++...+|+||.|+|.|++++|+++|+|++++++++|+||+.+++|.+++..++++..++  
T Consensus       239 i~GVIlTKlD~~~~~g~alsi~~~~g~PI~flg~Ge~~~dl~~f~~~~~a~~ilg~gD~~~lie~a~~~~~~~~~~~~--  316 (425)
T 2ffh_A          239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDVASLAEKVRAAGLEAEAPKS--  316 (425)
T ss_dssp             CCEEEEESGGGCSSCHHHHHHHHHHCCCEEEEECSSSGGGEEECCHHHHHHHHHTSSCCCCHHHHHHHC-----------
T ss_pred             ceEEEEeCcCCcccHHHHHHHHHHHCCCEEEEeCCCChhhccccCHHHHHHHHhcCCcHHHHHHhcccccCHHHHHHH--
Confidence            999999999999999999999999999999999999999999999999999999999999999999887665544333  


Q ss_pred             hhhcccccHHHHHHHHhhhhccCCccccccCCCCCCCccccccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          404 KIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       404 k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                        .+ +|+++|+++|++++.+||+++++++|+||++.    .....+..|+++++||+|||++|+.+|.++++||++|
T Consensus       317 --~~-~f~~~d~~~ql~~~~kmg~~~~~~~~~Pg~~~----~~~~~~~~~~~~~~i~~smt~~e~~~p~~~~~sr~~r  387 (425)
T 2ffh_A          317 --AK-ELSLEDFLKQMQNLKRLGPFSEILGLLPGVPQ----GLKVDEKAIKRLEAIVLSMTPEERKDPRILNGSRRKR  387 (425)
T ss_dssp             -----CCCHHHHHHHHHHHHHTCCCTTGGGTSCSCSC----CTTSCHHHHHHHHHHHHTSCHHHHHCGGGCCHHHHHH
T ss_pred             --HH-hcCHHHHHHHHHHhhCcCChhhhhccCCCchh----hccccHHHHHHHHHHHHcCCHHHhcCccccChHHHHH
Confidence              22 89999999999999999999999999999752    1124466889999999999999999999999999876

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=100.00  E-value=9e-58  Score=486.73  Aligned_cols=398  Identities=30%  Similarity=0.539  Sum_probs=348.9

Q ss_pred             HHHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHH
Q 011624           83 EMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVR  162 (481)
Q Consensus        83 ~~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~  162 (481)
                      |||++|+++|+++++++.+...++++++++++++++.+|+++||+.+++++|+++++++..+.++..++++.+++.++++
T Consensus         1 m~~~~l~~~l~~~~~~l~~~~~~~e~~~~~~l~el~~~Ll~adv~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~v~   80 (504)
T 2j37_W            1 MVLADLGRKITSALRSLSNATIINEEVLNAMLKEVCTALLEADVNIKLVKQLRENVKSAIDLEEMASGLNKRKMIQHAVF   80 (504)
T ss_dssp             -------CTTTTTTTCCCSCSSCCHHHHHHHHHHHHHHHCCTTTSSSTTHHHHHHHHHHHTTCCCCSSSCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhcCcccccCChHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999988888888999999999999


Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      ++|.++++....++.+...+|++|+++|++||||||++.+||.+|+++|++|++|++|+|||++++++..++...+++++
T Consensus        81 ~eL~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~  160 (504)
T 2j37_W           81 KELVKLVDPGVKAWTPTKGKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFY  160 (504)
T ss_dssp             HHHHHHHCCCCCCCCCCSS--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEE
T ss_pred             HHHHHHhccccchhccccCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEE
Confidence            99999999765555554567899999999999999999999999999999999999999999999999999888999998


Q ss_pred             cCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcC
Q 011624          243 TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI  322 (481)
Q Consensus       243 ~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~  322 (481)
                      ......+|.+++++++..+.+.+||++||||||+.+.+..++.++..+.....|+.+++|+|++.+++....++.|+..+
T Consensus       161 ~~~~~~dp~~i~~~al~~~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~~a~~~~~~~  240 (504)
T 2j37_W          161 GSYTEMDPVIIASEGVEKFKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEAQAKAFKDKV  240 (504)
T ss_dssp             ECCCCSCHHHHHHHHHHHHHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHHHHHHHHHHH
T ss_pred             ccCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHHHHHHHHhhc
Confidence            87777788888888888876689999999999999877778888877776668899999999988877778888887767


Q ss_pred             CeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHH
Q 011624          323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ  402 (481)
Q Consensus       323 ~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~  402 (481)
                      ++.++|+||+|...+++.++++.+.+|+||.|+|.+++++|+.+|+|..++++++|.||+.+++|.+.+. .+++.+++.
T Consensus       241 ~i~gvVlNK~D~~~~~g~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~-~~~~~~~l~  319 (504)
T 2j37_W          241 DVASVIVTKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL-KLDDNEALI  319 (504)
T ss_dssp             CCCCEEEECTTSCCCCTHHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT-TTCCCTTTT
T ss_pred             CceEEEEeCCccccchHHHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH-HHHHHHHHH
Confidence            8889999999999888888889999999999999999999999999999999999999999999988877 344455678


Q ss_pred             HhhhcccccHHHHHHHHhhhhccCCccccccCCCCCCC--ccccccchhhhcchhHHHHHHccChhhhcc---CCcc--c
Q 011624          403 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK--ITPAQVREAEKSLKIMEAMIEAMTPGIFFF---SIII--I  475 (481)
Q Consensus       403 ~k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~--~~~~~~~d~a~~f~~~~~li~sm~~e~~~~---~~l~--~  475 (481)
                      +|+.+++|++++|+++++++.++|++.++++++||++.  +.......++..++++++||+|||++||.+   |.+|  +
T Consensus       320 ~k~~~g~~~l~d~~~~l~~~~~~G~~~~~~~~ipg~~~~~~~~~~~~~~~~~~~~~~~ii~smt~~Er~~~~~p~~~~~~  399 (504)
T 2j37_W          320 EKLKHGQFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQELDSTDGAKVFSKQ  399 (504)
T ss_dssp             TSCTTSGGGGCCCHHHHHHCCCCCCCCSSCCCCSCCSCGGGCSCCCCCHHHHHHHHHHHHTTSCHHHHHCTTHHHHHHHC
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHhccccchhhccccccccChHhhhhhHHHHHhCCHHHhcCCCCCcccCCC
Confidence            89999999999999999999999999999999999865  432222234567899999999999999999   8899  8


Q ss_pred             ccccCC
Q 011624          476 GLTFKR  481 (481)
Q Consensus       476 ~~~~~~  481 (481)
                      +||++|
T Consensus       400 ~sr~~r  405 (504)
T 2j37_W          400 PGRIQR  405 (504)
T ss_dssp             THHHHH
T ss_pred             hHHHHH
Confidence            999876

>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=100.00  E-value=4.8e-57  Score=474.20  Aligned_cols=394  Identities=38%  Similarity=0.643  Sum_probs=336.3

Q ss_pred             HHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHH
Q 011624           85 FGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDE  164 (481)
Q Consensus        85 ~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~  164 (481)
                      |++|+++|+++++++.+.+.++++++++.+++++.+|+++||+..++++++.++++...+.++..++++.+++.++++++
T Consensus         1 ~~~l~~~~~~~~~~~~~~~~~~e~~~~~~~~e~~~~Ll~adv~~~~~~~~~~~vk~~~~~~~~~~~~~~~~~~~~~~~~~   80 (432)
T 2v3c_C            1 MDKLGENLNKALNKLKAAAFVDKKLIKEVIKDIQRALIQADVNVKLVLKMSKEIERRALEEKTPKGLSKKEHIIKIVYEE   80 (432)
T ss_dssp             CCHHHHHHHHHHHHCCSSSCCCSSTTHHHHHHHHHHHHHTCCCHHHHHHHTHHHHHHHSSSCSSCSSCHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhccccccccCChHHHHHHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999998888888889998899999999


Q ss_pred             HHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecC
Q 011624          165 LVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTA  244 (481)
Q Consensus       165 L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~  244 (481)
                      +.+++++...++.....+|++|+++|++||||||++.+||.+++++|++|+++++|+|||++++++..++...|++++..
T Consensus        81 l~~ll~~~~~~~~~~~~~~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~~~~~~gv~v~~~  160 (432)
T 2v3c_C           81 LVKLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGD  160 (432)
T ss_dssp             HHHHHCCSCCCCCCCSSSCCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHHHHHHSSCCEECC
T ss_pred             HHHHhCCCCcCccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHHhhhccCcceEec
Confidence            99999876444544445678999999999999999999999999999999999999999999999998888899999987


Q ss_pred             C-CCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcC-
Q 011624          245 G-TEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI-  322 (481)
Q Consensus       245 ~-~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~-  322 (481)
                      . ...+|.+++.+++..+  .+||+|||||||+.+.+..++.++..+.....|+.+++|+|++.++++...++.|+..+ 
T Consensus       161 ~~~~~dp~~i~~~~l~~~--~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~~~~~~~~~~~~~~  238 (432)
T 2v3c_C          161 ETRTKSPVDIVKEGMEKF--KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQAGIQAKAFKEAVG  238 (432)
T ss_dssp             SSSCCSSSTTHHHHHHTT--SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGGHHHHHHHHHTTSC
T ss_pred             CCCCCCHHHHHHHHHHHh--hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHHHHHHHHHHhhccc
Confidence            5 4445555556666665  78999999999999878888899888888788999999999988888888888888778 


Q ss_pred             CeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchhHHHHHHHHHhhchhHHHHHH
Q 011624          323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ  402 (481)
Q Consensus       323 ~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~~~lve~a~e~~~~~~~~~~~  402 (481)
                      ++.|+|+||+|...+++.++++...++.|+.|+|.|++++|+.+|.|.+++++++|+||+.+++|.+.+.+++++ .++.
T Consensus       239 ~i~gvVlnK~D~~~~~g~~l~~~~~~~~pi~~ig~Ge~~~dl~~f~~~~~~s~l~g~gdi~~L~e~~~~~~~e~~-~~~~  317 (432)
T 2v3c_C          239 EIGSIIVTKLDGSAKGGGALSAVAETKAPIKFIGIGEGIDDLEPFDPKKFISRLLGMGDLESLLEKAEDMVDEKT-EESI  317 (432)
T ss_dssp             SCEEEEEECSSSCSTTHHHHHHHHHSSCCEEEECCSSSSSSCCBCCHHHHHHHHTCSSCSSTTSSTTTSCSCSSS-STTH
T ss_pred             CCeEEEEeCCCCccchHHHHHHHHHHCCCEEEeecCccccccccCCHHHHHHHHcCCCcHHHHHHHHHHHHHhhh-HHHH
Confidence            889999999999988888889999999999999999999999999999999999999999999999998887766 7789


Q ss_pred             HhhhcccccHHHHHHHHhhhhccCCccccccCCCCCCCcc-ccccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          403 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKIT-PAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       403 ~k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~-~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      +++..++|++++++++++++.+||+++++++|+||++.+. ......++..+.+++++|.|||++||.+|.+|++||+||
T Consensus       318 ~k~~~~~~~~~~~~~~l~~~~~~g~~~~~~~~~P~~~~~~~~~~~~~~~~~~~~~~a~i~smt~~er~~~~~i~~sr~~r  397 (432)
T 2v3c_C          318 DAIMRGKFTLNELMTQLEAIENMGSMKKILSMIPGFGGAMPKELSHLTEAKIKKYKVIISSMTKEERENPKIIKASRIRR  397 (432)
T ss_dssp             HHHCCSCCHHHHHHHHTTTTSCC-----------------------CCHHHHHHHHHHHTTSCHHHHSSCTTCCHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHccccccccchhhhcccHHHHHHHHHHHHhCCHHHhhCccccCHHHHHH
Confidence            9999999999999999999999999999999999965421 111112345679999999999999999999999999876

>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=100.00  E-value=1.4e-43  Score=355.12  Aligned_cols=293  Identities=37%  Similarity=0.594  Sum_probs=267.3

Q ss_pred             HHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHH
Q 011624           86 GQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDEL  165 (481)
Q Consensus        86 ~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L  165 (481)
                      ++|+++|+++++++.+++.++++++++++++++++|+++||+.+++++|+++++++..+.++.++.++.+++.+++.+++
T Consensus         1 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~dv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l   80 (297)
T 1j8m_F            1 SKLLDNLRDTVRKFLTGSSSYDKAVEDFIKELQKSLISADVNVKLVFSLTNKIKERLKNEKPPTYIERREWFIKIVYDEL   80 (297)
T ss_dssp             --CHHHHHHHHHHHHSCCSCHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCCCTTCCHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhhccccccCChHHHHHHHHHHHH
Confidence            36889999999999999999999999999999999999999999999999999999999988888899999999999999


Q ss_pred             HHHhcCcccc-ccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecC
Q 011624          166 VKLMGGEVSE-LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTA  244 (481)
Q Consensus       166 ~~~l~~~~~~-~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~  244 (481)
                      ...+++...+ +.+... +.+++++|++|+||||++.+||.+++.+|++|+++|+|+|||++.+|+..+++..|++++..
T Consensus        81 ~~~~~~~~~~~i~~~~~-~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~  159 (297)
T 1j8m_F           81 SNLFGGDKEPKVIPDKI-PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGE  159 (297)
T ss_dssp             HHHTTCSCCCCCSCSSS-SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECC
T ss_pred             HHHhccccccccccCCC-CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEec
Confidence            9999876544 555544 89999999999999999999999999999999999999999999999998998899999887


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCcc--ccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcC
Q 011624          245 GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQ--IDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI  322 (481)
Q Consensus       245 ~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~--~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~  322 (481)
                      ....+|.++++++++.+++.+||+|||||||+.+  .+..++.++.++.....++.+++|+|+++++++...++.|++.+
T Consensus       160 ~~~~~p~~~~~~~l~~~~~~~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~~~~~~~~~~~~~  239 (297)
T 1j8m_F          160 PGEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQAS  239 (297)
T ss_dssp             TTCCCHHHHHHHHHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHTC
T ss_pred             CCCCCHHHHHHHHHHHHHhCCCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHHHHHHHHHHHhhC
Confidence            6667888888888888866799999999999998  76778888887777778899999999988888888888898788


Q ss_pred             CeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCC
Q 011624          323 GITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGM  379 (481)
Q Consensus       323 ~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGl  379 (481)
                      ++.|+|+||+|...++|.++++...+++||.|++.|++++|+++|+|+++++++||+
T Consensus       240 ~i~gvVlnk~D~~~~~g~~~~~~~~~~~pi~~i~~Ge~v~dl~~f~~~~~~~~ll~~  296 (297)
T 1j8m_F          240 KIGTIIITKMDGTAKGGGALSAVAATGATIKFIGTGEKIDELEVFNPRRFVARLHHH  296 (297)
T ss_dssp             TTEEEEEECGGGCTTHHHHHHHHHTTTCCEEEEECSSSTTCEEECCHHHHHHTTCTT
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHCcCEEEEeCCCChhhcccCCHHHHHHHHhCC
Confidence            899999999999999999999999999999999999999999999999999999986

>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=100.00  E-value=3.1e-41  Score=338.00  Aligned_cols=295  Identities=49%  Similarity=0.794  Sum_probs=260.0

Q ss_pred             HHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHH
Q 011624           84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRD  163 (481)
Q Consensus        84 ~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  163 (481)
                      ||++|+++|+++++++.+++.++++++.+.+++++..|+.+|++..+++++++++.....+..+..+.++.+++.+.+.+
T Consensus         1 m~~~l~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~Ll~ad~~~~~~~~l~d~v~~~~~g~~~~~~~~~~~~~~~~~~~   80 (295)
T 1ls1_A            1 MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEALGKQVLESLTPAEVILATVYE   80 (295)
T ss_dssp             CCHHHHHHHHHHHHTTTTSCSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTTTTCSCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHccccccccCCcHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999887777655455677788888889


Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeec
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT  243 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~  243 (481)
                      .+...++....++.+.  ++.+++++|++|+||||++.+||..++..|.+|+++++|++|+.+.+|+..+.+..|++++.
T Consensus        81 ~l~~~~~~~~~~i~~~--~~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~  158 (295)
T 1ls1_A           81 ALKEALGGEARLPVLK--DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLE  158 (295)
T ss_dssp             HHHHHTTSSCCCCCCC--SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEE
T ss_pred             HHHHHHCCCCceeecC--CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEE
Confidence            9988887543345554  67899999999999999999999999999999999999999999999988888888999998


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCC
Q 011624          244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG  323 (481)
Q Consensus       244 ~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~  323 (481)
                      .+...+|.++.+.++..+...+||+|||||||..+.|...+.++..+.....|+.+++|+|+.+++++.+.++.|++.++
T Consensus       159 ~~~~~~p~~l~~~~l~~~~~~~~D~viiDtpp~~~~d~~~~~~l~~~~~~~~~~~~~lv~~~~~~~~~~~~~~~~~~~~~  238 (295)
T 1ls1_A          159 VMDGESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG  238 (295)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHTC
T ss_pred             cCCCCCHHHHHHHHHHHHHhCCCCEEEEeCCCCccccHHHHHHHHHHhhhcCCCEEEEEEeCCCcHHHHHHHHHHhhcCC
Confidence            76667888887888888755789999999999988888899999888888889999999999878888888888988899


Q ss_pred             eeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCc
Q 011624          324 ITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG  380 (481)
Q Consensus       324 i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlg  380 (481)
                      +.|+|+||+|.+.++|.++++...+|+||.|+|+||+++|+++|+|+++++++||+|
T Consensus       239 i~givlnk~d~~~~~g~~~~~~~~~~~pi~~i~~g~~~~dl~~f~~~~~~~~ll~~g  295 (295)
T 1ls1_A          239 VTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMG  295 (295)
T ss_dssp             CCEEEEECGGGCSSCHHHHHHHHHHCCCEEEEC------CCEECCHHHHHHHHTTCC
T ss_pred             CCEEEEECCCCCccHHHHHHHHHHHCcCEEEEeCCCCccccccCCHHHHHHHHhcCC
Confidence            999999999999999999999999999999999999999999999999999999986

>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=100.00  E-value=2.8e-41  Score=342.71  Aligned_cols=299  Identities=34%  Similarity=0.564  Sum_probs=266.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHhh-------------------CCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHH
Q 011624           80 VRAEMFGQLTSGLEAAWNKLK-------------------GEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSE  140 (481)
Q Consensus        80 ~~~~~~~~l~~~l~~~~~~~~-------------------~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~  140 (481)
                      +-++||++|+++|+++.+++.                   +...++++++++++++|+.+|+++||+.+++++|++++++
T Consensus         3 ~~~~mf~~l~~~l~~~~~~i~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ll~adv~~~~~~~~~~~~~~   82 (328)
T 3e70_C            3 HMASMFGKLREKLKSFVKRVEEEVEKEEEEVEKKGLLDRILTVEIKEKDVDKALDELEIDLLEADVALEVVDALREKIKQ   82 (328)
T ss_dssp             ----CCHHHHHHHHHHHHHHHHHHHHHHHTC--------CCEEECCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhhccccccccccccHHHHHhhccCCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            347899999999998887433                   2678999999999999999999999999999999999999


Q ss_pred             HHhhccccCCCChhHHHHHHHHHHHHHHhcCcccccc-----ccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEE
Q 011624          141 QAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELV-----FAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCM  215 (481)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~-----~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVl  215 (481)
                      ++.+.++..+.++.+.+.+++++++.+++++.. ++.     ....+|.+++++|++|+||||++.+||..+...|.+|.
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~l~~~~-~~~~~~~~~~~~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~  161 (328)
T 3e70_C           83 KLVGKKVRIGTDKGKIIEEAVKEAVSEILETSR-RIDLIEEIRKAEKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVV  161 (328)
T ss_dssp             HHTTCEEECC---CHHHHHHHHHHHHHHSCCSS-CCCHHHHHHSSCSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEE
T ss_pred             HHhhcccCCccCHHHHHHHHHHHHHHHHhCCcc-ccchhhhcccCCCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEE
Confidence            999988888888999999999999999998643 222     13457899999999999999999999999999999999


Q ss_pred             EEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccC
Q 011624          216 LVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN  295 (481)
Q Consensus       216 LId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~  295 (481)
                      ++++|+||+++.+|+..++...|++++......+|...+.+.+......++|+++|||+|+.+.+..++.++..+.+++.
T Consensus       162 l~g~D~~r~~a~eql~~~~~~~gv~~v~q~~~~~p~~~v~e~l~~~~~~~~d~vliDtaG~~~~~~~l~~eL~~i~ral~  241 (328)
T 3e70_C          162 IAASDTFRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQHAKARGIDVVLIDTAGRSETNRNLMDEMKKIARVTK  241 (328)
T ss_dssp             EEEECCSSTTHHHHHHHHHHHTTCEEECCCTTCCHHHHHHHHHHHHHHHTCSEEEEEECCSCCTTTCHHHHHHHHHHHHC
T ss_pred             EEeecccccchHHHHHHHHHHcCceEEeccccCCHHHHHHHHHHHHHhccchhhHHhhccchhHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999887777888888877777665578999999999998888889999999988889


Q ss_pred             CceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhh
Q 011624          296 PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGR  375 (481)
Q Consensus       296 p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r  375 (481)
                      |+++++|+|+++++++.++++.|+...+++++|+||+|++.++|.++++...+|+||.|+|.|++++|+++|+|++++++
T Consensus       242 ~de~llvLDa~t~~~~~~~~~~~~~~~~it~iilTKlD~~a~~G~~l~~~~~~~~pi~~i~~Ge~v~dl~~~~~~~~~~~  321 (328)
T 3e70_C          242 PNLVIFVGDALAGNAIVEQARQFNEAVKIDGIILTKLDADARGGAALSISYVIDAPILFVGVGQGYDDLRPFEKEWFLER  321 (328)
T ss_dssp             CSEEEEEEEGGGTTHHHHHHHHHHHHSCCCEEEEECGGGCSCCHHHHHHHHHHTCCEEEEECSSSTTCEEECCHHHHHHH
T ss_pred             CCCCEEEEecHHHHHHHHHHHHHHHhcCCCEEEEeCcCCccchhHHHHHHHHHCCCEEEEeCCCCccccccCCHHHHHHH
Confidence            99999999999999999999999988999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCC
Q 011624          376 ILGM  379 (481)
Q Consensus       376 ~lGl  379 (481)
                      ++|-
T Consensus       322 llg~  325 (328)
T 3e70_C          322 IFGE  325 (328)
T ss_dssp             HTC-
T ss_pred             HhCC
Confidence            9986

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=100.00  E-value=7.3e-40  Score=331.44  Aligned_cols=286  Identities=28%  Similarity=0.461  Sum_probs=240.6

Q ss_pred             HHHHHHHHHHHHHhhC-CCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHH
Q 011624           86 GQLTSGLEAAWNKLKG-EETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDE  164 (481)
Q Consensus        86 ~~l~~~l~~~~~~~~~-~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~  164 (481)
                      .+++++|.+.++++.+ ...+++    +.+++|+++|+++||+.+++++|+++++++..+.++.      ..+.++++++
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~----~~~~~l~~~L~~~dv~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~   81 (320)
T 1zu4_A           12 LKSAFNFSKDIKKLSKKYKQADD----EFFEELEDVLIQTDMGMKMVLKVSNLVRKKTKRDTSF------ENIKDALVES   81 (320)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCCSH----HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCCTTCCH------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCH----HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhhchhH------HHHHHHHHHH
Confidence            3445555555555543 466776    3689999999999999999999999999987655432      1278899999


Q ss_pred             HHHHhcCcc-----ccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhh---h
Q 011624          165 LVKLMGGEV-----SELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE---Q  236 (481)
Q Consensus       165 L~~~l~~~~-----~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~---~  236 (481)
                      |.++++...     ..+.+...++.+++++|++|+||||++.+||.+++.+|.+|+++|+|+||+++.+++..+.+   .
T Consensus        82 l~~~l~~~~~~~~~~~l~~~~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D~~r~~a~~ql~~~~~~~~~  161 (320)
T 1zu4_A           82 LYQAYTDNDWTNKKYRIDFKENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADTFRAGATQQLEEWIKTRLN  161 (320)
T ss_dssp             HHHHHHCSCC----CCCCCCTTSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCSCHHHHHHHHHHHTTTSC
T ss_pred             HHHHhCcccccccccCccccCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHhcccc
Confidence            999998655     45666667789999999999999999999999999999999999999999999889888876   6


Q ss_pred             cCCCee-cCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccC------CceEEEEEeCcchH
Q 011624          237 VGVPVY-TAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN------PTEVLLVVDAMTGQ  309 (481)
Q Consensus       237 ~gv~v~-~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~------p~~vvLVvda~~~~  309 (481)
                      .+++++ ......+|...+.+.+......+||+|||||||+++.+..++.++.++..++.      |+.+++|+++++++
T Consensus       162 ~~l~vip~~~~~~~p~~~~~~~l~~~~~~~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~~~  241 (320)
T 1zu4_A          162 NKVDLVKANKLNADPASVVFDAIKKAKEQNYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATTGQ  241 (320)
T ss_dssp             TTEEEECCSSTTCCHHHHHHHHHHHHHHTTCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGGTH
T ss_pred             CCceEEeCCCCCCCHHHHHHHHHHHHHhcCCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCcH
Confidence            788888 43445677777667776655579999999999999877778888877665543      78999999998888


Q ss_pred             HHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCchh
Q 011624          310 EAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV  382 (481)
Q Consensus       310 ~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlgd~  382 (481)
                      +.+..++.|++.+++.|+|+||+|++..+|.++++...+|+||.|+|.||+++|+++|+|++++++++| ++.
T Consensus       242 ~~l~~~~~~~~~~~i~GvVltk~d~~~~~g~~~~~~~~~~~Pi~~i~~Ge~~~dl~~~~~~~~~~~ll~-~~~  313 (320)
T 1zu4_A          242 NGVIQAEEFSKVADVSGIILTKMDSTSKGGIGLAIKELLNIPIKMIGVGEKVDDLLAFDIDQYIVHLSS-GFM  313 (320)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEECGGGCSCTTHHHHHHHHHCCCEEEEECSSSTTCEEECCHHHHHHHHTG-GGC
T ss_pred             HHHHHHHHHhhcCCCcEEEEeCCCCCCchhHHHHHHHHHCcCEEEEeCCCCccccccCCHHHHHHHHhC-Ccc
Confidence            888889899888999999999999999999999999999999999999999999999999999999998 443

>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=100.00  E-value=1.3e-39  Score=327.54  Aligned_cols=279  Identities=37%  Similarity=0.625  Sum_probs=239.4

Q ss_pred             HHHHHHHHHHHHHHH-------HHhh-CCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCCh
Q 011624           82 AEMFGQLTSGLEAAW-------NKLK-GEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRP  153 (481)
Q Consensus        82 ~~~~~~l~~~l~~~~-------~~~~-~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~  153 (481)
                      +.+|+.|.++|+++.       +++. ++ .+++    +.+++|+++|+++||+.+++++|++++++          .++
T Consensus        13 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~----~~~~~l~~~L~~~dv~~~~~~~~~~~~~~----------~~~   77 (306)
T 1vma_A           13 MGLFDFLKKGLQKTKETFFGRVVKLLKGK-KLDD----ETREELEELLIQADVGVETTEYILERLEE----------KDG   77 (306)
T ss_dssp             -CHHHHHHHHHHHHHHHTHHHHHHHHTTC-CCCH----HHHHHHHHHHHHTTCCHHHHHHHHHHHTT----------CCS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CCCH----HHHHHHHHHHHHCCCCHHHHHHHHHHHHh----------cCH
Confidence            445566666555443       3333 34 6665    57899999999999999999999999865          234


Q ss_pred             hHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHh
Q 011624          154 DQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVIL  233 (481)
Q Consensus       154 ~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~  233 (481)
                      .  +.++++++|.++++... ++.+...+|.+++++|++|+||||++.+||..++..|.+|+++++|+||+++.+|+..+
T Consensus        78 ~--~~~~~~~~l~~~l~~~~-~~~~~~~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~r~~a~eqL~~~  154 (306)
T 1vma_A           78 D--ALESLKEIILEILNFDT-KLNVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIW  154 (306)
T ss_dssp             C--HHHHHHHHHHHHTCSCC-CCCCCSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHH
T ss_pred             H--HHHHHHHHHHHHhCCCC-CCcccCCCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccccccHHHHHHHHHH
Confidence            3  78899999999998654 55555567899999999999999999999999999999999999999999999999989


Q ss_pred             hhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhcc------CCceEEEEEeCcc
Q 011624          234 GEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAMT  307 (481)
Q Consensus       234 ~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~------~p~~vvLVvda~~  307 (481)
                      .+..|++++......+|..++.+++..+...+||+|||||||+.+.+..++.++.++...+      .|+.+++|+|+++
T Consensus       155 ~~~~gl~~~~~~s~~~~~~v~~~al~~a~~~~~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t  234 (306)
T 1vma_A          155 GERVGATVISHSEGADPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATT  234 (306)
T ss_dssp             HHHHTCEEECCSTTCCHHHHHHHHHHHHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGG
T ss_pred             HHHcCCcEEecCCccCHHHHHHHHHHHHHhcCCCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCC
Confidence            9989999987766778888777777776568999999999999877778888888777654      3789999999998


Q ss_pred             hHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          308 GQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       308 ~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      +++++.+++.|...+++.|+|+||+|++..+|.++++...+++||.|+|.||+++|+++|+|+++++++||
T Consensus       235 ~~~~l~~a~~~~~~~~i~gvVlTk~D~~~~gG~~l~~~~~~~~Pi~~i~~Ge~~~dl~~f~~~~~~~~ll~  305 (306)
T 1vma_A          235 GQNGLVQAKIFKEAVNVTGIILTKLDGTAKGGITLAIARELGIPIKFIGVGEKAEDLRPFDPEAFVEVLLS  305 (306)
T ss_dssp             HHHHHHHHHHHHHHSCCCEEEEECGGGCSCTTHHHHHHHHHCCCEEEEECSSSGGGEEECCHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHhcCCCCEEEEeCCCCccchHHHHHHHHHHCCCEEEEeCCCChhhcccCCHHHHHHHHhC
Confidence            99888889999888999999999999999999999999999999999999999999999999999999987

>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=100.00  E-value=3.4e-37  Score=325.17  Aligned_cols=293  Identities=35%  Similarity=0.595  Sum_probs=254.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHh-------hCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCC
Q 011624           80 VRAEMFGQLTSGLEAAWNKL-------KGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVR  152 (481)
Q Consensus        80 ~~~~~~~~l~~~l~~~~~~~-------~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~  152 (481)
                      .++.||++|.++|+++.+.|       ...+.+++    +.+++|+..|+++||+.+++++|+++++++..+.    +++
T Consensus       191 ~~~~~~~~l~~~l~kt~~~l~~~l~~~~~~~~ide----~~l~el~~~Ll~aDv~~~~~~~l~~~l~~~~~~~----~~~  262 (503)
T 2yhs_A          191 TKEGFFARLKRSLLKTKENLGSGFISLFRGKKIDD----DLFEELEEQLLIADVGVETTRKIITNLTEGASRK----QLR  262 (503)
T ss_dssp             CHHHHHHHHHHHTHHHHTTSTTHHHHHHTTCBCSH----HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHH----TCC
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHHhccCCCCH----HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhc----cCC
Confidence            35689999999988775443       23355554    4789999999999999999999999999887664    356


Q ss_pred             hhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHH
Q 011624          153 PDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVI  232 (481)
Q Consensus       153 ~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~  232 (481)
                      +.+.+.++++++|.++|+.....+.+...++.+++++|++|+||||++.+|+..+...|.+|.+.++|+||.++.+|+..
T Consensus       263 ~~~~~~~~l~~~l~~~l~~~~~~Isl~i~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~~r~aa~eQL~~  342 (503)
T 2yhs_A          263 DAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQV  342 (503)
T ss_dssp             BGGGHHHHHHHHHHHHHHTTBCCCCCCSCTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECCCTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHhCCCCCCceeeccCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEecCcccchhhHHHHHH
Confidence            67889999999999999876666667667789999999999999999999999999889999999999999988899888


Q ss_pred             hhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhcc------CCceEEEEEeCc
Q 011624          233 LGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAM  306 (481)
Q Consensus       233 ~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~------~p~~vvLVvda~  306 (481)
                      ++...+++++.......+...+.+.+......++|+|||||+|+.+.+..++.++.++..+.      .|+.++||+|++
T Consensus       343 ~~~r~~I~vV~Q~~~~~p~~tV~e~l~~a~~~~~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDat  422 (503)
T 2yhs_A          343 WGQRNNIPVIAQHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDAS  422 (503)
T ss_dssp             HHHHHTCCEECCSTTCCHHHHHHHHHHHHHHTTCSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGG
T ss_pred             HHHhcCceEEecccCcCHHHHHHHHHHHHHhcCCCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCc
Confidence            87777888887666667777777777776668899999999999988888888888776543      378899999999


Q ss_pred             chHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCc
Q 011624          307 TGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG  380 (481)
Q Consensus       307 ~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlg  380 (481)
                      ++++++.+++.|+..++++|+|+||+|++.++|.+++++..+++||.|+|+|++++||.+|++++|+++++|+.
T Consensus       423 tGq~al~~ak~f~~~~~itgvIlTKLD~takgG~~lsi~~~~~~PI~fig~Ge~vdDL~~f~~~~~v~~llg~~  496 (503)
T 2yhs_A          423 TGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFGIPIRYIGVGERIEDLRPFKADDFIEALFARE  496 (503)
T ss_dssp             GTHHHHHHHHHHHHHTCCSEEEEECGGGCSCCTHHHHHHHHHCCCEEEEECSSSGGGEEECCHHHHHHHHHCC-
T ss_pred             ccHHHHHHHHHHHhhcCCCEEEEEcCCCcccccHHHHHHHHHCCCEEEEecCCChhhcccCCHHHHHHHHhccc
Confidence            99999999999998899999999999999999999999999999999999999999999999999999999983

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=100.00  E-value=2.2e-36  Score=309.88  Aligned_cols=291  Identities=33%  Similarity=0.544  Sum_probs=250.9

Q ss_pred             HHHHHHHHHHHHHHHHHHhh-------CCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCCh
Q 011624           81 RAEMFGQLTSGLEAAWNKLK-------GEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRP  153 (481)
Q Consensus        81 ~~~~~~~l~~~l~~~~~~~~-------~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~  153 (481)
                      .++||++|+++|+++.+++.       +...+   ++++.+++|+++|+++||+.+++++|+++++++..+.++    .+
T Consensus        53 ~~~~f~~l~~~l~~~~~~~~~~~~l~~~~~~~---~~~~~~~~l~~~Ll~adv~~~~~~~~~~~~~~~~~~~~~----~~  125 (359)
T 2og2_A           53 AKSDVEKVFSGFSKTRENLAVIDELLLFWNLA---ETDRVLDELEEALLVSDFGPKITVRIVERLREDIMSGKL----KS  125 (359)
T ss_dssp             --CHHHHHHHHTHHHHHHHTHHHHHHTTCCGG---GHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTSC----CS
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHhcCCCcC---CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHhhcCC----CC
Confidence            35799999999999988875       33333   378899999999999999999999999999998876543    56


Q ss_pred             hHHHHHHHHHHHHHHhcCcc--ccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH
Q 011624          154 DQQLVKIVRDELVKLMGGEV--SELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV  231 (481)
Q Consensus       154 ~~~~~~~l~~~L~~~l~~~~--~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~  231 (481)
                      .+++.++++++|.++++...  .++.+...++.+++++|++||||||++.+||..+...+.+|.+.++|+||+++.+|+.
T Consensus       126 ~~~~~~~l~~~l~~~l~~~~~~~~l~l~~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g~D~~r~~a~eql~  205 (359)
T 2og2_A          126 GSEIKDALKESVLEMLAKKNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASDQLE  205 (359)
T ss_dssp             HHHHHHHHHHHHHHHHCCC---CSCCCCSSSSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCcccCCCcceecCCCeEEEEEcCCCChHHHHHHHHHhhccccCCEEEEecccccccchhHHHH
Confidence            78899999999999998755  4666666678999999999999999999999999988999999999999999999998


Q ss_pred             HhhhhcCCCeecCCCC-CCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhc------cCCceEEEEEe
Q 011624          232 ILGEQVGVPVYTAGTE-VKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRV------LNPTEVLLVVD  304 (481)
Q Consensus       232 ~~~~~~gv~v~~~~~~-~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~------~~p~~vvLVvd  304 (481)
                      .++...+++++..+.. ..|...+.+.+......++|++++||+|+.+.....+.+|.+....      ..|.+++||+|
T Consensus       206 ~~~~r~~i~~v~q~~~~~~p~~tv~e~l~~~~~~~~d~~lldt~Gl~~~~~~~~~eLSkqr~~iaral~~~P~e~lLvLD  285 (359)
T 2og2_A          206 IWAERTGCEIVVAEGDKAKAATVLSKAVKRGKEEGYDVVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGAPNEILLVLD  285 (359)
T ss_dssp             HHHHHHTCEEECCSSSSCCHHHHHHHHHHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHHHHSTTCCSEEEEEEE
T ss_pred             HHHHhcCeEEEEecccccChhhhHHHHHHHHHhCCCHHHHHHhcCCChhhhhHHHHHHHHHHHHHHHHhcCCCceEEEEc
Confidence            8887788888876666 6787777777765544578999999999988777788877754432      24788899999


Q ss_pred             CcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          305 AMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       305 a~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      ++++++...+++.|....+++++|+||+|++.++|.++++...++.||.|+|.|++++||++|+|+++++++||
T Consensus       286 pttglD~~~~~~~~~~~~g~t~iiiThlD~~~~gG~~lsi~~~~~~pI~~ig~Ge~~~Dl~~f~~~~~~~~ll~  359 (359)
T 2og2_A          286 GNTGLNMLPQAREFNEVVGITGLILTKLDGSARGGCVVSVVEELGIPVKFIGVGEAVEDLQPFDPEAFVNAIFS  359 (359)
T ss_dssp             GGGGGGGHHHHHHHHHHTCCCEEEEESCTTCSCTHHHHHHHHHHCCCEEEEECSSSGGGEEECCHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHhcCCeEEEEecCcccccccHHHHHHHHhCCCEEEEeCCCChHhccCCCHHHHHHHHhC
Confidence            98899999999999878899999999999999999999999999999999999999999999999999999876

>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=100.00  E-value=2.7e-37  Score=310.54  Aligned_cols=284  Identities=35%  Similarity=0.595  Sum_probs=223.7

Q ss_pred             HHHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHH
Q 011624           83 EMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVR  162 (481)
Q Consensus        83 ~~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~  162 (481)
                      .||++|+++|+++++++.++..+++ ++++.+++|+++|+++||+.+++++|++++++...           +++.++++
T Consensus         2 ~~~~~l~~~l~~~~~~~~~~~~~~~-~~~~~~~~l~~~L~~~dv~~~~~~~~~~~~~~~~~-----------~~~~~~~~   69 (304)
T 1rj9_A            2 GFFDRLKAGLAKTRERLLKAIPWGG-NLEEVLEELEMALLAADVGLSATEEILQEVRASGR-----------KDLKEAVK   69 (304)
T ss_dssp             --------------------------CHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTCC-----------SSTTHHHH
T ss_pred             cHHHHHHHHHHHHHHHhhcccccch-hhHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHH-----------HHHHHHHH
Confidence            6999999999999999988777888 88889999999999999999999999999987542           45678899


Q ss_pred             HHHHHHhcCccc-----cccccC-------CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHH
Q 011624          163 DELVKLMGGEVS-----ELVFAK-------SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQL  230 (481)
Q Consensus       163 ~~L~~~l~~~~~-----~~~~~~-------~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql  230 (481)
                      ++|.++++....     ++.+..       .++.+++++|++||||||++.+||..+...|.+|.+.+.|+||+++.+|+
T Consensus        70 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~g~vi~lvG~nGsGKTTll~~Lagll~~~~g~V~l~g~D~~r~~a~~ql  149 (304)
T 1rj9_A           70 EKLVGMLEPDERRATLRKLGFNPQKPKPVEPKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQL  149 (304)
T ss_dssp             HHHTTTTCTTCHHHHHHHTTCCCCCCCCCCCSSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTTTHHH
T ss_pred             HHHHHHhCcccccccccccccccccccccCCCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeecCCChhHHHHH
Confidence            999999986543     343322       25789999999999999999999999998899999999999999988999


Q ss_pred             HHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhcc------CCceEEEEEe
Q 011624          231 VILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVD  304 (481)
Q Consensus       231 ~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~------~p~~vvLVvd  304 (481)
                      ..+....+++++.......|...+.+.+......++|++++||+|+.+.+...+.++.+...++      .|+.+++|+|
T Consensus       150 ~~~~~~~~i~~v~q~~~~~p~~~v~~~v~~~~~~~~d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLD  229 (304)
T 1rj9_A          150 SEWGKRLSIPVIQGPEGTDSAALAYDAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLD  229 (304)
T ss_dssp             HHHHHHHTCCEECCCTTCCHHHHHHHHHHHHHHHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEE
T ss_pred             HHHHHhcCceEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEc
Confidence            8887777888887666677877666666655446789999999999888778888877654432      4788999999


Q ss_pred             CcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          305 AMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       305 a~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      +.+++++.++++.|....+++++|+||.|+..++|.++++...+++||.|+|+||+++|+++|+|+++++++||
T Consensus       230 a~t~~~~~~~~~~~~~~~~~t~iivTh~d~~a~gg~~l~i~~~~~~pi~~ig~Ge~~~dl~~f~~~~~~~~ll~  303 (304)
T 1rj9_A          230 AVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPEAFVEALLE  303 (304)
T ss_dssp             TTBCTHHHHHHHHHHHHHCCSEEEEECTTSSCCCTTHHHHHHHHCCCEEEEECSSSTTCEEECCHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEECCcccccccHHHHHHHHHCCCeEEEeCCCChhhcccCCHHHHHHHHhC
Confidence            99999999999999877889999999999999999999999999999999999999999999999999999987

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=100.00  E-value=1.5e-33  Score=283.14  Aligned_cols=271  Identities=34%  Similarity=0.577  Sum_probs=230.6

Q ss_pred             CCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcCcc--ccccc
Q 011624          101 GEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEV--SELVF  178 (481)
Q Consensus       101 ~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~--~~~~~  178 (481)
                      +.+.++   +++.+++|+++|+++||+.+++++|++++++...+.++    .+.+++.+++.++|.++++...  .++.+
T Consensus        23 ~~~~~~---~~~~~~~l~~~L~~~dv~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~l~~~l~~~~~~~~l~~   95 (302)
T 3b9q_A           23 FWNLAE---TDRVLDELEEALLVSDFGPKITVRIVERLREDIMSGKL----KSGSEIKDALKESVLEMLAKKNSKTELQL   95 (302)
T ss_dssp             TCCGGG---HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTSC----CSHHHHHHHHHHHHHHHHCC--CCCSCCC
T ss_pred             CCCcCC---HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHhhcCC----CCHHHHHHHHHHHHHHHhCCccccccccc
Confidence            345554   67889999999999999999999999999998876543    4678889999999999998754  45666


Q ss_pred             cCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC-CCHHHHHHHH
Q 011624          179 AKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE-VKPSQIAKQG  257 (481)
Q Consensus       179 ~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~-~~~~~~l~~~  257 (481)
                      ...++.+++++|++||||||++.+||..+...+.+|.+.+.|+||+++.+|+..++...+++++..+.. ..|...+.+.
T Consensus        96 ~~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~g~V~l~g~d~~r~~a~~ql~~~~~~~~i~~v~q~~~~~~~~~~v~e~  175 (302)
T 3b9q_A           96 GFRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKA  175 (302)
T ss_dssp             CSSSCEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSCHHHHHHHHHHHHHHTCEEECCC--CCCHHHHHHHH
T ss_pred             ccCCCcEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeecccchhHHHHHHHHHHhcCceEEEecCCccCHHHHHHHH
Confidence            666789999999999999999999999999889999999999999999999988887778888876655 6777667676


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhcc------CCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTK  331 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~------~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnK  331 (481)
                      +......++|.+++|++|+.+.....+.++.+....+      .|.+++||+|++++.+...+++.|....+++++|+||
T Consensus       176 l~~~~~~~~d~~lldt~gl~~~~~~~~~eLSkqr~~iaral~~~P~e~lLvLDptsglD~~~~~~~~~~~~g~t~iiiTh  255 (302)
T 3b9q_A          176 VKRGKEEGYDVVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQAREFNEVVGITGLILTK  255 (302)
T ss_dssp             HHHHHHTTCSEEEECCCCCSSCCHHHHHHHHHHHHHHHTTSTTCCSEEEEEEEGGGGGGGHHHHHHHHHHTCCCEEEEEC
T ss_pred             HHHHHHcCCcchHHhcCCCCcchhHHHHHHHHHHHHHHHhhccCCCeeEEEEeCCCCcCHHHHHHHHHHhcCCCEEEEeC
Confidence            6654445689999999999887777777776443322      4788899999988888888888898778999999999


Q ss_pred             CCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          332 LDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       332 vD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      +|++.++|.+++++..++.||.|++.|++++|+++|+|++++++++|
T Consensus       256 lD~~~~~g~~l~~~~~~~~pi~~i~~Ge~~~dl~~f~~~~~~~~llg  302 (302)
T 3b9q_A          256 LDGSARGGCVVSVVEELGIPVKFIGVGEAVEDLQPFDPEAFVNAIFS  302 (302)
T ss_dssp             CSSCSCTHHHHHHHHHHCCCEEEEECSSSGGGEEECCHHHHHHHHHC
T ss_pred             CCCCCccChheehHHHHCCCEEEEeCCCChhhcccCCHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999998876

>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=100.00  E-value=1.1e-32  Score=276.05  Aligned_cols=257  Identities=24%  Similarity=0.310  Sum_probs=210.8

Q ss_pred             hhhHHHHHHHHHHHHHCCCChHHHHHHHHHHH-HHHhhccccCCCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEE
Q 011624          108 ENIVEPMRDIRRALLEADVSLPVVRRFVQAVS-EQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVI  186 (481)
Q Consensus       108 ~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~-~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI  186 (481)
                      .++++.++++++.|+++||+.+++++|+++++ +.....    ..++ +.+.+++.++|.++++... ++.+. .++.++
T Consensus        36 ~~~~~~~~~l~~~L~~~dv~~~~~~~~~~~~~~~~~~~~----~~~~-~~~~~~~~~~l~~~l~~~~-~~~~~-~~g~vi  108 (296)
T 2px0_A           36 SVLPEPLRKAEKLLQETGIKESTKTNTLKKLLRFSVEAG----GLTE-ENVVGKLQEILCDMLPSAD-KWQEP-IHSKYI  108 (296)
T ss_dssp             ---CCHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHSSS----CCCT-TTHHHHHHHHHHTTSCCGG-GSCCC-CCSSEE
T ss_pred             cccHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHhhccc----CCCH-HHHHHHHHHHHHHHhCCcc-ccccc-CCCcEE
Confidence            35677899999999999999999999999994 444322    3334 5678899999999987543 23222 357899


Q ss_pred             EEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCC
Q 011624          187 LLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKN  265 (481)
Q Consensus       187 ~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~  265 (481)
                      +++|++|+||||++.+||.+++. +|++|+++++|+||+++.+++..+++..|++++..   ..+.+ ++.++..+  .+
T Consensus       109 ~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~---~~~~~-l~~al~~~--~~  182 (296)
T 2px0_A          109 VLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVC---YTKEE-FQQAKELF--SE  182 (296)
T ss_dssp             EEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBC---SSHHH-HHHHHHHG--GG
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeEec---CCHHH-HHHHHHHh--cC
Confidence            99999999999999999999985 89999999999999999999999998889887643   23433 45556554  68


Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH-HHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHH
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE-AAALVTTFNIEIGITGAILTKLDGDSRGGAALSV  344 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~-~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~  344 (481)
                      +|+|||||+|+.+.+...+.++.++.....++.+++|+|++.+.. +.+.++.|. .+++.|+|+||+|++.++|.++++
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~~~~~~~~~~~~~-~l~~~giVltk~D~~~~~g~~~~~  261 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAKYEDMKHIVKRFS-SVPVNQYIFTKIDETTSLGSVFNI  261 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBCHHHHHHHTTTTS-SSCCCEEEEECTTTCSCCHHHHHH
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCCHHHHHHHHHHHh-cCCCCEEEEeCCCcccchhHHHHH
Confidence            999999999999888888888877766556788999999977644 444455565 578899999999999999999999


Q ss_pred             HHHhCCCeEEeecCCCC-CCCCCcChhhHhhhhcC
Q 011624          345 KEVSGKPIKLVGRGERM-EDLEPFYPDRMAGRILG  378 (481)
Q Consensus       345 ~~~~glPV~~ig~g~~v-~dl~~f~~~~~~~r~lG  378 (481)
                      ...+|+||.|++.|+++ +|+.+|+|+++++++||
T Consensus       262 ~~~~~~pi~~i~~ge~vp~dl~~f~~~~~~~~llg  296 (296)
T 2px0_A          262 LAESKIGVGFMTNGQNVPEDIQTVSPLGFVRMLCR  296 (296)
T ss_dssp             HHTCSCCCSEECCSSCTTTSCBCCCHHHHHHHHTC
T ss_pred             HHHHCcCEEEEECCCCChHHHhcCCHHHHHHHHcC
Confidence            99999999999999999 99999999999999886

>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=99.66  E-value=3.2e-15  Score=139.40  Aligned_cols=151  Identities=21%  Similarity=0.202  Sum_probs=101.3

Q ss_pred             EEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          184 TVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       184 ~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ++|+++ ++||+||||++.+||.+|+++|++|++||+|++.....  + ......+++++..+.     +.+.+.+..++
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~~vlliD~D~~~~~~~--~-~~~~~~~~~~~~~~~-----~~l~~~l~~l~   73 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGYNIAVVDTDPQMSLTN--W-SKAGKAAFDVFTAAS-----EKDVYGIRKDL   73 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTCHHHH--H-HTTSCCSSEEEECCS-----HHHHHTHHHHT
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEECCCCCCHHH--H-HhcCCCCCcEEecCc-----HHHHHHHHHhc
Confidence            356664 78999999999999999999999999999998865431  1 112334566665532     45667777775


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-chHHHHHHHHHh------hhcCCeeEEEEcCCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TGQEAAALVTTF------NIEIGITGAILTKLDGD  335 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~~~~~~~~~~f------~~~~~i~GvIlnKvD~~  335 (481)
                       .+||+|||||||....  .....+    ..  .+.+++|+.+. ....+....+.+      ++.+++ |+|+|+++..
T Consensus        74 -~~yD~viiD~~~~~~~--~~~~~l----~~--ad~viiv~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~vv~N~~~~~  143 (206)
T 4dzz_A           74 -ADYDFAIVDGAGSLSV--ITSAAV----MV--SDLVIIPVTPSPLDFSAAGSVVTVLEAQAYSRKVEA-RFLITRKIEM  143 (206)
T ss_dssp             -TTSSEEEEECCSSSSH--HHHHHH----HH--CSEEEEEECSCTTTHHHHHHHHHHHTTSCGGGCCEE-EEEECSBCTT
T ss_pred             -CCCCEEEEECCCCCCH--HHHHHH----HH--CCEEEEEecCCHHHHHHHHHHHHHHHHHHhCCCCcE-EEEEeccCCC
Confidence             6799999999998732  111111    11  37788888772 223333333222      233455 9999999965


Q ss_pred             Cc-hhHHHHHHHHhCCCe
Q 011624          336 SR-GGAALSVKEVSGKPI  352 (481)
Q Consensus       336 ~~-~g~~~~~~~~~glPV  352 (481)
                      .. ...+...++.+|.|+
T Consensus       144 ~~~~~~~~~~l~~~~~~v  161 (206)
T 4dzz_A          144 ATMLNVLKESIKDTGVKA  161 (206)
T ss_dssp             EEEEHHHHHHHHHHTCCB
T ss_pred             chHHHHHHHHHHHcCCce
Confidence            43 455667777788888

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=99.63  E-value=3.5e-15  Score=148.24  Aligned_cols=147  Identities=24%  Similarity=0.323  Sum_probs=97.4

Q ss_pred             CCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHH---------hh------------hhcCC
Q 011624          182 RPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVI---------LG------------EQVGV  239 (481)
Q Consensus       182 ~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~---------~~------------~~~gv  239 (481)
                      ++++|+++ +++|+||||++++||..|++.|++|+|||+|+++|.....+..         +.            ...++
T Consensus        91 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~~~~~l~~~~~~~~~~gl~~~l~~~~~~~~~i~~~~~~~l  170 (286)
T 3la6_A           91 QNNVLMMTGVSPSIGMTFVCANLAAVISQTNKRVLLIDCDMRKGYTHELLGTNNVNGLSEILIGQGDITTAAKPTSIAKF  170 (286)
T ss_dssp             TCCEEEEEESSSSSSHHHHHHHHHHHHHTTTCCEEEEECCTTTCCHHHHHTCCCTTCHHHHHHTSSCTTTTCEECSSTTE
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeccCCCCCHHHHhCCCCCCCHHHHccCCCCHHHheeccCCCCE
Confidence            35567665 6699999999999999999999999999999988754332210         00            01244


Q ss_pred             CeecCCC-CCCHHHH-----HHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeCc-ch-HH
Q 011624          240 PVYTAGT-EVKPSQI-----AKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDAM-TG-QE  310 (481)
Q Consensus       240 ~v~~~~~-~~~~~~~-----l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda~-~~-~~  310 (481)
                      .+++.+. ..++.+.     +.+.++.++ +.||+|||||||.... |...      +..  ..+.+++|+.+. +. ..
T Consensus       171 ~vl~~g~~~~~~~ell~~~~l~~ll~~l~-~~yD~VIIDtpp~~~~~da~~------l~~--~aD~vllVv~~~~~~~~~  241 (286)
T 3la6_A          171 DLIPRGQVPPNPSELLMSERFAELVNWAS-KNYDLVLIDTPPILAVTDAAI------VGR--HVGTTLMVARYAVNTLKE  241 (286)
T ss_dssp             EEECCCSCCSCHHHHHTSHHHHHHHHHHH-HHCSEEEEECCCTTTCTHHHH------HTT--TCSEEEEEEETTTSBHHH
T ss_pred             EEEeCCCCCCCHHHHhchHHHHHHHHHHH-hCCCEEEEcCCCCcchHHHHH------HHH--HCCeEEEEEeCCCCcHHH
Confidence            4555443 2345543     466777765 6899999999998754 2221      111  247889999883 33 33


Q ss_pred             HHHHHHHhh-hcCCeeEEEEcCCCCCCc
Q 011624          311 AAALVTTFN-IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       311 ~~~~~~~f~-~~~~i~GvIlnKvD~~~~  337 (481)
                      +...++.+. ...++.|+|+|+++....
T Consensus       242 ~~~~~~~l~~~g~~~~GvVlN~v~~~~~  269 (286)
T 3la6_A          242 VETSLSRFEQNGIPVKGVILNSIFRRAS  269 (286)
T ss_dssp             HHHHHHHHHHTTCCCCEEEEEEECCCCC
T ss_pred             HHHHHHHHHhCCCCEEEEEEcCcccccc
Confidence            333444443 246789999999986544

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=99.63  E-value=3.1e-15  Score=146.09  Aligned_cols=169  Identities=18%  Similarity=0.164  Sum_probs=100.3

Q ss_pred             CEEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhh---------------hhcCCCeecCCC
Q 011624          183 PTVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILG---------------EQVGVPVYTAGT  246 (481)
Q Consensus       183 ~~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~---------------~~~gv~v~~~~~  246 (481)
                      +++|++ +++||+||||++.+||.+|+++|++|++||+|++.+.....+....               ...|+.+++.+.
T Consensus        18 ~~vI~v~s~kGGvGKTT~a~nLA~~la~~G~~VlliD~D~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~vlp~~~   97 (262)
T 2ph1_A           18 KSRIAVMSGKGGVGKSTVTALLAVHYARQGKKVGILDADFLGPSIPILFGLRNARIAVSAEGLEPVLTQKYGIKVMSMQF   97 (262)
T ss_dssp             SCEEEEECSSSCTTHHHHHHHHHHHHHHTTCCEEEEECCSSCCHHHHHTTCCSCCCEEETTEEECEECTTTCCEEECGGG
T ss_pred             CeEEEEEcCCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCCCCHHHHhcCCCccccccccCccccccCCCCeEEEeccc
Confidence            345555 5889999999999999999999999999999999876432221100               011233332221


Q ss_pred             CC------------CHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc--chHHHH
Q 011624          247 EV------------KPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM--TGQEAA  312 (481)
Q Consensus       247 ~~------------~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~--~~~~~~  312 (481)
                      ..            ...+.+++.++.+.+++||||||||||..... . ...+. +   ...+.+++|+.+.  .-..+.
T Consensus        98 ~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yD~ViID~pp~~~~~-~-~~~~~-~---~~aD~viiv~~~~~~s~~~~~  171 (262)
T 2ph1_A           98 LLPKENTPVIWRGPLIAGMIREFLGRVAWGELDHLLIDLPPGTGDA-P-LTVMQ-D---AKPTGVVVVSTPQELTAVIVE  171 (262)
T ss_dssp             GSTTCSSCCCCCSHHHHHHHHHHHHSBCCCSCSEEEEECCSSSSSH-H-HHHHH-H---HCCSEEEEEECSSSCCHHHHH
T ss_pred             cCCCcccchhhcCchHHHHHHHHHHHhhccCCCEEEEECcCCCchH-H-HHHHh-h---ccCCeEEEEecCccchHHHHH
Confidence            10            01233444444432368999999999986421 1 11111 1   1237788888773  223333


Q ss_pred             HHHHHhh-hcCCeeEEEEcCCCCC-------C---chhHHHHHHHHhCCCeEEeecCC
Q 011624          313 ALVTTFN-IEIGITGAILTKLDGD-------S---RGGAALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       313 ~~~~~f~-~~~~i~GvIlnKvD~~-------~---~~g~~~~~~~~~glPV~~ig~g~  359 (481)
                      ..++.+. .++++.|+|+|+++..       .   ....+..+.+.+|.|+  ++..+
T Consensus       172 ~~~~~l~~~~~~~~gvV~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~--~~~Ip  227 (262)
T 2ph1_A          172 KAINMAEETNTSVLGLVENMSYFVCPNCGHKSYIFGEGKGESLAKKYNIGF--FTSIP  227 (262)
T ss_dssp             HHHHHHHTTTCCEEEEEETTCCEECTTTCCEECTTCCCCHHHHHHHTTCSE--EEECC
T ss_pred             HHHHHHHhCCCCEEEEEECCCccCCcccccccccccccHHHHHHHHcCCCe--EEEee
Confidence            3333222 2467889999999741       1   1223566777889887  55443

>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=99.63  E-value=7.2e-15  Score=144.84  Aligned_cols=146  Identities=23%  Similarity=0.340  Sum_probs=96.1

Q ss_pred             CCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHH---------hh------------hhcCC
Q 011624          182 RPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVI---------LG------------EQVGV  239 (481)
Q Consensus       182 ~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~---------~~------------~~~gv  239 (481)
                      ++++|+++ +++|+||||++++||..|++.|+||++||+|+++|.....+..         +.            ...++
T Consensus        81 ~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID~D~~~~~l~~~~~~~~~~gl~~~L~~~~~l~~~i~~~~~~~l  160 (271)
T 3bfv_A           81 AVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVDGDMRKPTQHYIFNLPNNEGLSSLLLNWSTYQDSIISTEIEDL  160 (271)
T ss_dssp             CCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCSSSCCHHHHTTCCCSSSHHHHHTTSSCHHHHEEECSSTTE
T ss_pred             CCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCccHHHHcCCCCCCCHHHHhCCCCCHHHcEEeCCCCCE
Confidence            45677776 4599999999999999999999999999999988664322110         00            01345


Q ss_pred             CeecCCC-CCCHHHH-----HHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeC-cch-HH
Q 011624          240 PVYTAGT-EVKPSQI-----AKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDA-MTG-QE  310 (481)
Q Consensus       240 ~v~~~~~-~~~~~~~-----l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda-~~~-~~  310 (481)
                      .+++.+. ..++.++     +.+.++.++ +.||+|||||||.... +...+...        .+.+++|+.+ .+. ..
T Consensus       161 ~vl~~g~~~~~~~ell~~~~l~~ll~~l~-~~yD~VIIDtpp~~~~~d~~~l~~~--------aD~vilVv~~~~~~~~~  231 (271)
T 3bfv_A          161 DVLTSGPIPPNPSELITSRAFANLYDTLL-MNYNFVIIDTPPVNTVTDAQLFSKF--------TGNVVYVVNSENNNKDE  231 (271)
T ss_dssp             EEECCCSCCSCHHHHHTSHHHHHHHHHHH-HHCSEEEEECCCTTTCSHHHHHHHH--------HCEEEEEEETTSCCHHH
T ss_pred             EEEECCCCCCCHHHHhChHHHHHHHHHHH-hCCCEEEEeCCCCchHHHHHHHHHH--------CCEEEEEEeCCCCcHHH
Confidence            5665543 3345443     356677765 6899999999997653 32222221        2788999988 333 33


Q ss_pred             HHHHHHHhh-hcCCeeEEEEcCCCCCC
Q 011624          311 AAALVTTFN-IEIGITGAILTKLDGDS  336 (481)
Q Consensus       311 ~~~~~~~f~-~~~~i~GvIlnKvD~~~  336 (481)
                      +....+.+. ...++.|+|+|+++...
T Consensus       232 ~~~~~~~l~~~~~~~~GvVlN~~~~~~  258 (271)
T 3bfv_A          232 VKKGKELIEATGAKLLGVVLNRMPKDK  258 (271)
T ss_dssp             HHHHHHHHHTTTCEEEEEEEEEECC--
T ss_pred             HHHHHHHHHhCCCCEEEEEEeCCcCCC
Confidence            333333332 24567999999998654

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=99.62  E-value=3.4e-15  Score=143.18  Aligned_cols=165  Identities=18%  Similarity=0.147  Sum_probs=104.0

Q ss_pred             CCEEEEE-EcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhH-------------HHHHHHh-------------
Q 011624          182 RPTVILL-AGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAA-------------IDQLVIL-------------  233 (481)
Q Consensus       182 ~~~VI~i-~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~a-------------idql~~~-------------  233 (481)
                      ++++|++ +++||+||||++++||.+|+++ |++|++||+|++.+..             .+.+...             
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~   82 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVDISLPFGDLDMYLSGNTHSQDLADISNASDRLDKSLLDTMVQ   82 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTTSTTCCEEEEECCTTTCCGGGGTCSSCCSCCHHHHHHTGGGCCHHHHHHHSE
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHhCcCCCEEEEECCCCCCCHHHHhCCCCCCCCHHHHHhhHhhhhHHHHHHHhE
Confidence            3566666 4779999999999999999998 9999999999984322             1111100             


Q ss_pred             hhhcCCCeecCCCCCCH-----HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-
Q 011624          234 GEQVGVPVYTAGTEVKP-----SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-  307 (481)
Q Consensus       234 ~~~~gv~v~~~~~~~~~-----~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-  307 (481)
                      ....|+.+++.+.....     .+.+.+.++.++ ..||+|||||||......   ..   +..  ..+.+++|+.+.. 
T Consensus        83 ~~~~~l~~l~~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~viiD~p~~~~~~~---~~---~l~--~ad~viiv~~~~~~  153 (245)
T 3ea0_A           83 HISPSLDLIPSPATFEKIVNIEPERVSDLIHIAA-SFYDYIIVDFGASIDHVG---VW---VLE--HLDELCIVTTPSLQ  153 (245)
T ss_dssp             EEETTEEEECCCSSHHHHHHCCHHHHHHHHHHHH-HHCSEEEEEEESSCCTTH---HH---HGG--GCSEEEEEECSSHH
T ss_pred             ecCCCeEEEcCCCChHhhhcCCHHHHHHHHHHHH-hhCCEEEEeCCCCCchHH---HH---HHH--HCCEEEEEecCcHH
Confidence            01235556655432111     234566777765 589999999998764321   11   111  2377888888732 


Q ss_pred             h-HHHHH---HHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecC
Q 011624          308 G-QEAAA---LVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRG  358 (481)
Q Consensus       308 ~-~~~~~---~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g  358 (481)
                      . ..+..   .++.+.......|+|+|+++...... ...+.+.+|.|+  ++..
T Consensus       154 ~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~~~~-~~~~~~~~~~~v--~~~i  205 (245)
T 3ea0_A          154 SLRRAGQLLKLCKEFEKPISRIEIILNRADTNSRIT-SDEIEKVIGRPI--SKRI  205 (245)
T ss_dssp             HHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCTTSC-HHHHHHHHTSCE--EEEE
T ss_pred             HHHHHHHHHHHHHHhCCCccceEEEEecCCCCCCCC-HHHHHHHhCCCe--EEEC
Confidence            2 22223   33333333566899999998655432 245667789998  5554

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=99.61  E-value=6.9e-15  Score=142.98  Aligned_cols=165  Identities=19%  Similarity=0.239  Sum_probs=102.5

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH-------------HHHHHh--------hhhcCCCe
Q 011624          184 TVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI-------------DQLVIL--------GEQVGVPV  241 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai-------------dql~~~--------~~~~gv~v  241 (481)
                      ++|++ +++||+||||++++||.+|+++|++|++||+|++.+...             +.+...        ....++.+
T Consensus         3 ~~I~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~l~~~l~~~~~~~~l~~~l~~~~~~~~~i~~~~~~l~~   82 (263)
T 1hyq_A            3 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMANLELILGMEGLPVTLQNVLAGEARIDEAIYVGPGGVKV   82 (263)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCCSSSSHHHHTTCCCCCCCHHHHHTTSSCGGGGCEECGGGCEE
T ss_pred             eEEEEECCCCCCCHHHHHHHHHHHHHhCCCcEEEEECCCCCCCcchhcCCCCCCCCHHHHHcCCCcHHHhheeCCCCeEE
Confidence            45555 688999999999999999999999999999999754321             111000        00123444


Q ss_pred             ecCCCCCCH-----HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHH
Q 011624          242 YTAGTEVKP-----SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAAL  314 (481)
Q Consensus       242 ~~~~~~~~~-----~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~  314 (481)
                      ++.....+.     .+.+.+.++.++ .+||+|||||||....  ....    +..  ..+.+++|+.+...  ..+...
T Consensus        83 lp~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~viiD~~~~~~~--~~~~----~~~--~ad~vi~v~~~~~~~~~~~~~~  153 (263)
T 1hyq_A           83 VPAGVSLEGLRKANPEKLEDVLTQIM-ESTDILLLDAPAGLER--SAVI----AIA--AAQELLLVVNPEISSITDGLKT  153 (263)
T ss_dssp             EECCSCHHHHHHHCHHHHHHHHHHHH-HTCSEEEEECCSSSSH--HHHH----HHH--HSSEEEEEECSSHHHHHHHHHH
T ss_pred             EcCCCCcChhhccChHHHHHHHHHHH-hhCCEEEEeCCCCCCh--HHHH----HHH--HCCEEEEEeCCChhHHHHHHHH
Confidence            442211111     234456666665 6899999999987642  1111    111  13788888887422  233333


Q ss_pred             HHHhhh-cCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCC
Q 011624          315 VTTFNI-EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       315 ~~~f~~-~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~  359 (481)
                      ++.+.. ...+.|+|+|+++.......+..+.+.+|.|+  ++..+
T Consensus       154 ~~~l~~~~~~~~~vv~N~~~~~~~~~~~~~~~~~~~~~~--~~~Ip  197 (263)
T 1hyq_A          154 KIVAERLGTKVLGVVVNRITTLGIEMAKNEIEAILEAKV--IGLIP  197 (263)
T ss_dssp             HHHHHHHTCEEEEEEEEEECTTTHHHHHHHHHHHTTSCE--EEEEE
T ss_pred             HHHHHhcCCCeeEEEEccCCcccccchHHHHHHHhCCCe--EEECC
Confidence            333221 35678999999997655544566777788887  45443

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=99.60  E-value=9.8e-15  Score=145.90  Aligned_cols=147  Identities=28%  Similarity=0.372  Sum_probs=97.0

Q ss_pred             CCEEEEEEc-CCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHH---------h------------hhhcCC
Q 011624          182 RPTVILLAG-LQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVI---------L------------GEQVGV  239 (481)
Q Consensus       182 ~~~VI~i~G-~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~---------~------------~~~~gv  239 (481)
                      ++++|++++ ++|+||||++++||..|++.|+||++||+|+.+|.....+..         +            ....++
T Consensus       103 ~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID~D~r~~~l~~~~~~~~~~gl~~~L~~~~~l~~~i~~~~~~~l  182 (299)
T 3cio_A          103 ENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFIDADLRRGYSHNLFTVSNEHGLSEYLAGKDELNKVIQHFGKGGF  182 (299)
T ss_dssp             SCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEECCTTTCCHHHHTTCCCSSSHHHHHTTSSCHHHHCEEETTTTE
T ss_pred             CCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEECCCCCccHHHHcCCCCCCCHHHHCcCCCCHHHhhhccCCCCE
Confidence            456777765 599999999999999999999999999999987654322110         0            011355


Q ss_pred             CeecCCC-CCCHHH-----HHHHHHHHHHcCCCcEEEEcCCCCccc-cHHHHHHHHhhhhccCCceEEEEEeCc-ch-HH
Q 011624          240 PVYTAGT-EVKPSQ-----IAKQGLEEAKKKNVDVVIVDTAGRLQI-DKAMMDELKDVKRVLNPTEVLLVVDAM-TG-QE  310 (481)
Q Consensus       240 ~v~~~~~-~~~~~~-----~l~~~l~~~~~~~~D~VIIDt~G~~~~-d~~~~~el~~i~~~~~p~~vvLVvda~-~~-~~  310 (481)
                      .+++.+. ..++.+     .+.+.++.++ +.||+|||||||.... |...      +..  ..+.+++|+.+. +. ..
T Consensus       183 ~vl~~g~~~~~~~ell~~~~l~~ll~~l~-~~yD~VIIDtpp~~~~~d~~~------l~~--~ad~vilV~~~~~~~~~~  253 (299)
T 3cio_A          183 DVITRGQVPPNPSELLMRDRMRQLLEWAN-DHYDLVIVDTPPMLAVSDAAV------VGR--SVGTSLLVARFGLNTAKE  253 (299)
T ss_dssp             EEECCCSCCSCHHHHHTSHHHHHHHHHHH-HHCSEEEEECCCTTTCTHHHH------HGG--GCSEEEEEEETTTSCTTH
T ss_pred             EEEECCCCCCCHHHHhCHHHHHHHHHHHH-hCCCEEEEcCCCCchhHHHHH------HHH--HCCEEEEEEcCCCChHHH
Confidence            5665543 334443     3456777765 6899999999998753 2221      111  237889998872 22 33


Q ss_pred             HHHHHHHhh-hcCCeeEEEEcCCCCCCc
Q 011624          311 AAALVTTFN-IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       311 ~~~~~~~f~-~~~~i~GvIlnKvD~~~~  337 (481)
                      +...++.+. ...++.|+|+|+++....
T Consensus       254 ~~~~~~~l~~~~~~~~GvVlN~~~~~~~  281 (299)
T 3cio_A          254 VSLSMQRLEQAGVNIKGAILNGVIKRAS  281 (299)
T ss_dssp             HHHHHHHHHHTTCCCCCEEEEECCCCCS
T ss_pred             HHHHHHHHHhCCCCeEEEEEeCCccCCC
Confidence            333334332 246789999999997644

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=99.60  E-value=2.3e-14  Score=139.70  Aligned_cols=170  Identities=17%  Similarity=0.184  Sum_probs=101.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHH------------HHHHh-----------hhhcCCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAID------------QLVIL-----------GEQVGVP  240 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aid------------ql~~~-----------~~~~gv~  240 (481)
                      ++|+++|+||+||||++.+||.+|+++|++|++||+|++.+....            .+...           ....|+.
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G~~VlliD~D~q~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~i~~~~~~l~   81 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYGGIR   81 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTTSCSSHHHHTSCCCCCHHHHHHHHGGGCCHHHHCEECGGGCE
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCCCcEEEEcCCCCCCHHHHhcCCCCcccHHHHHhccCcCCCHHHhhccCCCCee
Confidence            467778999999999999999999999999999999998644211            11110           0113455


Q ss_pred             eecCCCCCC-----HHHHH--HHHHHHHH--cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-H
Q 011624          241 VYTAGTEVK-----PSQIA--KQGLEEAK--KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-Q  309 (481)
Q Consensus       241 v~~~~~~~~-----~~~~l--~~~l~~~~--~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~  309 (481)
                      +++.+....     ..+..  ...+..+.  .++||||||||||....+ .+...+..    ...+.+++|+.+.. . .
T Consensus        82 vl~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~yD~iiiD~~~~~~~~-~~~~~~~~----~~aD~viiv~~~~~~s~~  156 (269)
T 1cp2_A           82 CVESGGPEPGVGCAGRGIITSINMLEQLGAYTDDLDYVFYDVLGDVVCG-GFAMPIRE----GKAQEIYIVASGEMMALY  156 (269)
T ss_dssp             EEECCCCCTTSSCHHHHHHHHHHHHHHTTCCCTTCSEEEEEEECSSCST-TTTHHHHT----TSCCEEEEEECSSHHHHH
T ss_pred             EEeCCCchhhccccCcchhhHHHHHHHHHhhccCCCEEEEeCCchhhhh-hhhhhhhH----hhCCEEEEeecCchhhHH
Confidence            555443211     11111  11222221  257999999999875422 11111110    12478888888732 2 2


Q ss_pred             HH---HHHHHHhhh--cCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCC
Q 011624          310 EA---AALVTTFNI--EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       310 ~~---~~~~~~f~~--~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                      .+   ...+..+..  ++++.|+|+|+++...+......+.+.+|.|+  ++..+.
T Consensus       157 ~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~~~~~~~~~l~~~~~~~v--~~~Ip~  210 (269)
T 1cp2_A          157 AANNISKGIQKYAKSGGVRLGGIICNSRKVANEYELLDAFAKELGSQL--IHFVPR  210 (269)
T ss_dssp             HHHHHHHHHHHHBTTBBCEEEEEEEECCSSSCCHHHHHHHHHHHTCCE--EEEECC
T ss_pred             HHHHHHHHHHHHHhcCCCcEEEEEeecCCcchhHHHHHHHHHHcCCcc--cccCCC
Confidence            22   233333322  45578999999986554445566777889998  454433

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=99.59  E-value=6.6e-15  Score=143.71  Aligned_cols=170  Identities=18%  Similarity=0.224  Sum_probs=100.0

Q ss_pred             CCCEEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhh----------------h--------
Q 011624          181 SRPTVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILG----------------E--------  235 (481)
Q Consensus       181 ~~~~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~----------------~--------  235 (481)
                      .++++|++ +++||+||||++++||.+|+ +|++|++||+|++.+....-.....                .        
T Consensus        25 ~~~~vI~v~s~kGGvGKTT~a~~LA~~la-~g~~VlliD~D~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~i  103 (267)
T 3k9g_A           25 KKPKIITIASIKGGVGKSTSAIILATLLS-KNNKVLLIDMDTQASITSYFYEKIEKLGINFTKFNIYEILKENVDIDSTI  103 (267)
T ss_dssp             -CCEEEEECCSSSSSCHHHHHHHHHHHHT-TTSCEEEEEECTTCHHHHHTHHHHHHTTCCTTTSSHHHHHTTSSCGGGGC
T ss_pred             CCCeEEEEEeCCCCchHHHHHHHHHHHHH-CCCCEEEEECCCCCCHHHHhhccccccccCcccccHHHHhcCCCCHHHhh
Confidence            35677777 57799999999999999999 9999999999998754321110000                0        


Q ss_pred             ---hcCCCeecCCCCC---------CHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEE
Q 011624          236 ---QVGVPVYTAGTEV---------KPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVV  303 (481)
Q Consensus       236 ---~~gv~v~~~~~~~---------~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVv  303 (481)
                         ..|+.+++.+...         .....+.+.++.++ ..||+||||||+....  .....    +.  ..+.+++|+
T Consensus       104 ~~~~~~l~~lp~~~~~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~viiD~pp~~~~--~~~~~----l~--~aD~vivv~  174 (267)
T 3k9g_A          104 INVDNNLDLIPSYLTLHNFSEDKIEHKDFLLKTSLGTLY-YKYDYIVIDTNPSLDV--TLKNA----LL--CSDYVIIPM  174 (267)
T ss_dssp             EEEETTEEEECCCGGGGGTTTCCCTTGGGHHHHHHHTTC-TTCSEEEEEECSSCSH--HHHHH----HT--TCSEEEEEE
T ss_pred             ccCCCCEEEEeCChHHHHHHHhhhhhHHHHHHHHHHHhh-cCCCEEEEECcCCccH--HHHHH----HH--HCCeEEEEe
Confidence               0233344332110         01345566676663 7899999999987642  11111    11  247888888


Q ss_pred             eC-cchH-HHH---HHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCC
Q 011624          304 DA-MTGQ-EAA---ALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDL  364 (481)
Q Consensus       304 da-~~~~-~~~---~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl  364 (481)
                      .+ ..+. .+.   +.++.+....++ ++|+|+++.......+...... +.|+  ++..+..+.+
T Consensus       175 ~~~~~s~~~~~~~~~~l~~~~~~~~~-~vv~N~~~~~~~~~~~~~~l~~-~~~~--~~~Ip~~~~~  236 (267)
T 3k9g_A          175 TAEKWAVESLDLFNFFVRKLNLFLPI-FLIITRFKKNRTHKTLFEILKT-KDRF--LGTISEREDL  236 (267)
T ss_dssp             ESCTTHHHHHHHHHHHHHTTTCCCCE-EEEEEEECTTCSCCHHHHHHTT-STTE--EEEEEC----
T ss_pred             CCChHHHHHHHHHHHHHHHHhccCCE-EEEEecccCcchHHHHHHHHhc-Cccc--ceecCcHHHH
Confidence            87 3332 222   223333333444 6999999655555555444443 6776  6666555443

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=99.58  E-value=9.2e-15  Score=144.97  Aligned_cols=152  Identities=16%  Similarity=0.179  Sum_probs=93.5

Q ss_pred             cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhh-----------------------hcCCCeecCCC
Q 011624          190 GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE-----------------------QVGVPVYTAGT  246 (481)
Q Consensus       190 G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~-----------------------~~gv~v~~~~~  246 (481)
                      ++||+||||++.+||.+|+++|++|++||+|++.+........++.                       ..|+.+++.+.
T Consensus        44 ~KGGvGKTT~a~nLA~~la~~G~rVlliD~D~q~~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~vlp~~~  123 (298)
T 2oze_A           44 FKGGVGKSKLSTMFAYLTDKLNLKVLMIDKDLQATLTKDLAKTFKVELPRVNFYEGLKNGNLASSIVHLTDNLDLIPGTF  123 (298)
T ss_dssp             SSSSSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHTTTSCCCCCSSCHHHHHHHTCCGGGCEESSSSEEEECCCG
T ss_pred             CCCCchHHHHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHhccCCCCcccHHHHHhcCChhhhhcccCCCeEEEeCCc
Confidence            6999999999999999999999999999999997643111000000                       02334444332


Q ss_pred             CCCH-------------HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-HH-
Q 011624          247 EVKP-------------SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-QE-  310 (481)
Q Consensus       247 ~~~~-------------~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~~-  310 (481)
                      ....             ...+++.++.++ ++||+|||||||....  .....+   .   ..+.+++|+.+.. . .. 
T Consensus       124 ~~~~~~~l~~~~~~~~~~~~l~~~l~~l~-~~yD~IiiD~pp~~~~--~~~~~l---~---~aD~viiv~~~~~~s~~~~  194 (298)
T 2oze_A          124 DLMLLPKLTRSWTFENESRLLATLLAPLK-SDYDLIIIDTVPTPSV--YTNNAI---V---ASDYVMIPLQAEEESTNNI  194 (298)
T ss_dssp             GGGGHHHHTTTSCHHHHHTHHHHHHGGGG-GGCSEEEEEECSSCSH--HHHHHH---H---HCSEEEEEECGGGCCHHHH
T ss_pred             hHHHHHHHhhhhccccHHHHHHHHHHHHh-cCCCEEEEECCCCccH--HHHHHH---H---HCCeEEEEecCcHHHHHHH
Confidence            1111             122455555553 6899999999998642  112222   1   1378888887732 2 22 


Q ss_pred             --HHHHHH----HhhhcCCeeEEEEcCCCCCCc--hhHHHHHHHHhCC
Q 011624          311 --AAALVT----TFNIEIGITGAILTKLDGDSR--GGAALSVKEVSGK  350 (481)
Q Consensus       311 --~~~~~~----~f~~~~~i~GvIlnKvD~~~~--~g~~~~~~~~~gl  350 (481)
                        ..+.+.    .++..+++.|+|+|++|....  ...+..+.+.++.
T Consensus       195 ~~~~~~l~~~~~~~~~~~~~~gvv~n~~~~~~~~~~~~~~~~~~~~~~  242 (298)
T 2oze_A          195 QNYISYLIDLQEQFNPGLDMIGFVPYLVDTDSATIKSNLEELYKQHKE  242 (298)
T ss_dssp             HHHHHHHHHHHHHHCTTCEEEEEEEEESCTTCHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHHhCCCCeEEEEEEEEECCCcHHHHHHHHHHHHHhcc
Confidence              222222    234567789999999997653  2344556666665

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=99.58  E-value=9.8e-15  Score=139.45  Aligned_cols=165  Identities=21%  Similarity=0.292  Sum_probs=100.6

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-------------HHHHHHhh---h------hcCCC
Q 011624          184 TVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-------------IDQLVILG---E------QVGVP  240 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-------------idql~~~~---~------~~gv~  240 (481)
                      ++|++ +++||+||||++.+||.+|+++|++|++||+|++.+..             .+.+....   +      ..++.
T Consensus         3 ~~i~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~l~~~~~~~~~~~~l~~~l~~~~~~~~~i~~~~~~~l~   82 (237)
T 1g3q_A            3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFDNVY   82 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSSTTEE
T ss_pred             eEEEEecCCCCCCHHHHHHHHHHHHHhcCCeEEEEeCCCCCCChhHhcCCCCCCCCHHHHhcCCCCHHHHhhcCCCCCEE
Confidence            45555 57799999999999999999999999999999975332             11110000   0      02333


Q ss_pred             eecCCCCCCH-----HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHH
Q 011624          241 VYTAGTEVKP-----SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAA  313 (481)
Q Consensus       241 v~~~~~~~~~-----~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~  313 (481)
                      +++.......     .+.+.+.++.++ .+||+|||||||....+  . .   .+..  ..+.+++|+.+...  ..+..
T Consensus        83 ~lp~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~viiD~~~~~~~~--~-~---~~~~--~ad~vi~v~~~~~~~~~~~~~  153 (237)
T 1g3q_A           83 VLPGAVDWEHVLKADPRKLPEVIKSLK-DKFDFILIDCPAGLQLD--A-M---SAML--SGEEALLVTNPEISCLTDTMK  153 (237)
T ss_dssp             EECCCCSHHHHHHCCGGGHHHHHHTTG-GGCSEEEEECCSSSSHH--H-H---HHHT--TCSEEEEEECSCHHHHHHHHH
T ss_pred             EEeCCCccchhhhcCHHHHHHHHHHHH-hcCCEEEEECCCCcCHH--H-H---HHHH--HCCeEEEEecCCcccHHHHHH
Confidence            4432111111     123445566654 68999999999876421  1 1   1222  24788888887432  23333


Q ss_pred             HHHHhhh-cCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCC
Q 011624          314 LVTTFNI-EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       314 ~~~~f~~-~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~  359 (481)
                      .++.+.. ...+.|+|+|+++.......+..+.+.+|.|+  ++..+
T Consensus       154 ~~~~l~~~~~~~~~vv~N~~~~~~~~~~~~~~~~~~~~~~--~~~Ip  198 (237)
T 1g3q_A          154 VGIVLKKAGLAILGFVLNRYGRSDRDIPPEAAEDVMEVPL--LAVIP  198 (237)
T ss_dssp             HHHHHHHTTCEEEEEEEEEETSCTTCCCHHHHHHHHCSCE--EEEEE
T ss_pred             HHHHHHhCCCceEEEEEecCCcccchhHHHHHHHHhCccc--eeeCC
Confidence            3333322 35678999999997654444556667788887  45443

>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=99.58  E-value=1.3e-14  Score=143.38  Aligned_cols=170  Identities=18%  Similarity=0.213  Sum_probs=100.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHH------------HHHHh-------------hhhcC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAID------------QLVIL-------------GEQVG  238 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aid------------ql~~~-------------~~~~g  238 (481)
                      ++|+++|+||+||||++.+||.+|+++|++|++||+|++.+....            -+...             ....|
T Consensus         3 kvIavs~KGGvGKTT~a~nLA~~La~~G~rVlliD~D~q~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~i~~~~~~   82 (289)
T 2afh_E            3 RQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVEDLELEDVLKAGYGG   82 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSSCSSHHHHCCSSCCBHHHHHHTTSSGGGCCHHHHCEECGGG
T ss_pred             eEEEEeCCCcCcHHHHHHHHHHHHHHCCCeEEEEecCCCCCHHHHhcCCCCCCcHHHHHhcccccccCCHHHhhccCCCC
Confidence            577778999999999999999999999999999999998643211            11100             00123


Q ss_pred             CCeecCCCCCC-----HHHHH--HHHHHHHH--cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h
Q 011624          239 VPVYTAGTEVK-----PSQIA--KQGLEEAK--KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G  308 (481)
Q Consensus       239 v~v~~~~~~~~-----~~~~l--~~~l~~~~--~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~  308 (481)
                      +.+++.+....     ..+..  .+.+..+.  ..+||||||||||....+. +...+.    ....+.+++|+.+.. .
T Consensus        83 l~~l~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~yD~ViID~~~~~~~~~-~~~~~~----~~~aD~viiv~~~~~~s  157 (289)
T 2afh_E           83 VKCVESGGPEPGVGCAGRGVITAINFLEEEGAYEDDLDFVFYDVLGDVVCGG-FAMPIR----ENKAQEIYIVCSGEMMA  157 (289)
T ss_dssp             CEEEECCCCCTTTCCHHHHHHHHHHHHHHTTCSSTTCSEEEEEEECSSCCTT-TTHHHH----TTCCCEEEEEECSSHHH
T ss_pred             eEEEeCCCccccccccchhhhHHHHHHHHHHhhccCCCEEEEeCCCccccch-hhhhhh----hhhCCEEEEEecCCHHH
Confidence            44444332111     11111  12233321  2579999999998754221 111111    112477888887732 2


Q ss_pred             -HHH---HHHHHHhhh--cCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCC
Q 011624          309 -QEA---AALVTTFNI--EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       309 -~~~---~~~~~~f~~--~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                       ..+   .+.++.+..  .+++.|+|+|+++...+...+..+.+.+|.|+  ++..+.
T Consensus       158 ~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~~~~~~~~~l~~~~g~~~--l~~Ip~  213 (289)
T 2afh_E          158 MYAANNISKGIVKYANSGSVRLGGLICNSRNTDREDELIIALANKLGTQM--IHFVPR  213 (289)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTTHHHHHHHHHHHHTSCE--EEEECC
T ss_pred             HHHHHHHHHHHHHHHhcCCCceEEEEEecCCchhHHHHHHHHHHHcCccc--cccCCC
Confidence             222   233333322  45578999999975444444456667789988  455443

>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=99.57  E-value=3e-14  Score=143.32  Aligned_cols=167  Identities=17%  Similarity=0.182  Sum_probs=101.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-----------HHHHHHh--------------hhh
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-----------IDQLVIL--------------GEQ  236 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-----------idql~~~--------------~~~  236 (481)
                      +.+||+++||||||||||+.|||.+|+++|+||++||+|++-+..           .+.....              ...
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNLA~aLA~~GkkVllID~Dpq~~s~~~l~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~~~  126 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNLSAAFSILGKRVLQIGCDPKHDSTFTLTGSLVPTVIDVLKDVDFHPEELRPEDFVFEGF  126 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEESSSCCTTHHHHTSCCCCHHHHHHHTTSCGGGCCHHHHCEECG
T ss_pred             CceEEEEECCCccCHHHHHHHHHHHHHHCCCeEEEEecCCCCcccccccCCCCCcchhhHhhhccccccccHhHheeecC
Confidence            568999999999999999999999999999999999999874321           1111100              001


Q ss_pred             cCCCeecCCCCC-----CHHHHHHHHHHHH----HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-
Q 011624          237 VGVPVYTAGTEV-----KPSQIAKQGLEEA----KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-  306 (481)
Q Consensus       237 ~gv~v~~~~~~~-----~~~~~l~~~l~~~----~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-  306 (481)
                      .|+.+...+...     .... ....+..+    ..+.||++++|+++..... .+.      ......+.+++|+.+. 
T Consensus       127 ~~i~~v~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~d~~D~v~iD~~~~~~~~-~~~------~al~aAd~viIvt~~e~  198 (314)
T 3fwy_A          127 NGVMCVEAGGPPAGTGCGGYV-VGQTVKLLKQHHLLDDTDVVIFDVLGDVVCG-GFA------APLQHADQAVVVTANDF  198 (314)
T ss_dssp             GGCEEEECCCCCTTCSCTTHH-HHHHHHHHHHTTTTSSCSEEEEEECCSSCCG-GGG------GGGGTCSEEEEEECSSH
T ss_pred             CCeEEEeCCCCcccchhhhcc-HHHHHHHHHhcchhhcCceEeeccCCcchhh-hhH------hHHhhCCeEEEEeCCcH
Confidence            133444333211     1111 11122221    2367999999999775321 110      0112247888888873 


Q ss_pred             ch-H---HHHHHHHHhhh--cCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCC
Q 011624          307 TG-Q---EAAALVTTFNI--EIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM  361 (481)
Q Consensus       307 ~~-~---~~~~~~~~f~~--~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v  361 (481)
                      .. +   .+...++.+..  +.++.|+|+|+.+..   ..+..+++.++.++  ++..+..
T Consensus       199 ~Al~~~~~l~~~i~~~~~~~~~~l~GiI~n~~~~~---~~v~~~a~~~~~~~--lg~IP~d  254 (314)
T 3fwy_A          199 DSIYAMNRIIAAVQAKSKNYKVRLAGCVANRSRAT---DEVDRFCKETNFRR--LAHMPDL  254 (314)
T ss_dssp             HHHHHHHHHHHHHHTTTTTCCCEEEEEEEESCSCC---HHHHHHHHHHTCCE--EEEECCC
T ss_pred             HHHHHHHHHHHHHHHHhccCCCceEEEEEcCCCch---hHHHHHHHHhCCeE--EEEecCc
Confidence            22 2   23334444543  345789999987653   34566778889998  6665544

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=99.56  E-value=3.2e-14  Score=137.63  Aligned_cols=167  Identities=17%  Similarity=0.205  Sum_probs=101.8

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHH--------------H------H-h---hhhcC
Q 011624          184 TVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQL--------------V------I-L---GEQVG  238 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql--------------~------~-~---~~~~g  238 (481)
                      ++|++ +++||+||||++.+||.+|+++|++|++||+|++.+.....+              .      . .   ....+
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~~~~~lg~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~   82 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATGLAQKGKKTVVIDFAIGLRNLDLIMGCERRVVYDFVNVIQGDATLNQALIKDKRTEN   82 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCSSCCHHHHTTCGGGCCSCHHHHHTTSSCHHHHCEECSSSTT
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCcEEEEECCCCCCChhHHhCCCCcccCCHHHHhcCCCChHHheeccCCCCC
Confidence            46666 577999999999999999999999999999999644321111              0      0 0   01124


Q ss_pred             CCeecCCCC----CCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-HHHH
Q 011624          239 VPVYTAGTE----VKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-QEAA  312 (481)
Q Consensus       239 v~v~~~~~~----~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~~~~  312 (481)
                      +.+++.+..    ....+.+.+.++.++...||+||||||+....  .....    ..  ..+.+++|+.+.. . ..+.
T Consensus        83 l~~lp~~~~~~~~~~~~~~~~~~l~~l~~~~yD~viiD~p~~~~~--~~~~~----l~--~ad~vi~v~~~~~~s~~~~~  154 (260)
T 3q9l_A           83 LYILPASQTRDKDALTREGVAKVLDDLKAMDFEFIVCDSPAGIET--GALMA----LY--FADEAIITTNPEVSSVRDSD  154 (260)
T ss_dssp             EEEECCCSCCCTTSSCHHHHHHHHHHHHHTTCSEEEEECCSSSSH--HHHHH----HH--TCSEEEEEECSSHHHHHHHH
T ss_pred             EEEecCCCccchhhCCHHHHHHHHHHHhccCCCEEEEcCCCCCCH--HHHHH----HH--hCCEEEEEecCChhHHHHHH
Confidence            445543321    11234566777777522899999999987642  11111    11  2478889988732 2 2333


Q ss_pred             HHHHHhhh---------cCCeeEEEEcCCCCCCc--hh--HHHHHHHHhCCCeEEeecCCC
Q 011624          313 ALVTTFNI---------EIGITGAILTKLDGDSR--GG--AALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       313 ~~~~~f~~---------~~~i~GvIlnKvD~~~~--~g--~~~~~~~~~glPV~~ig~g~~  360 (481)
                      ..+..+..         .....|+|+|+++....  ..  .+..+.+.+|.|+  ++..+.
T Consensus       155 ~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~Ip~  213 (260)
T 3q9l_A          155 RILGILASKSRRAENGEEPIKEHLLLTRYNPGRVSRGDMLSMEDVLEILRIKL--VGVIPE  213 (260)
T ss_dssp             HHHHHHTTSSHHHHTTCSCCEEEEEEEEECHHHHHTTSSCCHHHHHHHHCSEE--EEEEEC
T ss_pred             HHHHHHHHhccccccccCCcceEEEEecCCccccccccccCHHHHHHHhCCce--EEecCC
Confidence            33333321         11467999999985432  11  1256677789988  555543

>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=99.56  E-value=1.3e-14  Score=139.12  Aligned_cols=155  Identities=14%  Similarity=0.100  Sum_probs=92.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHH--------------------HHHhh-----------
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQ--------------------LVILG-----------  234 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidq--------------------l~~~~-----------  234 (481)
                      |+++|+||+||||++.+||.+|+++|+||++||+|++ +.....                    +....           
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~~VlliD~D~~-~~l~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAVDGDPD-SCLGQTLGLSIEEAYAITPLIEMKDEIREKTGDGGLLILNPK   81 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCSCEEEEEECTT-SCHHHHTTCCHHHHHTSCCGGGCHHHHHHHHCSSSCCCSSCC
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCC-cChHHHhCCCcccccccccchhHHHHHHhhccCCcccccCCc
Confidence            4459999999999999999999999999999999996 332111                    10000           


Q ss_pred             ----------hhcCCCe-ecCCC------CC-CHH-HHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccC
Q 011624          235 ----------EQVGVPV-YTAGT------EV-KPS-QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN  295 (481)
Q Consensus       235 ----------~~~gv~v-~~~~~------~~-~~~-~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~  295 (481)
                                ...++.+ +..+.      .. .+. ..+++.++.+...+||+|||||||......  ...+      ..
T Consensus        82 l~~i~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~yD~viiD~pp~~~~~~--~~~l------~~  153 (254)
T 3kjh_A           82 VDGDLDKYGRYIDDKIFLIRMGEIKKGGSQCYCRENSFLGSVVSALFLDKKEAVVMDMGAGIEHLT--RGTA------KA  153 (254)
T ss_dssp             CTTSGGGSSEESSSSEEEEECCCCCCCCSSCCHHHHHHHHHHHHHHHHTCCSEEEEEECTTCTTCC--HHHH------TT
T ss_pred             hhccHHhcccccCCeEEEEEecccccCCCCCCcchHHHHHHHHHHhccCCCCEEEEeCCCcccHHH--HHHH------HH
Confidence                      0011222 22111      11 122 457788888723799999999998765321  1111      12


Q ss_pred             CceEEEEEeCc-chHHHHHHHHHhhhc--CCeeEEEEcCCCCCCchhHHHHHHHHhC-CCe
Q 011624          296 PTEVLLVVDAM-TGQEAAALVTTFNIE--IGITGAILTKLDGDSRGGAALSVKEVSG-KPI  352 (481)
Q Consensus       296 p~~vvLVvda~-~~~~~~~~~~~f~~~--~~i~GvIlnKvD~~~~~g~~~~~~~~~g-lPV  352 (481)
                      .+.+++|+.+. .....+..+..+...  ....++|+||++...   ....+.+.++ .++
T Consensus       154 aD~viiv~~~~~~s~~~~~~~~~~~~~~~~~~~~~v~N~~~~~~---~~~~~~~~~~~~~~  211 (254)
T 3kjh_A          154 VDMMIAVIEPNLNSIKTGLNIEKLAGDLGIKKVRYVINKVRNIK---EEKLIKKHLPEDKI  211 (254)
T ss_dssp             CSEEEEEECSSHHHHHHHHHHHHHHHHHTCSCEEEEEEEECCHH---HHHHHHHHSCGGGE
T ss_pred             CCEEEEecCCCHHHHHHHHHHHHHHHHcCCccEEEEEeCCCChh---HHHHHHHHhcCCcc
Confidence            37888888873 222333333223222  345789999998432   2344555665 555

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=99.53  E-value=1.6e-13  Score=129.70  Aligned_cols=143  Identities=20%  Similarity=0.249  Sum_probs=89.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      |.+.+++||+||||++.+||.+|+++| +|++||+|++.... ..+.. . ....++++.       +    .++.+. .
T Consensus         3 I~v~s~KGGvGKTT~a~~LA~~la~~g-~VlliD~D~q~~~~-~~~~~-~-~l~~~vi~~-------~----~l~~l~-~   66 (209)
T 3cwq_A            3 ITVASFKGGVGKTTTAVHLSAYLALQG-ETLLIDGDPNRSAT-GWGKR-G-SLPFKVVDE-------R----QAAKYA-P   66 (209)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHTTS-CEEEEEECTTCHHH-HHHHH-S-CCSSEEEEG-------G----GHHHHG-G
T ss_pred             EEEEcCCCCCcHHHHHHHHHHHHHhcC-CEEEEECCCCCCHH-HHhcC-C-CCCcceeCH-------H----HHHHhh-h
Confidence            444568899999999999999999999 99999999997443 22211 1 111112211       1    345553 7


Q ss_pred             CCcEEEEcCCCC-ccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhh--cCCeeEEEEcCCCCCC-c-
Q 011624          265 NVDVVIVDTAGR-LQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNI--EIGITGAILTKLDGDS-R-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~-~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~--~~~i~GvIlnKvD~~~-~-  337 (481)
                      .||+|||||||. ....  ...    +..  ..+.+++|+.+...  ..+...++.+..  ..+ .++|+|+++... . 
T Consensus        67 ~yD~viiD~p~~~~~~~--~~~----~l~--~aD~viiv~~~~~~~~~~~~~~~~~l~~~~~~~-~~vv~N~~~~~~~~~  137 (209)
T 3cwq_A           67 KYQNIVIDTQARPEDED--LEA----LAD--GCDLLVIPSTPDALALDALMLTIETLQKLGNNR-FRILLTIIPPYPSKD  137 (209)
T ss_dssp             GCSEEEEEEECCCSSSH--HHH----HHH--TSSEEEEEECSSHHHHHHHHHHHHHHHHTCSSS-EEEEECSBCCTTSCH
T ss_pred             cCCEEEEeCCCCcCcHH--HHH----HHH--HCCEEEEEecCCchhHHHHHHHHHHHHhccCCC-EEEEEEecCCccchH
Confidence            899999999987 4321  111    111  23778888877432  233333333332  344 689999999765 3 


Q ss_pred             hhHHHHHHHHhCCCe
Q 011624          338 GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ~g~~~~~~~~~glPV  352 (481)
                      ...+...++.+|.|+
T Consensus       138 ~~~~~~~l~~~g~~v  152 (209)
T 3cwq_A          138 GDEARQLLTTAGLPL  152 (209)
T ss_dssp             HHHHHHHHHHTTCCB
T ss_pred             HHHHHHHHHHcCCch
Confidence            344555566678887

>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=99.52  E-value=4.9e-13  Score=126.59  Aligned_cols=171  Identities=15%  Similarity=0.130  Sum_probs=97.9

Q ss_pred             EEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch---------hHHHHHHHhhhhc------CCCeecCCCC-
Q 011624          185 VILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP---------AAIDQLVILGEQV------GVPVYTAGTE-  247 (481)
Q Consensus       185 VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp---------~aidql~~~~~~~------gv~v~~~~~~-  247 (481)
                      +|++ ++++|+||||++.+||.+|+++|+||+++|......         ...+.+..+....      ....+..... 
T Consensus         3 ~I~v~s~kgGvGKTt~a~nLa~~la~~G~rVll~dp~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (224)
T 1byi_A            3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKPVASGSEKTPEGLRNSDALALQRNSSLQLDYATVNPYTFAEPTSP   82 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECSEEESCBCCTTSCBCHHHHHHHHTCSSCCCHHHHCSEEESSCSCH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcceecCCccCCCCcChHHHHHHHHHhCCCCChhhcccEEeCCCCCH
Confidence            4555 567999999999999999999999999986321111         1111121111100      0001110100 


Q ss_pred             ---------CCHHHHHHHHHHHHHcCCCcEEEEcCCCCcccc---HHHHHHHHhhhhccCCceEEEEEeCcc-h-HHHHH
Q 011624          248 ---------VKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQID---KAMMDELKDVKRVLNPTEVLLVVDAMT-G-QEAAA  313 (481)
Q Consensus       248 ---------~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d---~~~~~el~~i~~~~~p~~vvLVvda~~-~-~~~~~  313 (481)
                               ....+.+.+.++.+. ++||+|||||||.....   ......+.....    .++++|+.+.. + .++..
T Consensus        83 ~~~~~~~~~~~~~~~l~~~l~~l~-~~yD~viID~p~~l~~p~~~~~~~~~l~~~~~----~~vi~v~~~~~~~~~~~~~  157 (224)
T 1byi_A           83 HIISAQEGRPIESLVMSAGLRALE-QQADWVLVEGAGGWFTPLSDTFTFADWVTQEQ----LPVILVVGVKLGCINHAML  157 (224)
T ss_dssp             HHHHHHHTCCCCHHHHHHHHHHHH-TTCSEEEEECSSSTTCEEETTEEHHHHHHHHT----CCEEEEEECSTTHHHHHHH
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHH-HhCCEEEEEcCCccccCCCcchhHHHHHHHhC----CCEEEEecCCCCcHHHHHH
Confidence                     012344566777764 68999999999876421   112222222222    46888888732 2 33333


Q ss_pred             HHHHh-hhcCCeeEEEEcCCCCCCc--hhHHHHHHHHhCCCeEEeecCCCCC
Q 011624          314 LVTTF-NIEIGITGAILTKLDGDSR--GGAALSVKEVSGKPIKLVGRGERME  362 (481)
Q Consensus       314 ~~~~f-~~~~~i~GvIlnKvD~~~~--~g~~~~~~~~~glPV~~ig~g~~v~  362 (481)
                      .++.+ +.++++.|+|+|+++....  ......+.+.++.|+  ++..+...
T Consensus       158 ~i~~l~~~~~~i~gvvlN~~~~~~~~~~~~~~~l~~~~~~~v--l~~Ip~~~  207 (224)
T 1byi_A          158 TAQVIQHAGLTLAGWVANDVTPPGKRHAEYMTTLTRMIPAPL--LGEIPWLA  207 (224)
T ss_dssp             HHHHHHHTTCCEEEEEEECCSSCCTTHHHHHHHHHHHSSSCE--EEEECCCT
T ss_pred             HHHHHHHCCCcEEEEEEeCCCCchhhHHHHHHHHHHHcCCCE--EEECCCCc
Confidence            33333 4467889999999986532  233345556689998  56555544

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=99.51  E-value=5e-14  Score=137.03  Aligned_cols=162  Identities=26%  Similarity=0.337  Sum_probs=94.6

Q ss_pred             CCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHH---------hhh---------hcCCCee
Q 011624          182 RPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVI---------LGE---------QVGVPVY  242 (481)
Q Consensus       182 ~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~---------~~~---------~~gv~v~  242 (481)
                      ++++|+++ ++||+||||++.+||.+|+++|++|++||+|++.+.. ..+..         +..         ..++.++
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~g~~VlliD~D~~~~~~-~~l~~~~~~~l~~~l~~~~~~~~i~~~~~l~vl   83 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLARLGKRVLLVDLDPQGNAT-SGLGVRAERGVYHLLQGEPLEGLVHPVDGFHLL   83 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHHHTTCCEEEEECCTTCHHH-HHTTCCCSCCHHHHHTTCCGGGTCEEETTEEEE
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHHHCCCCEEEEECCCCcCHH-HHhCCCCCCCHHHHHcCCCHHHHccccCCEEEE
Confidence            34567665 7899999999999999999999999999999985322 11100         000         1234455


Q ss_pred             cCCCCCCHH--HHHH--HHHHHHHc-CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-H---HHH
Q 011624          243 TAGTEVKPS--QIAK--QGLEEAKK-KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-Q---EAA  312 (481)
Q Consensus       243 ~~~~~~~~~--~~l~--~~l~~~~~-~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-~---~~~  312 (481)
                      +.+......  +...  ..+..+.. .+||+|||||||....  .....+    .  ..+.+++|+.+.. . .   ...
T Consensus        84 p~~~~~~~~~~~l~~~~~~l~~~l~~~~yD~iiiD~pp~~~~--~~~~~l----~--~aD~viiv~~~~~~s~~~~~~~~  155 (257)
T 1wcv_1           84 PATPDLVGATVELAGAPTALREALRDEGYDLVLLDAPPSLSP--LTLNAL----A--AAEGVVVPVQAEYYALEGVAGLL  155 (257)
T ss_dssp             CCCTTHHHHHHHHTTCTTHHHHHCCCTTCSEEEEECCSSCCH--HHHHHH----H--HCSEEEEEEESSTHHHHHHHHHH
T ss_pred             eCChhHHHHHHHHhhHHHHHHHHhcccCCCEEEEeCCCCCCH--HHHHHH----H--HCCeEEEEecCchHHHHHHHHHH
Confidence            443221111  0000  12222211 5799999999998642  111111    1  1378899988743 2 1   222


Q ss_pred             HHHHH----hhhcCCeeEEEEcCCCCCCch-hHH-HHHHHHhCCCe
Q 011624          313 ALVTT----FNIEIGITGAILTKLDGDSRG-GAA-LSVKEVSGKPI  352 (481)
Q Consensus       313 ~~~~~----f~~~~~i~GvIlnKvD~~~~~-g~~-~~~~~~~glPV  352 (481)
                      +.++.    ++..+++.|+|+|+++..... ... ..+.+.+|.|+
T Consensus       156 ~~l~~~~~~~~~~~~~~gvv~N~~~~~~~~~~~~~~~l~~~~~~~~  201 (257)
T 1wcv_1          156 ATLEEVRAGLNPRLRLLGILVTMYDGRTLLAQQVEAQLRAHFGEKV  201 (257)
T ss_dssp             HHHHHHHHHTCTTCEEEEEEEESBCTTCSHHHHHHHHHHHHHGGGB
T ss_pred             HHHHHHHHHhCCCceEEEEEEEeECCCcHHHHHHHHHHHHHccccc
Confidence            33332    234566789999999875432 233 34455567776

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=99.50  E-value=2.5e-13  Score=134.38  Aligned_cols=167  Identities=11%  Similarity=0.051  Sum_probs=96.8

Q ss_pred             CEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhh---h------hcCC-CeecCCC--CCC
Q 011624          183 PTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILG---E------QVGV-PVYTAGT--EVK  249 (481)
Q Consensus       183 ~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~---~------~~gv-~v~~~~~--~~~  249 (481)
                      +++|+++ ++||+||||++.+||.+|+++|++|++||+|+..+.....+....   +      ..++ ++++...  ...
T Consensus         4 ~kvI~v~s~KGGvGKTT~a~nLA~~La~~G~~VlliD~D~~q~~l~~~l~~~~~~~~~~~~~~~~~l~~vl~~~~~~~~~   83 (286)
T 2xj4_A            4 TRVIVVGNEKGGAGKSTIAVHLVTALLYGGAKVAVIDLDLRQRTSARFFENRRAWLDNKKIELPEPLALNLSDNDVALAE   83 (286)
T ss_dssp             CEEEEECCSSSCTTHHHHHHHHHHHHHHTTCCEEEEECCTTTCHHHHHHHHHHHHHHHHTCCCCCCEEECSSSCHHHHTT
T ss_pred             CeEEEEEcCCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCCCCHHHHhCCChhHhHhccccCCCchheEeeCCCCCCcC
Confidence            4566664 789999999999999999999999999999994444333221111   0      1122 3332210  000


Q ss_pred             -----HHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch-H-------HH-----
Q 011624          250 -----PSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG-Q-------EA-----  311 (481)
Q Consensus       250 -----~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~-~-------~~-----  311 (481)
                           ..+.+.+.++.++ .+||+|||||||....  ....    +..  ..+.+++|+.+... .       +.     
T Consensus        84 ~~~~~~~~~l~~~l~~l~-~~yD~viiD~p~~~~~--~~~~----~l~--~aD~viiv~~~~~~~~~~~~~~~~~~~~~~  154 (286)
T 2xj4_A           84 RPEEEQVAGFEAAFARAM-AECDFILIDTPGGDSA--ITRM----AHG--RADLVVTPMNDSFVDFDMLGTVDPVTLELT  154 (286)
T ss_dssp             SCHHHHHHHHHHHHHHHH-HHCSEEEEECCSSCCH--HHHH----HHH--TCSEEEEEEESSHHHHTTTEEECTTTCCEE
T ss_pred             hhhhhhHHHHHHHHHHHH-hcCCEEEEcCCCCccH--HHHH----HHH--HCCEEEEEEcCCccHHHHHHHHHHHhhhcc
Confidence                 0124556677764 6899999999998632  1111    111  23788888876321 1       11     


Q ss_pred             --------H---HHHHHh--hhc-CCeeEEEEcCCCCCC--chhHHHHHHHH----hCCCeEEeecCCCC
Q 011624          312 --------A---ALVTTF--NIE-IGITGAILTKLDGDS--RGGAALSVKEV----SGKPIKLVGRGERM  361 (481)
Q Consensus       312 --------~---~~~~~f--~~~-~~i~GvIlnKvD~~~--~~g~~~~~~~~----~glPV~~ig~g~~v  361 (481)
                              +   +.++.+  +.. .. .++|+|+++...  ....+......    +|.+  +.+..+..
T Consensus       155 ~~~~~~~~l~~~~~~~~~~~~~~~~~-~~vV~N~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~~~Ip~~  221 (286)
T 2xj4_A          155 KPSLYSLTVWEGRKQRALSGQRQAMD-WVVLRNRLATTEARNRKRLEDRLNALAKRVGFR--IGPGLRDR  221 (286)
T ss_dssp             EECHHHHHHHHHHHHHHHHCSSCCCE-EEEEEECCTTCCGGGHHHHHHHHHHHHHHHCCE--EEECCCCC
T ss_pred             ccchhhhhhhcchhhhhhccCCcccc-EEEEEeeecCCCcchhHHHHHHHHHHHHHcCCc--cCCCCCch
Confidence                    2   222333  333 33 469999999765  33333333333    7763  36655443

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=99.49  E-value=4.7e-13  Score=136.54  Aligned_cols=41  Identities=37%  Similarity=0.535  Sum_probs=37.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .++|++++|+||+||||++++||.+|+++|+||++||+|+.
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D~~   65 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYLAEKGLKVVIVSTDPA   65 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHHHHSSCCEEEEECCTT
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEeCCCC
Confidence            45677788999999999999999999999999999999994

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=99.44  E-value=3.2e-12  Score=129.24  Aligned_cols=41  Identities=37%  Similarity=0.430  Sum_probs=38.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..++++++|+||+||||++++||.+|+++|+||++||+|+.
T Consensus        18 ~~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllvD~D~~   58 (329)
T 2woo_A           18 SLKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLISTDPA   58 (329)
T ss_dssp             TCCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEEECCTT
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEECCCC
Confidence            35678889999999999999999999999999999999987

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=99.43  E-value=6.7e-13  Score=135.92  Aligned_cols=42  Identities=38%  Similarity=0.479  Sum_probs=37.2

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh
Q 011624          184 TVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~  225 (481)
                      ++|++ +++|||||||++++||.+|+++|+||++||+|++.+.
T Consensus         2 kvIav~s~KGGvGKTT~a~nLA~~LA~~G~rVLlID~D~q~~~   44 (361)
T 3pg5_A            2 RTISFFNNKGGVGKTTLSTNVAHYFALQGKRVLYVDCDPQCNA   44 (361)
T ss_dssp             EEEEBCCSSCCHHHHHHHHHHHHHHHHTTCCEEEEECCTTCTT
T ss_pred             eEEEEEcCCCCCcHHHHHHHHHHHHHhCCCcEEEEEcCCCCCh
Confidence            35555 5889999999999999999999999999999998754

>3fgn_A Dethiobiotin synthetase; biotin biosynthesis, BIOD, ATP-BIND ligase, magnesium, nucleotide-binding; 1.85A {Mycobacterium tuberculosis} PDB: 3fmf_A* 3fmi_A* 3fpa_A*

Probab=99.42  E-value=2.5e-12  Score=125.28  Aligned_cols=167  Identities=17%  Similarity=0.223  Sum_probs=105.5

Q ss_pred             CEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch-------hHHHHHHHhhhhcCCCe----ecCCCCC--
Q 011624          183 PTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP-------AAIDQLVILGEQVGVPV----YTAGTEV--  248 (481)
Q Consensus       183 ~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp-------~aidql~~~~~~~gv~v----~~~~~~~--  248 (481)
                      .+.++++|. +|+||||+++.|+++|+++|++|.     +|||       +..|. ..+....|++.    +......  
T Consensus        26 m~~i~Itgt~t~vGKT~vt~gL~~~l~~~G~~V~-----~fKPv~~g~~~~~~D~-~~~~~~~g~~~~~~~~~~~~p~sP   99 (251)
T 3fgn_A           26 MTILVVTGTGTGVGKTVVCAALASAARQAGIDVA-----VCKPVQTGTARGDDDL-AEVGRLAGVTQLAGLARYPQPMAP   99 (251)
T ss_dssp             CEEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEE-----EEEEEECCGGGTCCHH-HHHHHHHCCCEEEEEEECSSSSCH
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEE-----EEeeeecCCCCCCHHH-HHHHHHcCCCCCCCCeeECCCCCh
Confidence            457777777 899999999999999999999999     4552       11222 23333344431    1111111  


Q ss_pred             -----------CHHHHHHHHHHHHHcCCCcEEEEcCCCCccc---cH-HHHHHHHhhhhccCCceEEEEEeCcch--HHH
Q 011624          249 -----------KPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI---DK-AMMDELKDVKRVLNPTEVLLVVDAMTG--QEA  311 (481)
Q Consensus       249 -----------~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~---d~-~~~~el~~i~~~~~p~~vvLVvda~~~--~~~  311 (481)
                                 ...+.+.+.++++ ..+||++|||++|.+..   +. .+..++++.+.    .+++||+++..+  ..+
T Consensus       100 ~~aa~~~~~~~~~~~~i~~~~~~l-~~~~D~vlIEGagGl~~pl~~~~~~~adla~~l~----~pVILV~~~~~g~i~~~  174 (251)
T 3fgn_A          100 AAAAEHAGMALPARDQIVRLIADL-DRPGRLTLVEGAGGLLVELAEPGVTLRDVAVDVA----AAALVVVTADLGTLNHT  174 (251)
T ss_dssp             HHHHHHTTCCCCCHHHHHHHHHTT-CCTTCEEEEECSSSTTCEEETTTEEHHHHHHHTT----CEEEEEECSSTTHHHHH
T ss_pred             HHHHHHcCCCCCCHHHHHHHHHHH-HhcCCEEEEECCCCCcCCcCcccchHHHHHHHcC----CCEEEEEcCCCccHHHH
Confidence                       1123345556655 37899999999987632   22 35566665555    899999999533  222


Q ss_pred             HHHHHHh-hhcCCeeEEEEcCCCCCC--chhHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          312 AALVTTF-NIEIGITGAILTKLDGDS--RGGAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       312 ~~~~~~f-~~~~~i~GvIlnKvD~~~--~~g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                      ...+..+ ..++++.|+|+||+.+..  ........++.. +||  +|..|+.++
T Consensus       175 ~lt~~~l~~~g~~i~GvIlN~v~~~~~~~~~~~~~~le~~-vpv--LG~iP~~~~  226 (251)
T 3fgn_A          175 KLTLEALAAQQVSCAGLVIGSWPDPPGLVAASNRSALARI-AMV--RAALPAGAA  226 (251)
T ss_dssp             HHHHHHHHHTTCCEEEEEEEEECSSCCHHHHHHHHHHHHH-SCE--EEEEETTGG
T ss_pred             HHHHHHHHhCCCCEEEEEEECCCCchhhhhhhHHHHHHHh-CCE--EEEeeCCCC
Confidence            2222222 457889999999996432  223344555556 999  888887754

>2jqe_A SRP54, signal recognition 54 kDa protein; AF54, structure, solution, signaling protein; NMR {Archaeoglobus fulgidus}

Probab=99.42  E-value=2.3e-14  Score=122.83  Aligned_cols=79  Identities=20%  Similarity=0.445  Sum_probs=67.1

Q ss_pred             HhhhcccccHHHHHHHHhhhhccCCccccccCCC-CCCC-ccccccchhhhcchhHHHHHHccChhhhccCCcccccccC
Q 011624          403 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIP-GMGK-ITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFK  480 (481)
Q Consensus       403 ~k~~~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p-~~~~-~~~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~  480 (481)
                      +++.+++|||+||++|++++.+||+++.+++|+| |++. ++......++..|+++++||+|||++|+.+|.||++||++
T Consensus         3 ~k~~~g~Ftl~Df~~Ql~qi~kMG~l~~i~~MiP~G~~~~~~~~~~~~~e~~lkr~~aII~SMT~~Er~~P~ii~~SR~~   82 (119)
T 2jqe_A            3 GTMEKGTFTLKDIYKQIEAMNKMGPVRKIFEMLPFGLGLKVDNDVMEMTQEKMKKFRVIMDSMTEEELLNPKIIDSSRIR   82 (119)
T ss_dssp             --CCCCSSCTHHHHHHHTTCCCCCCCSCSSCCCCSCCCSSCCCCSSCCCCCHHHHHHHHHHHSCHHHHHCGGGCCHHHHH
T ss_pred             hHHHcCCcCHHHHHHHHHHHHhcCCHHHHHHHCccchhhccchhhHhhhHHHHHHHHHHHHhCCHHHHhChhhcCHHHHH
Confidence            4677889999999999999999999999999999 9865 4322223346778999999999999999999999999987


Q ss_pred             C
Q 011624          481 R  481 (481)
Q Consensus       481 ~  481 (481)
                      |
T Consensus        83 R   83 (119)
T 2jqe_A           83 R   83 (119)
T ss_dssp             H
T ss_pred             H
Confidence            6

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=99.41  E-value=2.1e-12  Score=130.24  Aligned_cols=40  Identities=35%  Similarity=0.600  Sum_probs=37.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+|++++|+||+||||++++||.+++++|+||++||+|+.
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD~D~~   53 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARSGKKTLVISTDPA   53 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEECCSS
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEeCCCC
Confidence            4677888999999999999999999999999999999993

>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=99.40  E-value=3.4e-12  Score=129.40  Aligned_cols=42  Identities=38%  Similarity=0.438  Sum_probs=38.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+++++++|+||+||||++++||.+|+++|++|++||+|+..
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid~D~~~   56 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLSTDPAH   56 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEECCSSC
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEECCCCC
Confidence            457888899999999999999999999999999999999753

>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=99.39  E-value=2e-12  Score=132.02  Aligned_cols=145  Identities=18%  Similarity=0.216  Sum_probs=86.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH---H----HHHHhhhhcCCCeecCCCCCCH---H
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI---D----QLVILGEQVGVPVYTAGTEVKP---S  251 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai---d----ql~~~~~~~gv~v~~~~~~~~~---~  251 (481)
                      ++.+|+++|++|+||||++.+|+..+...|++|+++++|+..+...   .    .+..+....++.+.........   .
T Consensus        78 ~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~~Dp~~~~~~g~~l~d~~~~~~~~~~~~~~i~~~~~~~~~~~~~  157 (355)
T 3p32_A           78 NAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVDPSSTRTGGSILGDKTRMARLAVHPNAYIRPSPTSGTLGGVT  157 (355)
T ss_dssp             CSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEEC----------------CHHHHTCTTEEEECCC--CCHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEecCCCCCcccchhccchhhHHhhccCCCeeEEECCCCccccchh
Confidence            4678999999999999999999999999999999999998765411   1    1112222234444444332221   2


Q ss_pred             HHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcC
Q 011624          252 QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTK  331 (481)
Q Consensus       252 ~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnK  331 (481)
                      ...++.+..+...++|++||||||......    .+   .  -..+.+++|+|+..+........... .. ...+|+||
T Consensus       158 ~~t~d~i~~~~~~~~~~iiiDTpGi~~~~~----~~---~--~~aD~vl~V~d~~~~~~~~~l~~~~~-~~-p~ivVlNK  226 (355)
T 3p32_A          158 RATRETVVLLEAAGFDVILIETVGVGQSEV----AV---A--NMVDTFVLLTLARTGDQLQGIKKGVL-EL-ADIVVVNK  226 (355)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEECSCSSHHH----HH---H--TTCSEEEEEEESSTTCTTTTCCTTSG-GG-CSEEEEEC
T ss_pred             HHHHHHHHHHhhCCCCEEEEeCCCCCcHHH----HH---H--HhCCEEEEEECCCCCccHHHHHHhHh-hc-CCEEEEEC
Confidence            233455555555789999999999654211    11   1  23478899999865432211111111 11 35689999


Q ss_pred             CCCCCc
Q 011624          332 LDGDSR  337 (481)
Q Consensus       332 vD~~~~  337 (481)
                      +|....
T Consensus       227 ~Dl~~~  232 (355)
T 3p32_A          227 ADGEHH  232 (355)
T ss_dssp             CCGGGH
T ss_pred             CCCcCh
Confidence            997543

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=99.39  E-value=1.1e-12  Score=136.11  Aligned_cols=172  Identities=17%  Similarity=0.233  Sum_probs=86.7

Q ss_pred             CCCCEEEEEE-cCCCCCHHHHHHHHHHHHH------HcCCeEEEEeccCCchhH----------------HHHHHH----
Q 011624          180 KSRPTVILLA-GLQGVGKTTVSAKLANYLK------KQGKSCMLVAGDVYRPAA----------------IDQLVI----  232 (481)
Q Consensus       180 ~~~~~VI~i~-G~~GvGKTTta~~LA~~L~------~~G~kVlLId~D~~rp~a----------------idql~~----  232 (481)
                      ..++++|+++ |+||+||||++++||.+|+      ++|++|++||+|++....                .+.+..    
T Consensus       108 ~~~~~vIav~s~KGGvGKTT~a~nLA~~LA~~g~~~~~g~rVlliD~D~~~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~  187 (403)
T 3ez9_A          108 HKSPYVIFVVNLKGGVSKTVSTVTLAHALRVHQDLLRHDLRILVIDLDPQASSTMFLDHTHSIGSILETAAQAMLNNLDA  187 (403)
T ss_dssp             SCSCEEEEECCC--------CHHHHHHHHHSCGGGGGGCCCEEEEEESSSSGGGSCC----------CCHHHHHHHTCCH
T ss_pred             CCCceEEEEEcCCCCchHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCCChhhhhCCCcccCcccccHHHHHHhcccc
Confidence            3456777775 8899999999999999999      689999999999875211                001100    


Q ss_pred             ---h------hhhcCCCeecCCCCCC-----HHH--------------HHHHHHHHHHcCCCcEEEEcCCCCccccHHHH
Q 011624          233 ---L------GEQVGVPVYTAGTEVK-----PSQ--------------IAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMM  284 (481)
Q Consensus       233 ---~------~~~~gv~v~~~~~~~~-----~~~--------------~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~  284 (481)
                         .      ....|+.+++.+....     ..+              ..+..++.+ .++||+|||||||....  ...
T Consensus       188 ~~~~~~~i~~~~~~~l~~lp~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l-~~~yD~VIID~pP~~~~--~~~  264 (403)
T 3ez9_A          188 ETLRKEVIRPTIVPGVDVIPASIDDGFVASQWRELVEEHLPGQNQYEILRRNIIDRV-ADDYDFIFIDTGPHLDP--FLL  264 (403)
T ss_dssp             HHHHHTTSEECSSTTEEEECCCTTHHHHHHTHHHHHHHHSTTSCTTSHHHHHTGGGS-GGGCSEEEEEECSSCSH--HHH
T ss_pred             cccHHHHHhhcccCCceEEecCcchhhHHHHHHHHHHHhccccchHHHHHHHHHHHH-hhcCCEEEEECCCCccH--HHH
Confidence               0      0113455555443210     001              112334444 36899999999998742  222


Q ss_pred             HHHHhhhhccCCceEEEEEeCcch------------HHHHHHHHHhhhcCCeeEE--EEcCCCCCCchhHH-HHHHHHhC
Q 011624          285 DELKDVKRVLNPTEVLLVVDAMTG------------QEAAALVTTFNIEIGITGA--ILTKLDGDSRGGAA-LSVKEVSG  349 (481)
Q Consensus       285 ~el~~i~~~~~p~~vvLVvda~~~------------~~~~~~~~~f~~~~~i~Gv--IlnKvD~~~~~g~~-~~~~~~~g  349 (481)
                      ..+   .   ..+.+++|+.+...            ....+.++.+....++.|+  ++|+.+........ ..+.+.+|
T Consensus       265 ~al---~---~aD~vliv~~p~~~~~~~~~~~l~~l~~~~~~l~~~~~~~~l~giv~vl~~~~~~~~~~~~~~~~~~~~g  338 (403)
T 3ez9_A          265 NGL---A---ASDLLLTPTPPAQVDFHSTLKYLTRLPEMLEQLEEEGVEPRLSASIGFMSKMTGKRDHETSHSLAREVYA  338 (403)
T ss_dssp             HHH---H---HCSEEEEEECSSHHHHHHHHHHHHTHHHHHHHHHHTTCCCCCCEEEEEECC---CHHHHHHHHHHHHHHT
T ss_pred             HHH---H---HCCEEEEEecCchhhHHHHHHHHHHHHHHHHHHHhcCCCCceeEEEEEEeccCCchhHHHHHHHHHHHhh
Confidence            222   1   13778888876321            1122233444445666665  57888743323333 44556789


Q ss_pred             CCeEEe-ecCCCCC
Q 011624          350 KPIKLV-GRGERME  362 (481)
Q Consensus       350 lPV~~i-g~g~~v~  362 (481)
                      .++  + +..|...
T Consensus       339 ~~v--l~~~IP~~~  350 (403)
T 3ez9_A          339 SNI--LDSSLPRLD  350 (403)
T ss_dssp             TSE--ECCC-----
T ss_pred             Hhh--hceeCCchH
Confidence            888  4 4444433

>3of5_A Dethiobiotin synthetase; structural genomics, center for structural genomics of infec diseases, csgid, ligase; 1.52A {Francisella tularensis subsp}

Probab=99.38  E-value=3e-12  Score=122.98  Aligned_cols=161  Identities=20%  Similarity=0.281  Sum_probs=101.2

Q ss_pred             EEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch---h--H-------HHHHHHhhhhcCCCe-------ec
Q 011624          184 TVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP---A--A-------IDQLVILGEQVGVPV-------YT  243 (481)
Q Consensus       184 ~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp---~--a-------idql~~~~~~~gv~v-------~~  243 (481)
                      +.++++|. +|+||||++++|+.+|+++|++|.+     |||   +  .       .|.+ .  ...+++.       +.
T Consensus         5 k~i~Itgt~t~vGKT~vt~~L~~~l~~~G~~V~~-----~KPv~~g~~~~~~~~~~~D~~-~--~~~~~~~~~~~~~~~~   76 (228)
T 3of5_A            5 KKFFIIGTDTEVGKTYISTKLIEVCEHQNIKSLC-----LKPVASGQSQFSELCEDVESI-L--NAYKHKFTAAEINLIS   76 (228)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEE-----ECSEEESBCSSSSSBHHHHHH-H--HHTTTSSCHHHHCSEE
T ss_pred             cEEEEEeCCCCCCHHHHHHHHHHHHHHCCCeeEE-----ecceeecCccCCCCCChHHHH-H--HhcCCCCChhhEEEEE
Confidence            56777777 9999999999999999999999995     442   1  1       1222 1  2223220       11


Q ss_pred             CCCCCC------------HHHHHHHHHHH-HHcCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcc
Q 011624          244 AGTEVK------------PSQIAKQGLEE-AKKKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMT  307 (481)
Q Consensus       244 ~~~~~~------------~~~~l~~~l~~-~~~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~  307 (481)
                      ......            ..+.+.+.+.+ + ..+||++|||++|.+..   +.....++++...    .++++|+++..
T Consensus        77 ~~~p~sp~~aa~~~~~~i~~~~i~~~~~~~l-~~~~D~vlIEgaggl~~p~~~~~~~adla~~l~----~pviLV~~~~~  151 (228)
T 3of5_A           77 FNQAVAPHIIAAKTKVDISIENLKQFIEDKY-NQDLDILFIEGAGGLLTPYSDHTTQLDLIKALQ----IPVLLVSAIKV  151 (228)
T ss_dssp             ESSSSCHHHHHHHTTCCCCHHHHHHHHHGGG-GSSCSEEEEEEEEETTCBSSSSCBHHHHHHHHT----CCEEEEEECST
T ss_pred             ECCCCCHHHHHHHcCCCCCHHHHHHHHHHHH-HccCCEEEEECCCccccccccchhHHHHHHHcC----CCEEEEEcCCc
Confidence            111111            12334455555 4 37899999999976532   2234556555555    78999999854


Q ss_pred             h--HHHHHHHHHh-hhcCCeeEEEEcCCCCC-CchhHH-HHHHHHhCCCeEEeecCC
Q 011624          308 G--QEAAALVTTF-NIEIGITGAILTKLDGD-SRGGAA-LSVKEVSGKPIKLVGRGE  359 (481)
Q Consensus       308 ~--~~~~~~~~~f-~~~~~i~GvIlnKvD~~-~~~g~~-~~~~~~~glPV~~ig~g~  359 (481)
                      +  ..+...++.+ ..++++.|+|+|+++.. .+.... ..+.+.+|+|+  +|..|
T Consensus       152 ~~i~~~~~~~~~l~~~~~~i~GvIlN~~~~~~~~~~~~~~~l~~~~g~pv--LG~iP  206 (228)
T 3of5_A          152 GCINHTLLTINELNRHNIKLAGWIANCNDSNIKYIDEQINTIEELSGYKC--SAKIS  206 (228)
T ss_dssp             THHHHHHHHHHHHHHTTCCEEEEEEEECCTTCSCHHHHHHHHHHHHSCCC--SEEEE
T ss_pred             chHHHHHHHHHHHHhCCCcEEEEEEECcCCcchhhHHHHHHHHHhhCCCE--EEECC
Confidence            3  2222222222 45678999999999875 444444 45556789999  88777

>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=99.37  E-value=2.4e-12  Score=131.57  Aligned_cols=40  Identities=33%  Similarity=0.441  Sum_probs=37.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH--HcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLK--KQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~--~~G~kVlLId~D~~  222 (481)
                      ..|++++|+||+||||++++||.+|+  ++|+||++||+|+.
T Consensus        18 ~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLLvD~D~~   59 (354)
T 2woj_A           18 HKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPA   59 (354)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCSS
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCCC
Confidence            46777889999999999999999999  89999999999984

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=99.37  E-value=2.6e-12  Score=132.93  Aligned_cols=164  Identities=20%  Similarity=0.238  Sum_probs=94.7

Q ss_pred             CCCCEEEEEE-cCCCCCHHHHHHHHHHHHH------HcCCeEEEEeccCCchhH----------------HHHHHH----
Q 011624          180 KSRPTVILLA-GLQGVGKTTVSAKLANYLK------KQGKSCMLVAGDVYRPAA----------------IDQLVI----  232 (481)
Q Consensus       180 ~~~~~VI~i~-G~~GvGKTTta~~LA~~L~------~~G~kVlLId~D~~rp~a----------------idql~~----  232 (481)
                      ..++++|+++ |+||+||||++++||.+|+      ++|++|++||+|++....                .+.+..    
T Consensus       105 ~~~~~vIav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D~q~~l~~~l~~~~~~~~~~~~~~~~l~~~~~~  184 (398)
T 3ez2_A          105 YSEAYVIFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQSSATMFLSHKHSIGIVNATSAQAMLQNVSR  184 (398)
T ss_dssp             CCSCEEEEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEECTTCHHHHHHSCHHHHSSCCSCHHHHHHHCCCH
T ss_pred             CCCCeEEEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCCCChhHHhCCccccccccccHHHHHHhhccc
Confidence            3456777775 8899999999999999999      479999999999975211                000100    


Q ss_pred             ---h------hhhcCCCeecCCCCCC-----HH--------------HHHHHHHHHHHcCCCcEEEEcCCCCccccHHHH
Q 011624          233 ---L------GEQVGVPVYTAGTEVK-----PS--------------QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMM  284 (481)
Q Consensus       233 ---~------~~~~gv~v~~~~~~~~-----~~--------------~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~  284 (481)
                         .      ....|+.+++.+....     ..              ..+++.++.++ ++||+|||||||....  ...
T Consensus       185 ~~~~~~~i~~~~~~~l~vlp~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~l~-~~yD~ViiD~pp~~~~--~~~  261 (398)
T 3ez2_A          185 EELLEEFIVPSVVPGVDVMPASIDDAFIASDWRELCNEHLPGQNIHAVLKENVIDKLK-SDYDFILVDSGPHLDA--FLK  261 (398)
T ss_dssp             HHHHHHTCEECSSTTEEEECCCTTHHHHHHTHHHHHHHHSTTSCTTSHHHHHTHHHHT-TTCSEEEEEECSCCSH--HHH
T ss_pred             cccHHHHhhcccCCCceEecCCchhhhHHHHHHHHHHhhccccChHHHHHHHHHHHhh-ccCCEEEEeCCCCccH--HHH
Confidence               0      0113455555443210     00              12245566664 7899999999998742  122


Q ss_pred             HHHHhhhhccCCceEEEEEeCcch-----H-------HHHHHHHHhhhcCCeeEEE--EcCCCCCCch-hHHHHHHHHhC
Q 011624          285 DELKDVKRVLNPTEVLLVVDAMTG-----Q-------EAAALVTTFNIEIGITGAI--LTKLDGDSRG-GAALSVKEVSG  349 (481)
Q Consensus       285 ~el~~i~~~~~p~~vvLVvda~~~-----~-------~~~~~~~~f~~~~~i~GvI--lnKvD~~~~~-g~~~~~~~~~g  349 (481)
                      ..+.      ..+.+++|+.+...     .       ...+.++.+.....+.|+|  +|+.+..... .....+.+.+|
T Consensus       262 ~~l~------~aD~vliv~~p~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~giv~~~~~~~~~~~~~~~~~~l~~~~g  335 (398)
T 3ez2_A          262 NALA------SANILFTPLPPATVDFHSSLKYVARLPELVKLISDEGCECQLATNIGFMSKLSNKADHKYCHSLAKEVFG  335 (398)
T ss_dssp             HHHH------HCSEEEEEECCSHHHHHHHHHHHHHHHHHHHHHHHTSCCCCCCCEEEEEEEECSCHHHHHHHHHHHHHHG
T ss_pred             HHHH------HCCEEEEEecCchhhHHHHHHHHHHHHHHHHHHHHcCCCCceeEEEEEEecCCCchhHHHHHHHHHHHhc
Confidence            2221      13778888876321     1       1222234444456666664  4454433222 23345566778


Q ss_pred             CCe
Q 011624          350 KPI  352 (481)
Q Consensus       350 lPV  352 (481)
                      .++
T Consensus       336 ~~v  338 (398)
T 3ez2_A          336 GDM  338 (398)
T ss_dssp             GGB
T ss_pred             ccc
Confidence            776

>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=99.36  E-value=4.4e-12  Score=130.32  Aligned_cols=145  Identities=19%  Similarity=0.195  Sum_probs=84.9

Q ss_pred             cCCCCEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc-----------hhHHHHHHH-----------hh-
Q 011624          179 AKSRPTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR-----------PAAIDQLVI-----------LG-  234 (481)
Q Consensus       179 ~~~~~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r-----------p~aidql~~-----------~~-  234 (481)
                      ...++++|+++ |+||+||||++++||.+|+++|++|++||+|.+.           .+..+.+..           .. 
T Consensus       139 ~~~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD~D~~~~l~~~lg~~~~~~l~d~l~~~~~~~~~~~~~l~~  218 (373)
T 3fkq_A          139 ENDKSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLNIEQCGTTDVFFQAEGNATMSDVIYSLKSRKANLLLKLES  218 (373)
T ss_dssp             CTTSCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEECCTTCCHHHHCCCSCSCCHHHHHHHHHSCCSCHHHHHHH
T ss_pred             cCCCceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEECCCCCCHHHHcCCCCCCCHHHHHhhhhcccccccccHHH
Confidence            34567888876 6899999999999999999999999999999331           111111111           00 


Q ss_pred             ----hhcCCCeecCCCCCC-----HHHHHHHHHHHHH-cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEe
Q 011624          235 ----EQVGVPVYTAGTEVK-----PSQIAKQGLEEAK-KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVD  304 (481)
Q Consensus       235 ----~~~gv~v~~~~~~~~-----~~~~l~~~l~~~~-~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvd  304 (481)
                          ...|+.+++.+....     ..+.+...++.+. ...||+||||||+....  ....    +..  ..+.+++|+.
T Consensus       219 ~i~~~~~~l~~l~~~~~~~~~~~~~~~~~~~ll~~l~~~~~yD~VIID~p~~~~~--~~~~----~l~--~aD~vivv~~  290 (373)
T 3fkq_A          219 CIKQSQEGVSYFSSTKVALDILEISYADIDTLIGNIQGMDNYDEIIVDLPFSLEI--EKLK----LLS--KAWRIIVVND  290 (373)
T ss_dssp             TCEECTTSCEECCCCSSGGGGGGCCHHHHHHHHHHHHHTSCCSEEEEECCCCCCH--HHHH----HHT--TCSEEEEEEC
T ss_pred             HhhcCCCCEEEecCCCChHhHHhCCHHHHHHHHHHHHhcCCCCEEEEeCCCCCCH--HHHH----HHH--HCCEEEEEec
Confidence                023555555432111     1233445555543 26899999999976542  1111    122  2478888887


Q ss_pred             Ccc-h----HHHHHHHHHhhhcCCeeEEEEcCC
Q 011624          305 AMT-G----QEAAALVTTFNIEIGITGAILTKL  332 (481)
Q Consensus       305 a~~-~----~~~~~~~~~f~~~~~i~GvIlnKv  332 (481)
                      +.. +    .++.+.++.+....+ .++|.|+.
T Consensus       291 ~~~~s~~~l~~~~~~l~~l~~~~~-~~vv~N~~  322 (373)
T 3fkq_A          291 GSQLSNYKFMRAYESVVLLEQNDD-INIIRNMN  322 (373)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTSTT-CCCGGGEE
T ss_pred             CCchHHHHHHHHHHHHHHhcccCC-cEEEehhH
Confidence            732 2    344555555544322 34444443

>1hq1_A Signal recognition particle protein; protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.52A {Escherichia coli} SCOP: a.36.1.1 PDB: 3lqx_A* 2pxb_A 2pxd_A 2pxe_A 2pxf_A 2pxk_A 2pxl_A 2pxp_A 2pxq_A 2pxt_A 2pxu_A 2pxv_A

Probab=99.34  E-value=1.2e-13  Score=115.79  Aligned_cols=73  Identities=40%  Similarity=0.587  Sum_probs=42.9

Q ss_pred             cccHHHHHHHHhhhhccCCccccccCCCCCCCccc-cccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          409 NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP-AQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       409 ~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~-~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      +|||+||++|++++.+||+++.+++|+||++++.. .....++..|+++++||+|||++|+.+|.||++||++|
T Consensus         1 ~F~l~Df~~Ql~qi~kMG~l~~i~~miPG~~~~~~~~~~~~~~~~lkr~~aII~SMT~~Er~~P~ii~~SR~~R   74 (105)
T 1hq1_A            1 GFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNVKSQMDDKVLVRMEAIINSMTMKERAKPEIIKGSRKRR   74 (105)
T ss_dssp             CCCHHHHHHHHTC----------------------------CCSSHHHHHHHHHTSCHHHHHCGGGCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHCCCCCcccchhhhhhhHHHHHHHHHHHHcCCHHHhhChhhcCHHHHHH
Confidence            49999999999999999999999999999875432 21223467889999999999999999999999998876

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=99.29  E-value=2.1e-11  Score=132.56  Aligned_cols=45  Identities=36%  Similarity=0.530  Sum_probs=40.4

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      +.+++++++|+||+||||++++||.+++++|+||++||+|+ ++..
T Consensus         6 ~~~~i~~~sgkGGvGKTT~a~~lA~~lA~~G~rVLlvd~D~-~~~l   50 (589)
T 1ihu_A            6 NIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDP-ASNV   50 (589)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCT-TCCH
T ss_pred             CCCEEEEEeCCCcCHHHHHHHHHHHHHHHCCCcEEEEECCC-CcCH
Confidence            45678999999999999999999999999999999999998 4443

>1mfq_C SRP54, signal recognition particle 54KDA protein; RNA-protein complex, A-minor motif, 3-helix junction, signaling protein/RNA complex; HET: CCC; 3.10A {Homo sapiens} SCOP: a.36.1.1

Probab=99.29  E-value=2e-13  Score=118.14  Aligned_cols=75  Identities=23%  Similarity=0.464  Sum_probs=62.4

Q ss_pred             cccccHHHHHHHHhhhhccCCccccccCCCCCCC--ccccccchhhhcchhHHHHHHccChhhhcc---CCcc--ccccc
Q 011624          407 SANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK--ITPAQVREAEKSLKIMEAMIEAMTPGIFFF---SIII--IGLTF  479 (481)
Q Consensus       407 ~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~--~~~~~~~d~a~~f~~~~~li~sm~~e~~~~---~~l~--~~~~~  479 (481)
                      .++|||+||++|++++.+||+++++++|+||+++  +.......++..|+++++||+|||++|+.+   |.||  ++||+
T Consensus        12 ~g~Ftl~Df~~Ql~qi~KMG~l~~im~MiPGm~~~~~~~~~~~~~e~~lkr~eaII~SMT~~Er~n~~~P~ii~~~~SRk   91 (129)
T 1mfq_C           12 HGQFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQELDSTDGAKVFSKQPGRI   91 (129)
T ss_dssp             CSSCCHHHHHHHHHHTTSSHHHHHTTTTCSCC--------CCHHHHHHHHHHHHHHTTSCHHHHTCTTHHHHHHHCTHHH
T ss_pred             cCCcCHHHHHHHHHHHHHcCCHHHHHHHCCCCCccccchhhhhhhHHHHHHHHHHHHccCHHHHhcCCCcccccCChHHH
Confidence            5689999999999999999999999999999876  442222345678999999999999999999   9999  99998


Q ss_pred             CC
Q 011624          480 KR  481 (481)
Q Consensus       480 ~~  481 (481)
                      +|
T Consensus        92 ~R   93 (129)
T 1mfq_C           92 QR   93 (129)
T ss_dssp             HH
T ss_pred             HH
Confidence            76

>3qxc_A Dethiobiotin synthetase; DTBS, structural genomics, ATP BIND biology, protein structure initiative, midwest center for S genomics, MCSG; HET: ATP; 1.34A {Helicobacter pylori} PDB: 3mle_A* 3qxh_A* 3qxj_A* 3qxs_A* 3qxx_A* 3qy0_A* 2qmo_A

Probab=99.28  E-value=1.8e-11  Score=118.54  Aligned_cols=149  Identities=16%  Similarity=0.162  Sum_probs=91.8

Q ss_pred             CCEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEe-----ccCCchhHHHHHHHh----hhhc-CCCeec-----CC
Q 011624          182 RPTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVA-----GDVYRPAAIDQLVIL----GEQV-GVPVYT-----AG  245 (481)
Q Consensus       182 ~~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId-----~D~~rp~aidql~~~----~~~~-gv~v~~-----~~  245 (481)
                      ..+.++++|. +|+|||++++.|+.+|+++|++|...-     ++.......|.. .+    .... |++...     ..
T Consensus        20 m~k~i~ItgT~t~vGKT~vs~gL~~~L~~~G~~V~~fKPv~~g~~~~~~~~~D~~-~~~~~~~~~~~g~~~~~~~p~~~~   98 (242)
T 3qxc_A           20 QGHMLFISATNTNAGKTTCARLLAQYCNACGVKTILLKPIETGVNDAINHSSDAH-LFLQDNRLLDRSLTLKDISFYRYH   98 (242)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEECCEECSCCTTTCCCSHHH-HHHHHHHTTCTTCCHHHHCCEECS
T ss_pred             cCcEEEEEeCCCCCcHHHHHHHHHHHHHhCCCceEEEeeeecCCcccCCCCchHH-HHHHHHHHHhCCCChHHeeeEEEC
Confidence            3467777777 999999999999999999999999553     111000112221 12    2222 443211     11


Q ss_pred             CCC--------------CHHHHHHHHHHHHHcCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch
Q 011624          246 TEV--------------KPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG  308 (481)
Q Consensus       246 ~~~--------------~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~  308 (481)
                      ...              ...+.+.+.++++ ..+||+||||++|.+..   +..+..++++.+.    .+++||+++..+
T Consensus        99 ~p~sp~~aa~~~g~~~~i~~~~I~~~~~~l-~~~~D~vlIEGagGl~~pl~~~~~~adlA~~l~----~pVILV~~~~lg  173 (242)
T 3qxc_A           99 KVSAPLIAQQEEDPNAPIDTDNLTQRLHNF-TKTYDLVIVEGAGGLCVPITLEENMLDFALKLK----AKMLLISHDNLG  173 (242)
T ss_dssp             SSSCHHHHHHHHCTTCCCCHHHHHHHHHHG-GGTCSEEEEECCSCTTCBSSSSCBHHHHHHHHT----CEEEEEECCSTT
T ss_pred             CCCChHHHHHHcCCCCcCCHHHHHHHHHHH-HhcCCEEEEECCCCccccccccchHHHHHHHcC----CCEEEEEcCCCc
Confidence            011              1123455666665 37899999999987643   2335566665555    789999999544


Q ss_pred             --HHHHHHHHHh-hhcCCeeEEEEcCCCCCCc
Q 011624          309 --QEAAALVTTF-NIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       309 --~~~~~~~~~f-~~~~~i~GvIlnKvD~~~~  337 (481)
                        ..+...+..+ ...+. .|+|+|+++....
T Consensus       174 ~i~~~~lt~~~l~~~g~~-~GvIlN~v~~~~~  204 (242)
T 3qxc_A          174 LINDCLLNDFLLKSHQLD-YKIAINLKGNNTA  204 (242)
T ss_dssp             HHHHHHHHHHHHHTSSSC-EEEEECCCTTCCH
T ss_pred             HHHHHHHHHHHHHhCCCC-EEEEEeCCCCccc
Confidence              2222223333 45678 9999999987654

>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=99.27  E-value=4.9e-12  Score=122.45  Aligned_cols=148  Identities=18%  Similarity=0.198  Sum_probs=82.8

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-------------HHHHHHhhhhcCCC--eecC-
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-------------IDQLVILGEQVGVP--VYTA-  244 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-------------idql~~~~~~~gv~--v~~~-  244 (481)
                      .++.+++++|++||||||++.+||.+++ +|++|++||+|++....             .+...  ....+..  +++. 
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l~-~g~~v~vvd~D~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~   88 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLDTGVKELPYEPSIDVREFVTVEEIM--REGYGPNGAIVESY   88 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECCSSCSCCSSCCSEEGGGTCCHHHHH--TTTCCHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHH-CCCeEEEEeCCCCccccCCCCCCChhhcccHHHHh--hccCCCCCcEEecH
Confidence            4567888899999999999999999999 99999999999974321             11100  0000000  0000 


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccH--HHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHH----
Q 011624          245 GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDK--AMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALV----  315 (481)
Q Consensus       245 ~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~--~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~----  315 (481)
                      .........+.+.+..+. .+||++||||||......  .+...+....  .. +-+++|+|+...   .+.....    
T Consensus        89 ~~~~~~~~~l~~~l~~~~-~~~d~iiiDtpG~~~~~~~~~l~~~~~~~~--~~-~~iv~vvD~~~~~~~~~~~~~~~~~~  164 (262)
T 1yrb_A           89 DRLMEKFNEYLNKILRLE-KENDYVLIDTPGQMETFLFHEFGVRLMENL--PY-PLVVYISDPEILKKPNDYCFVRFFAL  164 (262)
T ss_dssp             HHHHTTHHHHHHHHHHHH-HHCSEEEEECCSSHHHHHHSHHHHHHHHTS--SS-CEEEEEECGGGCCSHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHh-hcCCEEEEeCCCccchhhhhhhHHHHHHHH--hh-ceEEeccchhhhcCHHHHHHHHHHHH
Confidence            000011233445555554 569999999999864210  0111121111  23 667888887432   2221111    


Q ss_pred             H-HhhhcCCeeEEEEcCCCCCC
Q 011624          316 T-TFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       316 ~-~f~~~~~i~GvIlnKvD~~~  336 (481)
                      . ......+ ..+|+||+|...
T Consensus       165 ~~~~~~~~p-~~iv~NK~D~~~  185 (262)
T 1yrb_A          165 LIDLRLGAT-TIPALNKVDLLS  185 (262)
T ss_dssp             HHHHHHTSC-EEEEECCGGGCC
T ss_pred             HHhcccCCC-eEEEEecccccc
Confidence            1 1122344 358999999654

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=99.25  E-value=2e-11  Score=124.41  Aligned_cols=41  Identities=32%  Similarity=0.422  Sum_probs=38.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH--HcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK--KQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~--~~G~kVlLId~D~~  222 (481)
                      ..++++++|+||+||||++++||.+++  ++|++|++||+|+.
T Consensus        17 ~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid~D~~   59 (348)
T 3io3_A           17 SLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLISTDPA   59 (348)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCSS
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCCC
Confidence            457999999999999999999999999  89999999999964

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.24  E-value=5e-11  Score=121.04  Aligned_cols=143  Identities=22%  Similarity=0.243  Sum_probs=79.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhh---------cCCCeecCCCC--C-
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ---------VGVPVYTAGTE--V-  248 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~---------~gv~v~~~~~~--~-  248 (481)
                      .++.+++++|++|+||||++.+|+..+...|.+|.+++.|++++.....  .++..         .+..+......  . 
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~~~d~~~~~~~~~--il~d~~~~~~~~~~~~~~i~~~~~~~~l~  131 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGS--ILGDKTRMNDLARAEAAFIRPVPSSGHLG  131 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC-----------------CTTTTCTTEEEEEECC-----
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeecCCcCCCCcc--eecccchHHhhccCCCceeecCccccccc
Confidence            3567899999999999999999999999999999999999987542111  11110         01111111100  0 


Q ss_pred             CHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEE
Q 011624          249 KPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAI  328 (481)
Q Consensus       249 ~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvI  328 (481)
                      .......+.+..+.+.+++++||||||......    .+   .  ...+.+++|+|+..+... ..++...... ...+|
T Consensus       132 g~~~~~~~~~~~~~~~~~~i~liDTpG~~~~~~----~~---~--~~aD~vl~Vvd~~~~~~~-~~l~~~~~~~-p~ivv  200 (341)
T 2p67_A          132 GASQRARELMLLCEAAGYDVVIVETVGVGQSET----EV---A--RMVDCFISLQIAGGGDDL-QGIKKGLMEV-ADLIV  200 (341)
T ss_dssp             CHHHHHHHHHHHHHHTTCSEEEEEEECCTTHHH----HH---H--TTCSEEEEEECC-------CCCCHHHHHH-CSEEE
T ss_pred             hhHHHHHHHHHHhhccCCCEEEEeCCCccchHH----HH---H--HhCCEEEEEEeCCccHHH-HHHHHhhhcc-cCEEE
Confidence            111112233333335789999999999764211    11   1  235888999998654321 1111000012 24589


Q ss_pred             EcCCCCCC
Q 011624          329 LTKLDGDS  336 (481)
Q Consensus       329 lnKvD~~~  336 (481)
                      +||+|...
T Consensus       201 ~NK~Dl~~  208 (341)
T 2p67_A          201 INKDDGDN  208 (341)
T ss_dssp             ECCCCTTC
T ss_pred             EECCCCCC
Confidence            99999754

>1qb2_A SRP54, human signal recognition particle 54 KD protein; alpha-helix, helix-turn-helix, signaling protein; 2.10A {Homo sapiens} SCOP: a.36.1.1 PDB: 1ry1_W* 2go5_W

Probab=99.20  E-value=5.6e-13  Score=112.55  Aligned_cols=73  Identities=23%  Similarity=0.469  Sum_probs=62.7

Q ss_pred             cccHHHHHHHHhhhhccCCccccccCCCCCCC-c-cccccchhhhcchhHHHHHHccChhhhcc---CCccc--ccccCC
Q 011624          409 NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK-I-TPAQVREAEKSLKIMEAMIEAMTPGIFFF---SIIII--GLTFKR  481 (481)
Q Consensus       409 ~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~-~-~~~~~~d~a~~f~~~~~li~sm~~e~~~~---~~l~~--~~~~~~  481 (481)
                      +|||+||++|++++.+||+++++++|+||+++ + .......++..|+++++||+|||++|+.+   |.||+  +||++|
T Consensus         1 ~Ftl~Df~~Ql~qi~kMG~l~~i~~MiPG~~~~~~~~~~~~~~~~~lkr~~aII~SMT~~Er~~~~~P~ii~~~~SR~~R   80 (109)
T 1qb2_A            1 QFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQELDSTDGAKVFSKQPGRIQR   80 (109)
T ss_dssp             CCCHHHHHHHHHHHHHTHHHHHHHHHSTTSCTTTTCTTCHHHHHHHHHHHHHHHTTSCHHHHHSTTTHHHHHHSTHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHCCCCcccccchhhhhhhHHHHHHHHHHHHcCCHHHHhcCCCccccccchHHHHH
Confidence            49999999999999999999999999999875 3 32222235678899999999999999999   99999  888876

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=99.19  E-value=1.5e-10  Score=118.96  Aligned_cols=39  Identities=26%  Similarity=0.397  Sum_probs=36.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++|++++|+||+||||++++||.+++++|++|++||+ +.
T Consensus         2 ~~i~~~~gkGG~GKTt~a~~la~~la~~g~~vllvd~-~~   40 (374)
T 3igf_A            2 ALILTFLGKSGVARTKIAIAAAKLLASQGKRVLLAGL-AE   40 (374)
T ss_dssp             CEEEEEECSBHHHHHHHHHHHHHHHHHTTCCEEEEEC-SC
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHHCCCCeEEEeC-CC
Confidence            4688899999999999999999999999999999999 64

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=99.07  E-value=2.5e-10  Score=123.99  Aligned_cols=42  Identities=36%  Similarity=0.438  Sum_probs=37.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +..+++++|++|+||||++++||..|+++|++|+++|+|++.
T Consensus       326 ~~~~~~~~~~~g~Gktt~a~~lA~~l~~~g~~vllvD~Dp~~  367 (589)
T 1ihu_A          326 EHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPAA  367 (589)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC-
T ss_pred             CCeEEEEecCCCCChhhHHHHHHHHHHHCCCcEEEEeCCCcc
Confidence            346777789999999999999999999999999999999863

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.94  E-value=5.2e-09  Score=106.56  Aligned_cols=143  Identities=17%  Similarity=0.219  Sum_probs=75.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH-------HHHHHhhhhcCCCeecCCC--CC--CH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI-------DQLVILGEQVGVPVYTAGT--EV--KP  250 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai-------dql~~~~~~~gv~v~~~~~--~~--~~  250 (481)
                      ...+++++|++|+||||+...|+..+...|.+|.++..|++.+...       ..+..++......+.+...  ..  ..
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~~~~~~~v~V~~~dp~~~~~~g~~l~d~~rm~~~~~~~~~~v~~~~~~~~lgg~t  152 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSVLAVDPSSCTSGGSLLGDKTRMTELSRDMNAYIRPSPTRGTLGGVT  152 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC----------------CCSTTCTTEEEECC---------C
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhhhcCCeEEEEeecCCCCCcCcchhchHHHHHHhcCCCCEEEEecCCccccccch
Confidence            3578999999999999999999999998899999999999875321       1111111111111111110  00  01


Q ss_pred             HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEc
Q 011624          251 SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILT  330 (481)
Q Consensus       251 ~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIln  330 (481)
                      .. ..+.+..+...++|++||||||....+.    .+   ..  ..+.+++|+|+..+.+......... .. ..-+|+|
T Consensus       153 r~-~~~~~~~~~~~~~~~iliDT~Gi~~~~~----~l---~~--~~d~vl~V~d~~~~~~~~~i~~~il-~~-~~ivVlN  220 (349)
T 2www_A          153 RT-TNEAILLCEGAGYDIILIETVGVGQSEF----AV---AD--MVDMFVLLLPPAGGDELQGIKRGII-EM-ADLVAVT  220 (349)
T ss_dssp             TT-HHHHHHHHHHTTCSEEEEECCCC--CHH----HH---HT--TCSEEEEEECCC------------C-CS-CSEEEEC
T ss_pred             HH-HHHHHHhhccCCCCEEEEECCCcchhhh----hH---Hh--hCCEEEEEEcCCcchhHHHhHHHHH-hc-CCEEEEe
Confidence            11 1122323334789999999999753221    11   11  3477889999865532211111111 11 2457889


Q ss_pred             CCCCCC
Q 011624          331 KLDGDS  336 (481)
Q Consensus       331 KvD~~~  336 (481)
                      |+|...
T Consensus       221 K~Dl~~  226 (349)
T 2www_A          221 KSDGDL  226 (349)
T ss_dssp             CCSGGG
T ss_pred             eecCCC
Confidence            999753

>4a0g_A Adenosylmethionine-8-amino-7-oxononanoate aminotransferase; BIO3-BIO1, biotin synthesis; HET: PLP; 2.50A {Arabidopsis thaliana} PDB: 4a0h_A* 4a0r_A* 4a0f_A*

Probab=98.87  E-value=1.2e-08  Score=114.96  Aligned_cols=93  Identities=15%  Similarity=0.086  Sum_probs=58.3

Q ss_pred             CCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch-HHH-HHHHHHh-hhcCCeeEEEEcCCCCCCch
Q 011624          265 NVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG-QEA-AALVTTF-NIEIGITGAILTKLDGDSRG  338 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~-~~~-~~~~~~f-~~~~~i~GvIlnKvD~~~~~  338 (481)
                      ++|++||+++|.+..   +.....++++.++    .+|+||+|+..+ .+. +-....+ ...+.+.|||+|+.+. .+.
T Consensus       201 ~~D~vvVEGaGGl~~p~~~~~~~adla~~l~----~PVILV~d~~lG~i~~~~lt~~~l~~~g~~v~GvI~N~~~~-~~~  275 (831)
T 4a0g_A          201 SDLLCLVETAGGVASPGPSGTLQCDLYRPFR----LPGILVGDGRLGGISGTIAAYESLKLRGYDIAAVVFEDHGL-VNE  275 (831)
T ss_dssp             -CEEEEEECCSSTTCBCTTSCBHHHHTGGGC----CCEEEECCCSTTHHHHHHHHHHHHHTTTCCEEEEEEECCSS-CTH
T ss_pred             cCCEEEEECCCCccCCCCCCccHHHHHHHcC----CCEEEEECCCCcHHHHHHHHHHHHHHCCCcEEEEEEeCCch-hHH
Confidence            799999999986532   2234566666655    789999999543 222 1111212 3468899999998873 334


Q ss_pred             hHHHHHHHHhCCCeEEeecCCCCCC
Q 011624          339 GAALSVKEVSGKPIKLVGRGERMED  363 (481)
Q Consensus       339 g~~~~~~~~~glPV~~ig~g~~v~d  363 (481)
                      ..+....+ .++||..+|..|+.+.
T Consensus       276 ~~l~~~l~-~~~~v~vLg~lP~~~~  299 (831)
T 4a0g_A          276 VPLTSYLR-NKVPVLVLPPVPKDPS  299 (831)
T ss_dssp             HHHHHHTT-TSSCEEEECCCCCCTT
T ss_pred             HHHHHHHH-hCCCceeeCCCCCCCH
Confidence            34433332 2667766999888754

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.84  E-value=1.5e-08  Score=95.03  Aligned_cols=135  Identities=16%  Similarity=0.213  Sum_probs=80.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC---CCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT---EVKPSQIAKQGL  258 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~---~~~~~~~l~~~l  258 (481)
                      +..+++++|.+||||||++.+|+..+... ++|.+++.|++.+  .+....  ...|..+...+.   .........+.+
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~-~~~~~i~~d~~~~--~d~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNE-VKIGAMLGDVVSK--ADYERV--RRFGIKAEAISTGKECHLDAHMIYHRL  103 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTT-SCEEEEECSCCCH--HHHHHH--HTTTCEEEECCCTTCSSCCHHHHHTTG
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccC-CeEEEEecCCCCc--hhHHHH--HhCCCcEEEecCCceeecccHHHHHHH
Confidence            35688999999999999999999887655 8999999999864  232211  122444332222   111122333333


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH-HHHHHhhhcCCeeEEEEcCCCCC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA-ALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~-~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      .  ...++|++||||+|.+....        ... ...+.+++|+|+..+.... .....+.  . ..-+|+||+|..
T Consensus       104 ~--~~~~~d~iiidt~G~~~~~~--------~~~-~~~~~~i~vvd~~~~~~~~~~~~~~~~--~-~~iiv~NK~Dl~  167 (221)
T 2wsm_A          104 K--KFSDCDLLLIENVGNLICPV--------DFD-LGENYRVVMVSVTEGDDVVEKHPEIFR--V-ADLIVINKVALA  167 (221)
T ss_dssp             G--GGTTCSEEEEEEEEBSSGGG--------GCC-CSCSEEEEEEEGGGCTTHHHHCHHHHH--T-CSEEEEECGGGH
T ss_pred             H--hcCCCCEEEEeCCCCCCCCc--------hhc-cccCcEEEEEeCCCcchhhhhhhhhhh--c-CCEEEEecccCC
Confidence            3  34689999999999532110        000 1346789999986543211 1111121  2 345899999963

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.77  E-value=6.2e-08  Score=98.13  Aligned_cols=143  Identities=19%  Similarity=0.213  Sum_probs=79.0

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH---H----HHHHHhhhhcCCCeecCCCCCCHHH-
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA---I----DQLVILGEQVGVPVYTAGTEVKPSQ-  252 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a---i----dql~~~~~~~gv~v~~~~~~~~~~~-  252 (481)
                      .++.+++++|++|+||||+...|+..+...+.+|.++..|++....   +    ..+.......+.............. 
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v~i~~~d~~~~~~~~~~~~~~~~i~~v~q~~~~~~~~~~~~~~l~G~  132 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLGGV  132 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTTGGGCTTEEEECCCCCSSHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhhhhCCCEEEEEEEcCcccccccchHHHhhhheeeccCcccccccCcccccccch
Confidence            4567999999999999999999999988889999999999864321   0    0000111111111111111111111 


Q ss_pred             --HHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEc
Q 011624          253 --IAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILT  330 (481)
Q Consensus       253 --~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIln  330 (481)
                        ...+.+..+...++|++||||||....+...       ..  ..+-+++|+|+..+.+. ..++...... ..-+++|
T Consensus       133 tr~~~e~~~~~~~~~~~~iliDT~Gi~~~~~~v-------~~--~~d~vl~v~d~~~~~~~-~~i~~~i~~~-~~ivvlN  201 (337)
T 2qm8_A          133 AAKTRETMLLCEAAGFDVILVETVGVGQSETAV-------AD--LTDFFLVLMLPGAGDEL-QGIKKGIFEL-ADMIAVN  201 (337)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEECSSSSCHHHH-------HT--TSSEEEEEECSCC-------CCTTHHHH-CSEEEEE
T ss_pred             HHHHHHHHHHHhcCCCCEEEEECCCCCcchhhH-------Hh--hCCEEEEEEcCCCcccH-HHHHHHHhcc-ccEEEEE
Confidence              1223333334478999999999986532211       11  23677888887544321 1111000011 2346789


Q ss_pred             CCCC
Q 011624          331 KLDG  334 (481)
Q Consensus       331 KvD~  334 (481)
                      |+|.
T Consensus       202 K~Dl  205 (337)
T 2qm8_A          202 KADD  205 (337)
T ss_dssp             CCST
T ss_pred             chhc
Confidence            9995

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.70  E-value=2.1e-08  Score=95.72  Aligned_cols=43  Identities=26%  Similarity=0.229  Sum_probs=38.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      -.|++.|++||||||++.++|..++++|++|++++.|++....
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~~   49 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRAE   49 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCChh
Confidence            4577789999999999999999999999999999999986443

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.39  E-value=9e-06  Score=82.58  Aligned_cols=137  Identities=16%  Similarity=0.127  Sum_probs=72.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ++..++++|.+||||||+...|+      |..+. +...++.            ..+..+..                 +
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~------~~~~~-~~~~~~~------------t~~~~~~~-----------------~  209 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALT------TAKPE-IASYPFT------------TRGINVGQ-----------------F  209 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHC------SSCCE-EECCTTC------------SSCEEEEE-----------------E
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh------CCCCc-cCCCCCe------------eeceeEEE-----------------E
Confidence            45688999999999999998885      32221 1111110            00000000                 0


Q ss_pred             HcCCCcEEEEcCCCCccccH-----HHHHHHHhhhhccCCceEEEEEeCcch-----HHHHHHHHHhhhc--CCeeEEEE
Q 011624          262 KKKNVDVVIVDTAGRLQIDK-----AMMDELKDVKRVLNPTEVLLVVDAMTG-----QEAAALVTTFNIE--IGITGAIL  329 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~-----~~~~el~~i~~~~~p~~vvLVvda~~~-----~~~~~~~~~f~~~--~~i~GvIl  329 (481)
                      ...+.++.++||||......     .....+..+  ...++.+++|+|+...     .+.......+...  -...-+|+
T Consensus       210 ~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~--~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~piilV~  287 (357)
T 2e87_A          210 EDGYFRYQIIDTPGLLDRPISERNEIEKQAILAL--RYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLPFLVVI  287 (357)
T ss_dssp             EETTEEEEEEECTTTSSSCSTTSCHHHHHHHHGG--GGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EecCceEEEEeCCCccccchhhhhHHHHHHHHHH--HhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCCEEEEE
Confidence            11345789999999854311     111111111  1235889999997432     2222333332221  12345889


Q ss_pred             cCCCCCCchhH--HHHHHHHhCCCeEEee
Q 011624          330 TKLDGDSRGGA--ALSVKEVSGKPIKLVG  356 (481)
Q Consensus       330 nKvD~~~~~g~--~~~~~~~~glPV~~ig  356 (481)
                      ||+|.......  +...+...+.|+.+++
T Consensus       288 NK~Dl~~~~~~~~~~~~~~~~~~~~~~iS  316 (357)
T 2e87_A          288 NKIDVADEENIKRLEKFVKEKGLNPIKIS  316 (357)
T ss_dssp             CCTTTCCHHHHHHHHHHHHHTTCCCEECB
T ss_pred             ECcccCChHHHHHHHHHHHhcCCCeEEEe
Confidence            99998654332  3444445677775555

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.37  E-value=1e-06  Score=96.08  Aligned_cols=68  Identities=15%  Similarity=0.193  Sum_probs=29.1

Q ss_pred             HHHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHH
Q 011624           83 EMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVR  162 (481)
Q Consensus        83 ~~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~  162 (481)
                      .||.+|++.|+.    +.+   +++.++       ..+|-+..++.   +.+++.+++.+.+.++.+..+|...+.+.+.
T Consensus        36 ~~~~~~~~~~~~----~~~---~~~~~~-------~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (611)
T 3izq_1           36 EVFPTLKAQLQD----YQG---WDNLSL-------KLALFDNNFDL---ESTLAELKKTLKKKKTPKKPIAAANGSANVT   98 (611)
T ss_dssp             CCSTTHHHHHHH----HHC---CCSSHH-------HHHHHHTTTCS---SHHHHHHHHTTCSSSCC--------------
T ss_pred             HHHHHHHHHHHH----hcC---cchhHH-------HHHHHHhhccH---HHHHHHHHHHhccccccCCCChHHHHHHHHH
Confidence            355666655543    322   555544       44444555554   6677778888777777766666655544444


Q ss_pred             HHHHH
Q 011624          163 DELVK  167 (481)
Q Consensus       163 ~~L~~  167 (481)
                      +.+.+
T Consensus        99 ~~~~~  103 (611)
T 3izq_1           99 QKLAN  103 (611)
T ss_dssp             -----
T ss_pred             HHHHh
Confidence            44433

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.28  E-value=2.2e-06  Score=80.41  Aligned_cols=136  Identities=21%  Similarity=0.295  Sum_probs=75.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCC--C--CCCHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAG--T--EVKPSQIAKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~--~--~~~~~~~l~~~  257 (481)
                      ++..|+++|.+||||||++.+|+..+... .++..|+.|++.+  .+....  ...|...+..+  .  .....+ ..+.
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~-~~~~~i~~d~~~~--~d~~~~--~~~~~~~~~~~~~~~~~l~~~~-~~~~  110 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDK-YKIACIAGDVIAK--FDAERM--EKHGAKVVPLNTGKECHLDAHL-VGHA  110 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTT-CCEEEEEEETTTH--HHHHHH--HTTTCEEEEEECTTCSSCCHHH-HHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccC-CeEEEEECCCCCC--ccHHHH--HhcCCcEEEecCCceEeccHHH-HHHH
Confidence            35678888999999999999999877554 7899999998753  332211  12233333221  1  122222 2333


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH-HHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA-AALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~-~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      +..+...++|++++|++|.+... .       ... ......+.|+|+..+.+. ......+.   ...-+|+||+|..
T Consensus       111 ~~~l~~~~~d~~~id~~g~i~~~-~-------s~~-~~~~~~~~v~~~~~~~~~~~~~~~~~~---~~~iiv~NK~Dl~  177 (226)
T 2hf9_A          111 LEDLNLDEIDLLFIENVGNLICP-A-------DFD-LGTHKRIVVISTTEGDDTIEKHPGIMK---TADLIVINKIDLA  177 (226)
T ss_dssp             HTTSCGGGCSEEEEECCSCSSGG-G-------GCC-CSCSEEEEEEEGGGCTTTTTTCHHHHT---TCSEEEEECGGGH
T ss_pred             HHHHhcCCCCEEEEeCCCCccCc-c-------hhh-hccCcEEEEEecCcchhhHhhhhhHhh---cCCEEEEeccccC
Confidence            33332346799999999964321 0       011 122445677775322111 00111121   2346899999964

>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=98.27  E-value=1.3e-06  Score=79.72  Aligned_cols=40  Identities=23%  Similarity=0.145  Sum_probs=36.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..+++++|++|+||||++.+|+..|..+|++|.++..|+.
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik~~~~   43 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGH   43 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC-
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEEeCCC
Confidence            4589999999999999999999999999999999998875

>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=98.24  E-value=1.2e-05  Score=74.66  Aligned_cols=48  Identities=25%  Similarity=0.304  Sum_probs=39.2

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      .|.++++++..       ++.+++++|++|+||||++..++.   ..|.+|++++.+.
T Consensus         8 ~LD~~l~Ggi~-------~G~~~~i~G~~GsGKTtl~~~l~~---~~~~~v~~i~~~~   55 (220)
T 2cvh_A            8 SLDSLLGGGFA-------PGVLTQVYGPYASGKTTLALQTGL---LSGKKVAYVDTEG   55 (220)
T ss_dssp             HHHHHTTSSBC-------TTSEEEEECSTTSSHHHHHHHHHH---HHCSEEEEEESSC
T ss_pred             HHHHhhcCCCc-------CCEEEEEECCCCCCHHHHHHHHHH---HcCCcEEEEECCC
Confidence            45666654442       456999999999999999999998   5689999999986

>2obn_A Hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, unknown function; HET: PG4; 2.30A {Anabaena variabilis}

Probab=98.23  E-value=1.3e-05  Score=81.10  Aligned_cols=158  Identities=21%  Similarity=0.203  Sum_probs=96.7

Q ss_pred             CEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       183 ~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .+.++++|. ..+||||++..|...+.++|+++.++.     ++-.-.+ .  ...+++.-..-.. .-...+......+
T Consensus       152 ~k~i~v~GTD~~VGK~~ts~~L~~~l~~~G~~a~~~~-----tgqtg~~-~--~~~gi~~Dav~~d-f~aG~ve~~~~~~  222 (349)
T 2obn_A          152 CRRVLTVGTDMAIGKMSTSLELHWAAKLRGWRSKFLA-----TGQTGVM-L--EGDGVALDAVRVD-FAAGAVEQMVMRY  222 (349)
T ss_dssp             SEEEEEEESSSSSSHHHHHHHHHHHHHHTTCCEEEEC-----CSHHHHH-H--HSCSCCGGGSBHH-HHHHHHHHHHHHH
T ss_pred             ceEEEEcCCCccccceeHHHHHHHHHHhcCCcEEEEe-----ccchhhh-h--hcCCcchhHHHHH-HHhhhHHHHHHHh
Confidence            456667777 999999999999999999999999643     2211111 1  2233333111000 0011222333444


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc--h-----------HHHHHHHHHh----h--hcC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT--G-----------QEAAALVTTF----N--IEI  322 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~--~-----------~~~~~~~~~f----~--~~~  322 (481)
                       .+++|+++|++.|.+.... .. ....++...+|+.++||.++..  -           .+....+..+    +  ...
T Consensus       223 -~~~~d~vlVEGqGgl~~P~-~~-~t~~ll~g~~p~~vILv~~~~~g~i~~~~~~~~p~l~~~i~t~e~l~~~~~~~~~~  299 (349)
T 2obn_A          223 -GKNYDILHIEGQGSLLHPG-ST-ATLPLIRGSQPTQLVLVHRAGQTHNGNNPHVPIPPLPEVIRLYETVASGGGAFGTV  299 (349)
T ss_dssp             -TTTCSEEEECCCCCTTSTT-CC-THHHHHHHHCCSEEEEEEETTCCBCSSCTTSBCCCHHHHHHHHHHHHHTTTTSCCC
T ss_pred             -ccCCCEEEEeCCCcccCcC-hH-hHHHHHHHcCCCeEEEEECCCCceECCCCccCCCCHHHHHHHHHHHHHhhccCCCC
Confidence             3589999999998764322 11 1224666667888999998622  1           3333333333    2  468


Q ss_pred             CeeEEEEcCCCCCCc--hhHHHHHHHHhCCCe
Q 011624          323 GITGAILTKLDGDSR--GGAALSVKEVSGKPI  352 (481)
Q Consensus       323 ~i~GvIlnKvD~~~~--~g~~~~~~~~~glPV  352 (481)
                      ++.|+++|..+....  ...+..+.+.+|+|+
T Consensus       300 ~V~Gi~lN~~~~~~~~~~~~~~~ie~~~glPv  331 (349)
T 2obn_A          300 PVVGIALNTAHLDEYAAKEAIAHTIAETGLPC  331 (349)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHHHHCSCE
T ss_pred             cEEEEEEECCCCCHHHHHHHHHHHHHHHCCCE
Confidence            899999999875432  344566778899999

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=98.19  E-value=1.1e-05  Score=76.33  Aligned_cols=51  Identities=27%  Similarity=0.350  Sum_probs=42.3

Q ss_pred             HHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          165 LVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       165 L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      |.++++++..       ++.++++.|++|+||||++.+++..+...|.+|++++.+..
T Consensus        12 LD~~l~gGl~-------~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~e~~   62 (247)
T 2dr3_A           12 VDEILHGGIP-------ERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALEEH   62 (247)
T ss_dssp             HHHHTTTSEE-------TTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEESSSC
T ss_pred             HHHHcCCCCC-------CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccCC
Confidence            4555655443       45699999999999999999999998888999999999864

>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=98.18  E-value=1.7e-05  Score=80.82  Aligned_cols=100  Identities=20%  Similarity=0.316  Sum_probs=66.1

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC-CchhHHHHHHHhhhhcCCC
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV-YRPAAIDQLVILGEQVGVP  240 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~-~rp~aidql~~~~~~~gv~  240 (481)
                      .+|..+|+ ++..       +..++.+.|++|+||||++..++..+...|.+|++|+++. +.+.       ++...|++
T Consensus        47 ~~LD~~Lg~GGi~-------~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~-------ra~rlgv~  112 (356)
T 3hr8_A           47 LAIDIATGVGGYP-------RGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPV-------YAKNLGVD  112 (356)
T ss_dssp             HHHHHHTSSSSEE-------TTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-------HHHHHTCC
T ss_pred             HHHHHHhccCCcc-------CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchH-------HHHHcCCc
Confidence            46788888 6554       4689999999999999999999999999999999999875 3332       22223332


Q ss_pred             eec--CCCCCCHHHHHHHHHHH-HHcCCCcEEEEcCCCCc
Q 011624          241 VYT--AGTEVKPSQIAKQGLEE-AKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       241 v~~--~~~~~~~~~~l~~~l~~-~~~~~~D~VIIDt~G~~  277 (481)
                      .-.  ........+.+ ..+.. ++...+|++|||+...+
T Consensus       113 ~~~l~i~~~~~~e~~l-~~~~~l~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          113 LKSLLISQPDHGEQAL-EIVDELVRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             GGGCEEECCSSHHHHH-HHHHHHHHTSCCSEEEEECTTTC
T ss_pred             hhhhhhhhccCHHHHH-HHHHHHhhhcCCCeEEehHhhhh
Confidence            111  01122333333 22332 23367899999997655

>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=98.16  E-value=1.4e-05  Score=81.64  Aligned_cols=101  Identities=23%  Similarity=0.331  Sum_probs=65.8

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCe
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPV  241 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v  241 (481)
                      ..|..+++ ++..       ++.++.+.|++|+||||++..++..+.+.|.+|++++++.--.    ++  +....|++.
T Consensus        60 ~~LD~~Lg~GGl~-------~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~----~~--~a~~~g~d~  126 (366)
T 1xp8_A           60 LSLDLALGVGGIP-------RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALD----PV--YARALGVNT  126 (366)
T ss_dssp             HHHHHHTSSSSEE-------TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCC----HH--HHHHTTCCG
T ss_pred             HHHHHHhCCCCcc-------CCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChh----HH--HHHHcCCCH
Confidence            35677777 5443       4568999999999999999999999998999999999995321    11  123334331


Q ss_pred             e---cCCCCCCHHHHHHHHHHHH-HcCCCcEEEEcCCCCcc
Q 011624          242 Y---TAGTEVKPSQIAKQGLEEA-KKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       242 ~---~~~~~~~~~~~l~~~l~~~-~~~~~D~VIIDt~G~~~  278 (481)
                      -   ... .....+ +.+.+..+ +..++|+||||+.+.+.
T Consensus       127 ~~l~i~~-~~~~e~-~l~~l~~l~~~~~~~lVVIDsl~~l~  165 (366)
T 1xp8_A          127 DELLVSQ-PDNGEQ-ALEIMELLVRSGAIDVVVVDSVAALT  165 (366)
T ss_dssp             GGCEEEC-CSSHHH-HHHHHHHHHTTTCCSEEEEECTTTCC
T ss_pred             HHceeec-CCcHHH-HHHHHHHHHhcCCCCEEEEeChHHhc
Confidence            1   111 122333 33334433 23579999999987664

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=98.16  E-value=1.7e-06  Score=93.06  Aligned_cols=141  Identities=18%  Similarity=0.206  Sum_probs=78.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH---HHc-----CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL---KKQ-----GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQI  253 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L---~~~-----G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~  253 (481)
                      +-|-|+++|+.++||||++-+|.++-   .+.     |....        ....|.+ .....-|+.+.....       
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~--------~~~~D~~-~~EreRGITI~s~~~-------   93 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAAR--------HATSDWM-AMERERGISVTTSVM-------   93 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC-----------------------------CTTTEE-------
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCcccc--------ccccCCh-HHHHHCCCcEeeceE-------
Confidence            45789999999999999999996432   111     11000        0000111 111122333321110       


Q ss_pred             HHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-----HHHHHHHHhhhcCCeeEEE
Q 011624          254 AKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-----EAAALVTTFNIEIGITGAI  328 (481)
Q Consensus       254 l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-----~~~~~~~~f~~~~~i~GvI  328 (481)
                            .+.++++.+-||||||..+    +..|+...++++  |.+++|+||..|-     ....++..+  +++ .-++
T Consensus        94 ------~~~~~~~~iNlIDTPGHvD----F~~Ev~raL~~~--DgAvlVvda~~GV~~qT~~v~~~a~~~--~lp-~i~f  158 (548)
T 3vqt_A           94 ------QFPYRDRVVNLLDTPGHQD----FSEDTYRVLTAV--DSALVVIDAAKGVEAQTRKLMDVCRMR--ATP-VMTF  158 (548)
T ss_dssp             ------EEEETTEEEEEECCCCGGG----CSHHHHHHHHSC--SEEEEEEETTTBSCHHHHHHHHHHHHT--TCC-EEEE
T ss_pred             ------EEEECCEEEEEEeCCCcHH----HHHHHHHHHHhc--CceEEEeecCCCcccccHHHHHHHHHh--CCc-eEEE
Confidence                  1135788999999999876    556666666654  8899999996652     122223322  233 4578


Q ss_pred             EcCCCCC-Cchh-HHHHHHHHhCCCeE
Q 011624          329 LTKLDGD-SRGG-AALSVKEVSGKPIK  353 (481)
Q Consensus       329 lnKvD~~-~~~g-~~~~~~~~~glPV~  353 (481)
                      +||+|.. +... .+..+...++..+.
T Consensus       159 INK~Dr~~ad~~~~~~~i~~~l~~~~~  185 (548)
T 3vqt_A          159 VNKMDREALHPLDVMADIEQHLQIECA  185 (548)
T ss_dssp             EECTTSCCCCHHHHHHHHHHHHTSEEE
T ss_pred             EecccchhcchhHhhhhhhhhcCCceE
Confidence            9999953 4444 34566777776553

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=98.14  E-value=6.7e-06  Score=81.90  Aligned_cols=117  Identities=17%  Similarity=0.256  Sum_probs=65.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ++..++++|.+||||||++..|.      |.++..+...++.        +.....+  ++                   
T Consensus         9 ~~g~v~ivG~~nvGKSTLin~l~------g~~~~i~s~~~~t--------T~~~~~~--~~-------------------   53 (308)
T 3iev_A            9 KVGYVAIVGKPNVGKSTLLNNLL------GTKVSIISPKAGT--------TRMRVLG--VK-------------------   53 (308)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHH------TSCCSCCCSSSCC--------CCSCEEE--EE-------------------
T ss_pred             CCCEEEEECCCCCcHHHHHHHHh------CCCccccCCCCCc--------eeeEEEE--EE-------------------
Confidence            45789999999999999998885      4444322222110        0000000  00                   


Q ss_pred             HcC-CCcEEEEcCCCCcccc------HHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHH-HHHhhhcCCeeEEEEcC
Q 011624          262 KKK-NVDVVIVDTAGRLQID------KAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAAL-VTTFNIEIGITGAILTK  331 (481)
Q Consensus       262 ~~~-~~D~VIIDt~G~~~~d------~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~-~~~f~~~~~i~GvIlnK  331 (481)
                      ... +++++|+||||.....      ..+.........  .++.+++|+|++.+  ...... .......-...-+|+||
T Consensus        54 ~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~--~aD~il~VvD~~~~~~~~~~~~~~~~l~~~~~pvilV~NK  131 (308)
T 3iev_A           54 NIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLE--EADVILFMIDATEGWRPRDEEIYQNFIKPLNKPVIVVINK  131 (308)
T ss_dssp             EETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHH--HCSEEEEEEETTTBSCHHHHHHHHHHTGGGCCCEEEEEEC
T ss_pred             ecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhh--cCCEEEEEEeCCCCCCchhHHHHHHHHHhcCCCEEEEEEC
Confidence            013 6789999999986432      222222222222  35889999999543  222222 33333222235588999


Q ss_pred             CCCC
Q 011624          332 LDGD  335 (481)
Q Consensus       332 vD~~  335 (481)
                      +|..
T Consensus       132 ~Dl~  135 (308)
T 3iev_A          132 IDKI  135 (308)
T ss_dssp             GGGS
T ss_pred             ccCC
Confidence            9975

>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=98.13  E-value=6.9e-06  Score=83.67  Aligned_cols=101  Identities=21%  Similarity=0.375  Sum_probs=64.9

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC-chhHHHHHHHhhhhcCCC
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY-RPAAIDQLVILGEQVGVP  240 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~-rp~aidql~~~~~~~gv~  240 (481)
                      ..|..+++ ++..       +..++++.|++|+||||++..++..+.++|.+|++++++.- .+..       ....|++
T Consensus        49 ~~LD~~Lg~GGl~-------~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~-------a~~~g~~  114 (356)
T 1u94_A           49 LSLDIALGAGGLP-------MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY-------ARKLGVD  114 (356)
T ss_dssp             HHHHHHTSSSSEE-------TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHH-------HHHTTCC
T ss_pred             HHHHHHhccCCcc-------CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHH-------HHHcCCC
Confidence            35667776 5443       45699999999999999999999999999999999999642 2221       2223332


Q ss_pred             eecC--CCCCCHHHHHHHHHHHH-HcCCCcEEEEcCCCCcc
Q 011624          241 VYTA--GTEVKPSQIAKQGLEEA-KKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       241 v~~~--~~~~~~~~~l~~~l~~~-~~~~~D~VIIDt~G~~~  278 (481)
                      .-..  ... ...+.+.+.+..+ +..++|+||||+...+.
T Consensus       115 ~~~l~i~~~-~~~e~~~~~~~~l~~~~~~~lVVIDsl~~l~  154 (356)
T 1u94_A          115 IDNLLCSQP-DTGEQALEICDALARSGAVDVIVVDSVAALT  154 (356)
T ss_dssp             GGGCEEECC-SSHHHHHHHHHHHHHHTCCSEEEEECGGGCC
T ss_pred             hhheeeeCC-CCHHHHHHHHHHHHhccCCCEEEEcCHHHhc
Confidence            1100  011 1223333333333 23679999999987664

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=98.10  E-value=5.7e-06  Score=88.64  Aligned_cols=150  Identities=17%  Similarity=0.165  Sum_probs=70.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      .+.|+++|.+|+||||++.+|......-+....+.+.|.++....+.. ......|+.+.....             .+.
T Consensus        13 ~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~-~~E~~rGiTi~~~~~-------------~~~   78 (529)
T 2h5e_A           13 RRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWM-EMEKQRGISITTSVM-------------QFP   78 (529)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCC--------------------------------CCTTEE-------------EEE
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccc-hhcccCCcceeeeEE-------------EEE
Confidence            467899999999999999988743111111222233333333222221 111122222211000             011


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHhh-hcCCeeEEEEcCCCCCCc-h
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFN-IEIGITGAILTKLDGDSR-G  338 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~-~~~~i~GvIlnKvD~~~~-~  338 (481)
                      ..++.+.||||||.....    .++.....  ..+.+++|+|+..+.  .......... ..++ .-+++||+|.... .
T Consensus        79 ~~~~~i~liDTPG~~df~----~~~~~~l~--~aD~~IlVvDa~~g~~~~t~~~~~~~~~~~ip-iivviNK~Dl~~~~~  151 (529)
T 2h5e_A           79 YHDCLVNLLDTPGHEDFS----EDTYRTLT--AVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTP-ILTFMNKLDRDIRDP  151 (529)
T ss_dssp             ETTEEEEEECCCCSTTCC----HHHHHGGG--GCSEEEEEEETTTCSCHHHHHHHHHHTTTTCC-EEEEEECTTSCCSCH
T ss_pred             ECCeEEEEEECCCChhHH----HHHHHHHH--HCCEEEEEEeCCccchHHHHHHHHHHHHcCCC-EEEEEcCcCCccccH
Confidence            356889999999985432    22222222  358899999995541  1122222222 2333 4588999997543 2


Q ss_pred             -hHHHHHHHHhCCCeE
Q 011624          339 -GAALSVKEVSGKPIK  353 (481)
Q Consensus       339 -g~~~~~~~~~glPV~  353 (481)
                       ..+..+...++.++.
T Consensus       152 ~~~~~~i~~~l~~~~~  167 (529)
T 2h5e_A          152 MELLDEVENELKIGCA  167 (529)
T ss_dssp             HHHHHHHHHHHCCEEE
T ss_pred             HHHHHHHHHHhCCCcc
Confidence             234556667777653

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=98.10  E-value=2.5e-05  Score=72.93  Aligned_cols=41  Identities=27%  Similarity=0.391  Sum_probs=36.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++.++++.|++|+||||++..|+..+...|.+|.+++.+..
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~~~~   62 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTTEES   62 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEESSSC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEcccC
Confidence            35699999999999999999999888888889999998864

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=98.10  E-value=9.7e-06  Score=81.27  Aligned_cols=56  Identities=20%  Similarity=0.289  Sum_probs=43.4

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc------CCeEEEEeccC-Cchh
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ------GKSCMLVAGDV-YRPA  225 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~------G~kVlLId~D~-~rp~  225 (481)
                      ..|..+++++..       ++.++.+.|++|+||||++..++......      |.+|++++++. |++.
T Consensus        94 ~~LD~~L~GGl~-------~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~  156 (324)
T 2z43_A           94 QALDGLLAGGIE-------TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWE  156 (324)
T ss_dssp             HHHHHHTTTSEE-------TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHH
T ss_pred             hhHHHhcCCCCC-------CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHH
Confidence            356666654432       35699999999999999999999876554      78999999986 5554

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=98.10  E-value=5.8e-05  Score=83.55  Aligned_cols=82  Identities=18%  Similarity=0.184  Sum_probs=45.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH--HHHHHHHh-hhcCCeeEEEEcCCCCCC-chh
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE--AAALVTTF-NIEIGITGAILTKLDGDS-RGG  339 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~--~~~~~~~f-~~~~~i~GvIlnKvD~~~-~~g  339 (481)
                      ..+++.||||||...    +..++...+..  .+.+++|+|+..+..  ........ ..+++ .-+++||+|... ...
T Consensus        80 ~~~~i~liDTPG~~d----f~~~~~~~l~~--aD~aIlVvDa~~gv~~qt~~~~~~~~~~~ip-~ilviNKiD~~~~~~~  152 (704)
T 2rdo_7           80 EPHRINIIDTPGHVD----FTIEVERSMRV--LDGAVMVYCAVGGVQPQSETVWRQANKYKVP-RIAFVNKMDRMGANFL  152 (704)
T ss_pred             CceeEEEEeCCCccc----hHHHHHHHHHH--CCEEEEEEeCCCCCcHHHHHHHHHHHHcCCC-EEEEEeCCCcccccHH
Confidence            458999999999754    22333333332  488999999965421  11222211 12333 347899999643 333


Q ss_pred             HH-HHHHHHhCCCe
Q 011624          340 AA-LSVKEVSGKPI  352 (481)
Q Consensus       340 ~~-~~~~~~~glPV  352 (481)
                      .+ ..+...++.++
T Consensus       153 ~~~~~l~~~l~~~~  166 (704)
T 2rdo_7          153 KVVNQIKTRLGANP  166 (704)
T ss_pred             HHHHHHHHHhCCCc
Confidence            33 44555556543

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.08  E-value=4.2e-05  Score=84.53  Aligned_cols=81  Identities=16%  Similarity=0.178  Sum_probs=45.6

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHhh-hcCCeeEEEEcCCCCCCc-hh
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFN-IEIGITGAILTKLDGDSR-GG  339 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~-~~~~i~GvIlnKvD~~~~-~g  339 (481)
                      .++.+.||||||...........    ...  .+.+++|+|+..+.  .......... .+++ .-+++||+|.... ..
T Consensus        73 ~~~~i~liDTPG~~df~~~~~~~----l~~--aD~~llVvDa~~g~~~~~~~~~~~~~~~~~p-~ilviNK~Dl~~~~~~  145 (693)
T 2xex_A           73 EGHRVNIIDTPGHVDFTVEVERS----LRV--LDGAVTVLDAQSGVEPQTETVWRQATTYGVP-RIVFVNKMDKLGANFE  145 (693)
T ss_dssp             TTEEEEEECCCCCSSCCHHHHHH----HHH--CSEEEEEEETTTBSCHHHHHHHHHHHHTTCC-EEEEEECTTSTTCCHH
T ss_pred             CCeeEEEEECcCCcchHHHHHHH----HHH--CCEEEEEECCCCCCcHHHHHHHHHHHHcCCC-EEEEEECCCccccchH
Confidence            46789999999986543332222    222  48899999995441  1112222221 1233 4588999996533 22


Q ss_pred             -HHHHHHHHhCCC
Q 011624          340 -AALSVKEVSGKP  351 (481)
Q Consensus       340 -~~~~~~~~~glP  351 (481)
                       .+..+...++.+
T Consensus       146 ~~~~~l~~~l~~~  158 (693)
T 2xex_A          146 YSVSTLHDRLQAN  158 (693)
T ss_dssp             HHHHHHHHHHCCC
T ss_pred             HHHHHHHHHhCCC
Confidence             334455556654

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=98.07  E-value=1.6e-05  Score=80.50  Aligned_cols=56  Identities=25%  Similarity=0.394  Sum_probs=43.1

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH------cCCeEEEEeccC-Cchh
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK------QGKSCMLVAGDV-YRPA  225 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~------~G~kVlLId~D~-~rp~  225 (481)
                      ..|..+++++..       ++.++.+.|++|+||||++..+|.....      .|.+|++++++. |.+.
T Consensus       109 ~~LD~~LgGGl~-------~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~  171 (343)
T 1v5w_A          109 QEFDKLLGGGIE-------SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD  171 (343)
T ss_dssp             HHHHHHTTSSBC-------SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             hhHHHHhcCCCC-------CCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHH
Confidence            356666765443       4679999999999999999999986543      578999999986 4554

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=98.06  E-value=8.7e-05  Score=76.69  Aligned_cols=140  Identities=14%  Similarity=0.241  Sum_probs=77.4

Q ss_pred             HCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHH---------HHHHHHHhcCccccccccCCCCEEEEEEcCCC
Q 011624          123 EADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIV---------RDELVKLMGGEVSELVFAKSRPTVILLAGLQG  193 (481)
Q Consensus       123 ~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l---------~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~G  193 (481)
                      ..|++..-+.++++.+.+...     .+......+.+.-         ..+|.++++++..       +..++.++|++|
T Consensus       121 ~~gis~~~~~~i~~~a~~~~~-----~~~~ta~~l~~~~~~~~~i~TG~~~LD~lLgGGI~-------~Gei~~I~G~sG  188 (400)
T 3lda_A          121 IKGISEAKADKLLNEAARLVP-----MGFVTAADFHMRRSELICLTTGSKNLDTLLGGGVE-------TGSITELFGEFR  188 (400)
T ss_dssp             STTCCHHHHHHHHHHHHHHSC-----CSCCCHHHHHHHHHTSCEECCSCHHHHHHTTTSEE-------TTSEEEEEESTT
T ss_pred             HhCCCHHHHHHHHHHHHHhcc-----ccCCCHHHHHhhhccCCccccCChhHHHHhcCCcC-------CCcEEEEEcCCC
Confidence            356777777777766654321     1222222222111         1467777866554       456999999999


Q ss_pred             CCHHHHHHHHHHHHHH------cCCeEEEEeccC-CchhHHHHHHHhhhhcCCCee------cCCCCCCHH---HHHHHH
Q 011624          194 VGKTTVSAKLANYLKK------QGKSCMLVAGDV-YRPAAIDQLVILGEQVGVPVY------TAGTEVKPS---QIAKQG  257 (481)
Q Consensus       194 vGKTTta~~LA~~L~~------~G~kVlLId~D~-~rp~aidql~~~~~~~gv~v~------~~~~~~~~~---~~l~~~  257 (481)
                      +||||++..|+.....      .+.+|++++... +++..+.+   +....|+..-      .........   +.+..+
T Consensus       189 sGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~---~a~~~gl~~~~vleni~~~~~~~~~~~~~~l~~~  265 (400)
T 3lda_A          189 TGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVS---IAQRFGLDPDDALNNVAYARAYNADHQLRLLDAA  265 (400)
T ss_dssp             SSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHH---HHHHTTCCHHHHHHTEEEEECCSHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHH---HHHHcCCChHhHhhcEEEeccCChHHHHHHHHHH
Confidence            9999999988765442      357899999875 55443322   2333343210      000111221   222233


Q ss_pred             HHHHHcCCCcEEEEcCCCCc
Q 011624          258 LEEAKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~  277 (481)
                      ...+...+++++|||.+...
T Consensus       266 ~~~l~~~~~~llVIDs~t~~  285 (400)
T 3lda_A          266 AQMMSESRFSLIVVDSVMAL  285 (400)
T ss_dssp             HHHHHHSCEEEEEEETGGGG
T ss_pred             HHHHHhcCCceEEecchhhh
Confidence            33333356888999987543

>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=98.06  E-value=9.8e-06  Score=78.56  Aligned_cols=42  Identities=38%  Similarity=0.615  Sum_probs=37.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++.+|+++|.+||||||++..|+..|...|+.+.+++.|.++
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D~~~   44 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIR   44 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECchHHH
Confidence            467999999999999999999999998889999888888654

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=98.05  E-value=1.5e-05  Score=77.24  Aligned_cols=93  Identities=14%  Similarity=0.034  Sum_probs=53.6

Q ss_pred             CCCcEEEEcCCCCccccHH----HHHH-HH-hhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKA----MMDE-LK-DVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~----~~~e-l~-~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      .+.++.|+||||.......    ...+ +. .......++.+++|+|++...........+...-...-+++||+|....
T Consensus        46 ~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~~~~~~~l~~~l~~~~~pvilv~NK~Dl~~~  125 (256)
T 3iby_A           46 GEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACHLERHLYLTSQLFELGKPVVVALNMMDIAEH  125 (256)
T ss_dssp             TTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGGHHHHHHHHHHHTTSCSCEEEEEECHHHHHH
T ss_pred             CCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCCchhHHHHHHHHHHcCCCEEEEEEChhcCCc
Confidence            3457999999998654321    1111 11 1121135789999999976544444444343222235688999995322


Q ss_pred             h---hHHHHHHHHhCCCeEEee
Q 011624          338 G---GAALSVKEVSGKPIKLVG  356 (481)
Q Consensus       338 ~---g~~~~~~~~~glPV~~ig  356 (481)
                      .   .....+....|.|+..+.
T Consensus       126 ~~~~~~~~~l~~~lg~~vi~~S  147 (256)
T 3iby_A          126 RGISIDTEKLESLLGCSVIPIQ  147 (256)
T ss_dssp             TTCEECHHHHHHHHCSCEEECB
T ss_pred             CCcHHHHHHHHHHcCCCEEEEE
Confidence            1   223456677899985444

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=98.04  E-value=2.4e-05  Score=78.06  Aligned_cols=91  Identities=21%  Similarity=0.369  Sum_probs=59.4

Q ss_pred             HCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHH---------HHHHHHHhcCccccccccCCCCEEEEEEcCCC
Q 011624          123 EADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIV---------RDELVKLMGGEVSELVFAKSRPTVILLAGLQG  193 (481)
Q Consensus       123 ~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l---------~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~G  193 (481)
                      ..+++.+-+.+++....+...     .+......+.+..         ...|..+++++..       +..++.+.|++|
T Consensus        41 ~~gis~~~a~~~i~~a~~~~~-----~~~~~~~~~~~~~~~~~~i~TG~~~LD~~l~GGl~-------~g~i~~i~G~~g  108 (322)
T 2i1q_A           41 IEGISEKAAAKMIMGARDLCD-----LGFKSGIDLLKQRSTVWKLSTSSSELDSVLGGGLE-------SQSVTEFAGVFG  108 (322)
T ss_dssp             STTCCHHHHHHHHHHHHHHTT-----CSCCCTHHHHHHHTTCCEECCSCHHHHHHTTSSEE-------TTEEEEEEESTT
T ss_pred             hhCcCHHHHHHHHHHHHHhhh-----hcCCcHHHHHHHhccCCeecCCChhHHHhcCCCcc-------CCeEEEEECCCC
Confidence            367788877887777765431     1222223222111         1356666654432       467999999999


Q ss_pred             CCHHHHHHHHHHHHH------------HcC----CeEEEEeccC-Cchh
Q 011624          194 VGKTTVSAKLANYLK------------KQG----KSCMLVAGDV-YRPA  225 (481)
Q Consensus       194 vGKTTta~~LA~~L~------------~~G----~kVlLId~D~-~rp~  225 (481)
                      +||||++..+|....            +.|    .+|++++++. |++.
T Consensus       109 sGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~  157 (322)
T 2i1q_A          109 SGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE  157 (322)
T ss_dssp             SSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH
T ss_pred             CCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHH
Confidence            999999999997632            245    7999999985 4554

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=98.04  E-value=1.5e-05  Score=77.48  Aligned_cols=137  Identities=20%  Similarity=0.173  Sum_probs=74.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ...|+++|.+||||||+...|.      |.+.. +.  .+ |+           .++......               ..
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~------g~~~~-~~--~~-~~-----------~t~~~~~~~---------------~~   46 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALT------GLRQH-VG--NW-PG-----------VTVEKKEGI---------------ME   46 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHH------TTCEE-EE--EC-TT-----------SSCEEEEEE---------------EE
T ss_pred             eeEEEEECCCCCCHHHHHHHHh------CCCcc-cC--CC-CC-----------eEEEeeEEE---------------EE
Confidence            3568899999999999998885      33321 11  00 10           011111000               01


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHH--hhhhccCCceEEEEEeCcchHHHHHHHHHhhhcC-CeeEEEEcCCCCCCc--
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELK--DVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEI-GITGAILTKLDGDSR--  337 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~--~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~-~i~GvIlnKvD~~~~--  337 (481)
                      ..+..+.|+||||..........+..  .......++.+++|+|++...............- ...-+++||+|....  
T Consensus        47 ~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~  126 (271)
T 3k53_A           47 YREKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCLMRNLFLTLELFEMEVKNIILVLNKFDLLKKKG  126 (271)
T ss_dssp             ETTEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGHHHHHHHHHHHHHTTCCSEEEEEECHHHHHHHT
T ss_pred             ECCceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcchhhHHHHHHHHhcCCCCEEEEEEChhcCcccc
Confidence            24566899999997643221111111  1121234688999999976644333333222211 235588999994321  


Q ss_pred             -hhHHHHHHHHhCCCeEEe
Q 011624          338 -GGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       338 -~g~~~~~~~~~glPV~~i  355 (481)
                       .-....+....|.|+..+
T Consensus       127 ~~~~~~~l~~~lg~~~~~~  145 (271)
T 3k53_A          127 AKIDIKKMRKELGVPVIPT  145 (271)
T ss_dssp             CCCCHHHHHHHHSSCEEEC
T ss_pred             cHHHHHHHHHHcCCcEEEE
Confidence             112455677889998533

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=98.03  E-value=0.0011  Score=69.33  Aligned_cols=41  Identities=20%  Similarity=0.353  Sum_probs=36.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~  222 (481)
                      +..+++++|++|+||||++.++|..++. .|.+|++++.+.-
T Consensus       202 ~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E~s  243 (454)
T 2r6a_A          202 RSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLEMS  243 (454)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCC
Confidence            4569999999999999999999998876 6899999998864

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=98.01  E-value=0.0002  Score=75.04  Aligned_cols=118  Identities=18%  Similarity=0.220  Sum_probs=70.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecC--C---CCCCHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTA--G---TEVKPSQIAKQ  256 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~--~---~~~~~~~~l~~  256 (481)
                      +..+++++|.+|+||||++.++|...+.+|.+|++++.+.-.......+  .+...+++....  +   ........+..
T Consensus       196 ~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlEms~~ql~~R~--~~~~~~i~~~~l~~g~~~l~~~~~~~l~~  273 (444)
T 3bgw_A          196 RRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEMGKKENIKRL--IVTAGSINAQKIKAARRDFASEDWGKLSM  273 (444)
T ss_dssp             SSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSSSCTTHHHHHH--HHHHSCCCHHHHHHTGGGTCCSCHHHHHH
T ss_pred             CCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECCCCHHHHHHHH--HHHHcCCCHHHHhcccCCCCHHHHHHHHH
Confidence            4569999999999999999999999988899999999986543332222  233344442111  0   00011122334


Q ss_pred             HHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       257 ~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +...+.  ...+.|.|+++..  -..+...+..+.....+...++|+|.
T Consensus       274 a~~~l~--~~~l~i~d~~~~s--~~~i~~~ir~l~~~~~~~~~lIVID~  318 (444)
T 3bgw_A          274 AIGEIS--NSNINIFDKAGQS--VNYIWSKTRQTKRKNPGKRVIVMIDY  318 (444)
T ss_dssp             HHHHHH--TSCEEEECCSSCB--HHHHHHHHHHHHHHSCSSCEEEEEEC
T ss_pred             HHHHHh--cCCEEEECCCCCC--HHHHHHHHHHHHHHhCCCCeEEEEec
Confidence            444442  4567777877642  22344444444443344545788887

>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=98.00  E-value=1.6e-05  Score=80.70  Aligned_cols=101  Identities=20%  Similarity=0.287  Sum_probs=65.4

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc-hhHHHHHHHhhhhcCCC
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR-PAAIDQLVILGEQVGVP  240 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r-p~aidql~~~~~~~gv~  240 (481)
                      ..|..+++ ++..       +..++.+.|++|+||||++..++..+.+.|.+|++++++.-. +.       ++...|+.
T Consensus        47 ~~LD~~Lg~GGl~-------~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~-------~a~~lG~~  112 (349)
T 2zr9_A           47 ISLDVALGIGGLP-------RGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPE-------YAKKLGVD  112 (349)
T ss_dssp             HHHHHHTSSSSEE-------TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-------HHHHTTCC
T ss_pred             HHHHHHhccCCcc-------CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHH-------HHHHcCCC
Confidence            35677777 5543       457999999999999999999999999899999999998532 22       12333432


Q ss_pred             eecC--CCCCCHHHHHHHHHHHH-HcCCCcEEEEcCCCCcc
Q 011624          241 VYTA--GTEVKPSQIAKQGLEEA-KKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       241 v~~~--~~~~~~~~~l~~~l~~~-~~~~~D~VIIDt~G~~~  278 (481)
                      .-..  .......+.+ +.+..+ ...++|+||||.+..+.
T Consensus       113 ~~~l~i~~~~~~e~~l-~~~~~l~~~~~~~lIVIDsl~~l~  152 (349)
T 2zr9_A          113 TDSLLVSQPDTGEQAL-EIADMLVRSGALDIIVIDSVAALV  152 (349)
T ss_dssp             GGGCEEECCSSHHHHH-HHHHHHHTTTCCSEEEEECGGGCC
T ss_pred             HHHeEEecCCCHHHHH-HHHHHHHhcCCCCEEEEcChHhhc
Confidence            1110  0112233322 333322 23569999999987654

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.00  E-value=6.8e-06  Score=90.04  Aligned_cols=137  Identities=24%  Similarity=0.265  Sum_probs=80.6

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH---cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKK---QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~---~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      |++.|+.++||||++-+|.++-..   .| +|-  +.+.+ -++.    .....-|+.+......+             .
T Consensus         5 i~IiaHvD~GKTTL~e~LL~~~G~i~~~g-~v~--~g~~~-~D~~----~~EreRGITI~s~~~~~-------------~   63 (638)
T 3j25_A            5 IGVLAHVDAGKTTLTESLLYNSGAITELG-SVD--KGTTR-TDNT----LLERQRGITIQTGITSF-------------Q   63 (638)
T ss_dssp             CEEECCSTTSSHHHHHHHHHHHTCCSSCS-SCC--CSCCS-TTCS----TTHHHHSSCSSCCCCCC-------------B
T ss_pred             EEEEcCCCCCHHHHHHHHHHHcCCCcccc-ccc--cCCcc-cCCc----HHHHhCCCcEEeeeEEE-------------E
Confidence            678899999999999998754431   11 110  11111 1110    01112244443322211             2


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCCCCC-C
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKLDGD-S  336 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKvD~~-~  336 (481)
                      ++++.+.||||||..+    +..|+...++++  |.+++|+||..|   |  ....++..+  ++++ -+++||+|.. .
T Consensus        64 ~~~~~iNlIDTPGH~D----F~~Ev~raL~~~--DgavlVVDa~~GV~~qT~~v~~~a~~~--~lp~-i~~INKmDr~~a  134 (638)
T 3j25_A           64 WENTKVNIIDTPGHMD----FLAEVYRSLSVL--DGAILLISAKDGVQAQTRILFHALRKM--GIPT-IFFINKIDQNGI  134 (638)
T ss_dssp             CSSCBCCCEECCCSSS----THHHHHHHHTTC--SEEECCEESSCTTCSHHHHHHHHHHHH--TCSC-EECCEECCSSSC
T ss_pred             ECCEEEEEEECCCcHH----HHHHHHHHHHHh--CEEEEEEeCCCCCcHHHHHHHHHHHHc--CCCe-EEEEeccccccC
Confidence            5788899999999875    667776666654  899999999655   2  233334433  3443 4789999953 3


Q ss_pred             chh-HHHHHHHHhCCCe
Q 011624          337 RGG-AALSVKEVSGKPI  352 (481)
Q Consensus       337 ~~g-~~~~~~~~~glPV  352 (481)
                      ... .+..+.+.++.++
T Consensus       135 ~~~~~~~~i~~~l~~~~  151 (638)
T 3j25_A          135 DLSTVYQDIKEKLSAEI  151 (638)
T ss_dssp             CSHHHHHHHHHTTCCCC
T ss_pred             CHHHHHHHHHHHhCCCc
Confidence            333 3455666677665

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.97  E-value=0.00021  Score=71.28  Aligned_cols=119  Identities=18%  Similarity=0.229  Sum_probs=69.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-----CCCHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-----EVKPSQIAKQ  256 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-----~~~~~~~l~~  256 (481)
                      +..+++++|.+|+||||++.++|...+.+|.+|++++++.-.......+  .+...+++......     .......+..
T Consensus        67 ~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE~s~~~l~~R~--~~~~~~i~~~~l~~~~~~l~~~~~~~l~~  144 (315)
T 3bh0_A           67 RRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEMGKKENIKRL--IVTAGSINAQKIKAARRDFASEDWGKLSM  144 (315)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEESSSCHHHHHHHH--HHHHTTCCHHHHHSCHHHHCSSCHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEECCCCHHHHHHHH--HHHHcCCCHHHHhcCCCCCCHHHHHHHHH
Confidence            4579999999999999999999999998899999999985432222222  22233444311100     0011122334


Q ss_pred             HHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc
Q 011624          257 GLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM  306 (481)
Q Consensus       257 ~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~  306 (481)
                      +...+.  ...+.+.|+++..  -..+...+..+.....+.+.++|+|..
T Consensus       145 a~~~l~--~~~i~i~d~~~~~--~~~i~~~i~~l~~~~~~~~~lVVID~l  190 (315)
T 3bh0_A          145 AIGEIS--NSNINIFDKAGQS--VNYIWSKTRQTKRKNPGKRVIVMIDYL  190 (315)
T ss_dssp             HHHHHH--TSCEEEECCSCCB--HHHHHHHHHHHHHTSSSCCEEEEEECG
T ss_pred             HHHHHh--CCCEEEECCCCCC--HHHHHHHHHHHHHhcCCCCeEEEEeCc
Confidence            444442  4567777877532  223444444444433444448888873

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=97.96  E-value=0.00011  Score=81.10  Aligned_cols=81  Identities=20%  Similarity=0.249  Sum_probs=45.1

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHhh-hcCCeeEEEEcCCCCCC-chh
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFN-IEIGITGAILTKLDGDS-RGG  339 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~-~~~~i~GvIlnKvD~~~-~~g  339 (481)
                      .++.+.||||||....    ..+.......  .+.+++|+|+..+.  .......... .+++ .-+++||+|... ...
T Consensus        75 ~~~~i~liDTPG~~df----~~~~~~~l~~--aD~~ilVvDa~~g~~~~t~~~~~~~~~~~~p-~ivviNKiD~~~~~~~  147 (691)
T 1dar_A           75 KDHRINIIDTPGHVDF----TIEVERSMRV--LDGAIVVFDSSQGVEPQSETVWRQAEKYKVP-RIAFANKMDKTGADLW  147 (691)
T ss_dssp             TTEEEEEECCCSSTTC----HHHHHHHHHH--CSEEEEEEETTTCSCHHHHHHHHHHHHTTCC-EEEEEECTTSTTCCHH
T ss_pred             CCeEEEEEECcCccch----HHHHHHHHHH--CCEEEEEEECCCCcchhhHHHHHHHHHcCCC-EEEEEECCCcccCCHH
Confidence            4688999999998542    2233223332  48899999995442  1112222111 1233 448899999643 223


Q ss_pred             HH-HHHHHHhCCC
Q 011624          340 AA-LSVKEVSGKP  351 (481)
Q Consensus       340 ~~-~~~~~~~glP  351 (481)
                      .+ ..+...++.+
T Consensus       148 ~~~~~l~~~l~~~  160 (691)
T 1dar_A          148 LVIRTMQERLGAR  160 (691)
T ss_dssp             HHHHHHHHTTCCC
T ss_pred             HHHHHHHHHhCCC
Confidence            33 4455555654

>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=97.93  E-value=4.4e-05  Score=76.30  Aligned_cols=101  Identities=17%  Similarity=0.246  Sum_probs=64.6

Q ss_pred             HHHHHHhc----CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc--CCeEEEEeccC-CchhHHHHHHHhhh
Q 011624          163 DELVKLMG----GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ--GKSCMLVAGDV-YRPAAIDQLVILGE  235 (481)
Q Consensus       163 ~~L~~~l~----~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~--G~kVlLId~D~-~rp~aidql~~~~~  235 (481)
                      .+|..+|+    ++..       +. ++.+.|++|+||||++..++..+.++  |.+|++||+.- +++..       ++
T Consensus        12 ~~LD~~LGg~~~GGl~-------~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~r-------a~   76 (333)
T 3io5_A           12 PMMNIALSGEITGGMQ-------SG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAY-------LR   76 (333)
T ss_dssp             HHHHHHHHSSTTCCBC-------SE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHH-------HH
T ss_pred             HHHHHHhCCCCCCCCc-------CC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHH-------HH
Confidence            46677777    5443       23 78899999999999999999988876  88999999873 44432       33


Q ss_pred             hcCCCeecC--CCCCCHHHHHHHHHHHH---HcCCCcEEEEcCCCCcc
Q 011624          236 QVGVPVYTA--GTEVKPSQIAKQGLEEA---KKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       236 ~~gv~v~~~--~~~~~~~~~l~~~l~~~---~~~~~D~VIIDt~G~~~  278 (481)
                      ..|++.-+.  -...+..+...+.++.+   +...+++||||+...+.
T Consensus        77 ~lGvd~d~llv~~~~~~E~~~l~i~~~l~~i~~~~~~lvVIDSI~aL~  124 (333)
T 3io5_A           77 SMGVDPERVIHTPVQSLEQLRIDMVNQLDAIERGEKVVVFIDSLGNLA  124 (333)
T ss_dssp             HTTCCGGGEEEEECSBHHHHHHHHHHHHHTCCTTCCEEEEEECSTTCB
T ss_pred             HhCCCHHHeEEEcCCCHHHHHHHHHHHHHHhhccCceEEEEecccccc
Confidence            344432110  01223333312333332   44679999999987653

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=97.92  E-value=0.00016  Score=80.03  Aligned_cols=143  Identities=20%  Similarity=0.243  Sum_probs=75.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHH---HHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC---CCCHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYL---KKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT---EVKPSQIAKQG  257 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L---~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~---~~~~~~~l~~~  257 (481)
                      |-|+++|+.++||||++-.|.++-   .+.|. |-  +.+.    +.|.+ .....-|+.+.....   +...       
T Consensus        14 RNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~-v~--~~~~----~~D~~-~~E~eRGITI~s~~~s~~~~~~-------   78 (709)
T 4fn5_A           14 RNIGICAHVDAGKTTTTERVLFYTGVNHKLGE-VH--DGAA----TTDWM-VQEQERGITITSAAVTTFWKGS-------   78 (709)
T ss_dssp             EEEEEECCSSSCHHHHHHHHHHHHHHHHHC--------------------------------CCEEEEEECCT-------
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHhcCCCCcCce-ec--CCCc----cCCCh-HHHHHcCCeEEeeeEEEEeccC-------
Confidence            679999999999999999997543   22231 11  0011    11111 011122332221110   0000       


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCC
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKL  332 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKv  332 (481)
                        ....++|-+-||||||..+    +..|+...++++  |.+++|||+..|   |  ...+++.  ..++++ -+++||+
T Consensus        79 --~~~~~~~~iNlIDTPGHvD----F~~Ev~~aLr~~--DgavlvVDaveGV~~qT~~v~~~a~--~~~lp~-i~~iNKi  147 (709)
T 4fn5_A           79 --RGQYDNYRVNVIDTPGHVD----FTIEVERSLRVL--DGAVVVFCGTSGVEPQSETVWRQAN--KYGVPR-IVYVNKM  147 (709)
T ss_dssp             --TSCSCCEEEEEECCCSCTT----CHHHHHHHHHHC--SEEEEEEETTTCSCHHHHHHHHHHH--HHTCCE-EEEEECS
T ss_pred             --cCCCCCEEEEEEeCCCCcc----cHHHHHHHHHHh--CeEEEEEECCCCCchhHHHHHHHHH--HcCCCe-EEEEccc
Confidence              0011357789999999875    667777777765  899999999655   2  2223333  234443 5889999


Q ss_pred             CCC-CchhH-HHHHHHHhCCCe
Q 011624          333 DGD-SRGGA-ALSVKEVSGKPI  352 (481)
Q Consensus       333 D~~-~~~g~-~~~~~~~~glPV  352 (481)
                      |.. ..... +..+...++..+
T Consensus       148 Dr~~a~~~~~~~ei~~~l~~~~  169 (709)
T 4fn5_A          148 DRQGANFLRVVEQIKKRLGHTP  169 (709)
T ss_dssp             SSTTCCHHHHHHHHHHHHCSCE
T ss_pred             cccCccHHHHHHHhhhhcccce
Confidence            964 33333 355666666544

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=97.92  E-value=3.6e-05  Score=75.26  Aligned_cols=138  Identities=20%  Similarity=0.111  Sum_probs=74.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ...|+++|.+||||||+...|.      |.+.. +...   |             |+.+......             +.
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~------g~~~~-v~~~---~-------------g~t~~~~~~~-------------~~   46 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLT------GSRQR-VGNW---A-------------GVTVERKEGQ-------------FS   46 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHH------TTCEE-EEEC---T-------------TSSSEEEEEE-------------EE
T ss_pred             ccEEEEECCCCCCHHHHHHHHh------CCCcc-cCCC---C-------------CeeEEEEEEE-------------EE
Confidence            3568889999999999998885      33321 1110   1             1111100000             01


Q ss_pred             cCCCcEEEEcCCCCccccH-----HHHHHHHh-hhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDK-----AMMDELKD-VKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~-----~~~~el~~-i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+..+.|+||||......     ..-..+.. ....-.++.+++|+|++...........+...-...-+++||+|...
T Consensus        47 ~~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~~~p~ivv~NK~Dl~~  126 (274)
T 3i8s_A           47 TTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLYLTLQLLELGIPCIVALNMLDIAE  126 (274)
T ss_dssp             CSSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGGHHHHHHHHHHHHHHTCCEEEEEECHHHHH
T ss_pred             eCCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCChHHHHHHHHHHHhcCCCEEEEEECccchh
Confidence            1356799999999754321     11111111 11123568899999996654433333333221223558899999533


Q ss_pred             ch---hHHHHHHHHhCCCeEEee
Q 011624          337 RG---GAALSVKEVSGKPIKLVG  356 (481)
Q Consensus       337 ~~---g~~~~~~~~~glPV~~ig  356 (481)
                      ..   .....+....|.|+..+.
T Consensus       127 ~~~~~~~~~~l~~~lg~~~i~~S  149 (274)
T 3i8s_A          127 KQNIRIEIDALSARLGCPVIPLV  149 (274)
T ss_dssp             HTTEEECHHHHHHHHTSCEEECC
T ss_pred             hhhHHHHHHHHHHhcCCCEEEEE
Confidence            21   234556677899985443

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=97.91  E-value=2.8e-05  Score=75.44  Aligned_cols=137  Identities=22%  Similarity=0.271  Sum_probs=75.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..|+++|.+||||||+...|.      |.+.. +.  .+ |             |+.+......             +..
T Consensus         6 ~kI~lvG~~nvGKTsL~n~l~------g~~~~-~~--~~-p-------------g~tv~~~~~~-------------~~~   49 (258)
T 3a1s_A            6 VKVALAGCPNVGKTSLFNALT------GTKQY-VA--NW-P-------------GVTVEKKEGV-------------FTY   49 (258)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH------TTCEE-EE--EC-T-------------TSCCEEEEEE-------------EEE
T ss_pred             eEEEEECCCCCCHHHHHHHHH------CCCCc-cc--CC-C-------------CceEEEEEEE-------------EEE
Confidence            468889999999999998885      33322 10  11 1             1111100000             012


Q ss_pred             CCCcEEEEcCCCCccccHHHHHH-HH-hhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCch---
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDE-LK-DVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRG---  338 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~e-l~-~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~---  338 (481)
                      .++.+.|+||||..........+ +. .....-.++.+++|+|++...........+...-...-+++||+|.....   
T Consensus        50 ~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~~~~~~~~~~l~~~~~pvilv~NK~Dl~~~~~i~  129 (258)
T 3a1s_A           50 KGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPEQSLYLLLEILEMEKKVILAMTAIDEAKKTGMK  129 (258)
T ss_dssp             TTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSCHHHHHHHHHHHTTTCCEEEEEECHHHHHHTTCC
T ss_pred             CCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCchhhHHHHHHHHHhcCCCEEEEEECcCCCCccchH
Confidence            35689999999975432111111 11 12211356889999999665444333333322122356899999963221   


Q ss_pred             hHHHHHHHHhCCCeEEee
Q 011624          339 GAALSVKEVSGKPIKLVG  356 (481)
Q Consensus       339 g~~~~~~~~~glPV~~ig  356 (481)
                      .....+....|.|+..+.
T Consensus       130 ~~~~~l~~~lg~~vi~~S  147 (258)
T 3a1s_A          130 IDRYELQKHLGIPVVFTS  147 (258)
T ss_dssp             BCHHHHHHHHCSCEEECC
T ss_pred             HHHHHHHHHcCCCEEEEE
Confidence            124567778899985444

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=97.87  E-value=0.0015  Score=68.21  Aligned_cols=144  Identities=13%  Similarity=0.145  Sum_probs=79.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHH--HHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQI--AKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~--l~~~  257 (481)
                      +..+++++|.+|+||||++.++|...+. .|.+|++++...-.......  ..+...+++...... .+.+.+.  +..+
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE~~~~~l~~R--~~~~~~~i~~~~l~~g~l~~~~~~~~~~a  276 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLEMPAAQLTLR--MMCSEARIDMNRVRLGQLTDRDFSRLVDV  276 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSSCHHHHHHH--HHHHHTTCCTTTCCGGGCCHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHH--HHHHHcCCCHHHHhCCCCCHHHHHHHHHH
Confidence            3569999999999999999999998886 58999999998543222222  223344554322211 2333332  2334


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-----c--h-------H---HHHHHHHHhhh
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-----T--G-------Q---EAAALVTTFNI  320 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-----~--~-------~---~~~~~~~~f~~  320 (481)
                      +..+.  ...+.+.|+++..  -..+...+..+.....  .-++|+|..     .  +       +   .....++.+..
T Consensus       277 ~~~l~--~~~l~i~d~~~~s--~~~l~~~~~~l~~~~~--~~lIvID~l~~~~~~~~~~~~~~r~~~i~~i~~~Lk~lAk  350 (444)
T 2q6t_A          277 ASRLS--EAPIYIDDTPDLT--LMEVRARARRLVSQNQ--VGLIIIDYLQLMSGPGSGKSGENRQQEIAAISRGLKALAR  350 (444)
T ss_dssp             HHHHH--TSCEEEECCTTCB--HHHHHHHHHHHHHHSC--CCEEEEECGGGCBCC-------CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHh--cCCEEEECCCCCC--HHHHHHHHHHHHHHcC--CCEEEEcChhhcCCCcCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            44442  3456666766442  1223333434433222  336777751     1  1       0   11222344455


Q ss_pred             cCCeeEEEEcCCC
Q 011624          321 EIGITGAILTKLD  333 (481)
Q Consensus       321 ~~~i~GvIlnKvD  333 (481)
                      ..++..++++.+.
T Consensus       351 e~~v~vi~lsql~  363 (444)
T 2q6t_A          351 ELGIPIIALSQLS  363 (444)
T ss_dssp             HHTSCEEEEEECC
T ss_pred             HhCCeEEEEecCC
Confidence            6677777777764

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=97.85  E-value=0.00011  Score=66.50  Aligned_cols=23  Identities=35%  Similarity=0.466  Sum_probs=19.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +...|+++|.+||||||+...|.
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~   69 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLT   69 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            34578889999999999998875

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=97.85  E-value=6.5e-05  Score=74.48  Aligned_cols=120  Identities=18%  Similarity=0.218  Sum_probs=63.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +...++++|++|+||||+...|.      |.++..++..++   .     +.....+  ++                   
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~------g~~~~i~s~~~~---t-----Tr~~~~g--i~-------------------   51 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLL------GQKISITSRKAQ---T-----TRHRIVG--IH-------------------   51 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHH------TCSEEECCCCSS---C-----CSSCEEE--EE-------------------
T ss_pred             cCCEEEEECCCCCCHHHHHHHHH------CCCccccCCCCC---c-----ceeeEEE--EE-------------------
Confidence            34589999999999999998886      566654332221   0     0000011  11                   


Q ss_pred             HcCCCcEEEEcCCCCc-cccHHHHHHHHhh-hhcc-CCceEEEEEeCcch-HHHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          262 KKKNVDVVIVDTAGRL-QIDKAMMDELKDV-KRVL-NPTEVLLVVDAMTG-QEAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~-~~d~~~~~el~~i-~~~~-~p~~vvLVvda~~~-~~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ...++.++++||||.. .....+-..+... ...+ ..+.+++|+|+..- ......++.....-.+.-+++||+|...
T Consensus        52 ~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~~~~~~~~i~~~l~~~~~P~ilvlNK~D~~~  130 (301)
T 1ega_A           52 TEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLREGKAPVILAVNKVDNVQ  130 (301)
T ss_dssp             EETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTCCCHHHHHHHHHHHSSSSCEEEEEESTTTCC
T ss_pred             EECCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCCCCHHHHHHHHHHHhcCCCEEEEEECcccCc
Confidence            1245679999999975 2111121122111 1111 24667888998321 1111222222221234558889999765

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=97.83  E-value=0.00017  Score=72.90  Aligned_cols=128  Identities=9%  Similarity=0.114  Sum_probs=74.9

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      ..|.+++++ ..       +..+++++|.+|+||||++.++|..++..|.+|++++.+.-.......  ..+...+++..
T Consensus        34 ~~LD~~~gG-l~-------~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSlEms~~ql~~R--lls~~~~v~~~  103 (338)
T 4a1f_A           34 VQLDNYTSG-FN-------KGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSLEMSAEQLALR--ALSDLTSINMH  103 (338)
T ss_dssp             HHHHHHHCS-BC-------TTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEESSSCHHHHHHH--HHHHHHCCCHH
T ss_pred             hHHHHHhcC-CC-------CCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHH--HHHHhhCCCHH
Confidence            355666653 22       356999999999999999999999999899999999998653332222  22333344432


Q ss_pred             cCC-CCCCHHHH--HHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          243 TAG-TEVKPSQI--AKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       243 ~~~-~~~~~~~~--l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      ... ..+...+.  +..+...+.  +..+.|.|+|+..  -..+.+.+..+.... +..-++|||.
T Consensus       104 ~l~~g~Ls~~e~~~l~~a~~~l~--~~~l~I~d~~~~s--i~~i~~~ir~l~~~~-gg~~lIVIDy  164 (338)
T 4a1f_A          104 DLESGRLDDDQWENLAKCFDHLS--QKKLFFYDKSYVR--IEQIRLQLRKLKSQH-KELGIAFIDY  164 (338)
T ss_dssp             HHHHTCCCHHHHHHHHHHHHHHH--HSCEEEECCTTCC--HHHHHHHHHHHHHHC-TTEEEEEEEE
T ss_pred             HHhcCCCCHHHHHHHHHHHHHHh--cCCeEEeCCCCCc--HHHHHHHHHHHHHhc-CCCCEEEEec
Confidence            111 12333332  233444442  3467788887642  123333343333321 1345888886

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=97.83  E-value=1.6e-05  Score=85.07  Aligned_cols=146  Identities=19%  Similarity=0.222  Sum_probs=74.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH---HcCCeEEEEec-cCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLK---KQGKSCMLVAG-DVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~---~~G~kVlLId~-D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l  258 (481)
                      .+.|+++|.+|+||||++.+|..+-.   +.|.    ++. +..+....+.. ......|+.+.....            
T Consensus        13 ~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~----v~~~~~~~~~~~d~~-~~e~~~GiTi~~~~~------------   75 (528)
T 3tr5_A           13 RRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGT----IKSRKAARHATSDWM-ELEKQRGISVTTSVM------------   75 (528)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHH----HHTC----CCHHHHH-HHHHHHCCSSSSSEE------------
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhhcCCccccee----eeccccccceecccc-hhhhcCCeeEEEeEE------------
Confidence            46889999999999999999863211   0000    000 00000111111 111122333221100            


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHhh-hcCCeeEEEEcCCCCC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFN-IEIGITGAILTKLDGD  335 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~-~~~~i~GvIlnKvD~~  335 (481)
                       .+...++.+.||||||......    +......  ..+.+++|+|+..+.  .......... .++ ..-+++||+|..
T Consensus        76 -~~~~~~~~i~liDTPG~~df~~----~~~~~l~--~aD~allVvDa~~g~~~~t~~~~~~~~~~~i-PiivviNK~Dl~  147 (528)
T 3tr5_A           76 -QFPYKDYLINLLDTPGHADFTE----DTYRTLT--AVDSALMVIDAAKGVEPRTIKLMEVCRLRHT-PIMTFINKMDRD  147 (528)
T ss_dssp             -EEEETTEEEEEECCCCSTTCCH----HHHHGGG--GCSEEEEEEETTTCSCHHHHHHHHHHHTTTC-CEEEEEECTTSC
T ss_pred             -EEEeCCEEEEEEECCCchhHHH----HHHHHHH--hCCEEEEEEeCCCCCCHHHHHHHHHHHHcCC-CEEEEEeCCCCc
Confidence             0113567899999999764322    2222222  348899999996542  2222222222 123 345889999964


Q ss_pred             C-ch-hHHHHHHHHhCCCeE
Q 011624          336 S-RG-GAALSVKEVSGKPIK  353 (481)
Q Consensus       336 ~-~~-g~~~~~~~~~glPV~  353 (481)
                      . .. ..+..+....+.++.
T Consensus       148 ~~~~~~~l~ei~~~l~~~~~  167 (528)
T 3tr5_A          148 TRPSIELLDEIESILRIHCA  167 (528)
T ss_dssp             CSCHHHHHHHHHHHHCCEEE
T ss_pred             cccHHHHHHHHHHhhCCCce
Confidence            3 22 334556667776543

>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=97.83  E-value=5.7e-05  Score=71.19  Aligned_cols=52  Identities=23%  Similarity=0.268  Sum_probs=40.0

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH------cCCeEEEEeccC
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK------QGKSCMLVAGDV  221 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~------~G~kVlLId~D~  221 (481)
                      ..|.++++++..       ++.+++++|++|+||||++..|+.....      .+.+|++++.+.
T Consensus        11 ~~LD~~l~ggi~-------~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~   68 (243)
T 1n0w_A           11 KELDKLLQGGIE-------TGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEG   68 (243)
T ss_dssp             HHHHHHTTTSEE-------TTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSS
T ss_pred             hHHHHhhcCCCc-------CCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCC
Confidence            356677765443       4569999999999999999999975332      367899998875

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=97.82  E-value=5.3e-05  Score=74.17  Aligned_cols=137  Identities=21%  Similarity=0.108  Sum_probs=73.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ...|+++|.+||||||+...|.      |.+..        .+         ...|+.+......             +.
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~------g~~~~--------v~---------~~pg~tv~~~~~~-------------~~   46 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLIT------GHNQR--------VG---------NWPGVTVERKSGL-------------VK   46 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH------CCCCC--------CC---------SSSCCCCSCEEEE-------------CT
T ss_pred             ceEEEEECCCCCCHHHHHHHHH------CCCCc--------cc---------CCCCCcEEEEEEE-------------Ee
Confidence            3568899999999999998885      32210        00         0112211100000             01


Q ss_pred             cCCCcEEEEcCCCCccccHHHH-HHHHh-hhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCch--
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMM-DELKD-VKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRG--  338 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~-~el~~-i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~--  338 (481)
                      . +.++.|+||||......... ..+.. ....-.++.+++|+|++...........+...-...-+++||+|.....  
T Consensus        47 ~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~e~~~~~~~~l~~~~~p~ilv~NK~Dl~~~~~~  125 (272)
T 3b1v_A           47 K-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATNLERNLYLTTQLIETGIPVTIALNMIDVLDGQGK  125 (272)
T ss_dssp             T-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGHHHHHHHHHHHHHTCSCEEEEEECHHHHHHTTC
T ss_pred             c-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCchHhHHHHHHHHHhcCCCEEEEEEChhhCCcCCc
Confidence            2 56799999999754321101 11111 1111246889999999765443333333322112345889999963221  


Q ss_pred             -hHHHHHHHHhCCCeEEee
Q 011624          339 -GAALSVKEVSGKPIKLVG  356 (481)
Q Consensus       339 -g~~~~~~~~~glPV~~ig  356 (481)
                       .....+....|.|+..+.
T Consensus       126 ~~~~~~l~~~lg~~vi~~S  144 (272)
T 3b1v_A          126 KINVDKLSYHLGVPVVATS  144 (272)
T ss_dssp             CCCHHHHHHHHTSCEEECB
T ss_pred             HHHHHHHHHHcCCCEEEEE
Confidence             233556677899985444

>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=97.82  E-value=6.5e-05  Score=68.04  Aligned_cols=86  Identities=19%  Similarity=0.181  Sum_probs=54.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +..+++.|++|+||||++..++..+. ..|.+|.++++..+    .+.+........         ..      ..+..+
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~----~~~~~~~~~~~~---------~~------~~~~~~   98 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDL----IFRLKHLMDEGK---------DT------KFLKTV   98 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHH----HHHHHHHHHHTC---------CS------HHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHH----HHHHHHHhcCch---------HH------HHHHHh
Confidence            56889999999999999999999887 77988887765432    222211111000         00      223333


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHh
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKD  289 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~  289 (481)
                        .+++++|+|-++....+......+..
T Consensus        99 --~~~~llilDE~~~~~~~~~~~~~l~~  124 (180)
T 3ec2_A           99 --LNSPVLVLDDLGSERLSDWQRELISY  124 (180)
T ss_dssp             --HTCSEEEEETCSSSCCCHHHHHHHHH
T ss_pred             --cCCCEEEEeCCCCCcCCHHHHHHHHH
Confidence              46899999999854444443344433

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=97.78  E-value=6.1e-05  Score=74.33  Aligned_cols=72  Identities=21%  Similarity=0.252  Sum_probs=38.6

Q ss_pred             CCcEEEEcCCCCcccc---------HHHHHHHHhhhhccCCceEEEEEeC-cch---HHHHHHHHHhhhcCCeeEEEEcC
Q 011624          265 NVDVVIVDTAGRLQID---------KAMMDELKDVKRVLNPTEVLLVVDA-MTG---QEAAALVTTFNIEIGITGAILTK  331 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d---------~~~~~el~~i~~~~~p~~vvLVvda-~~~---~~~~~~~~~f~~~~~i~GvIlnK  331 (481)
                      .++++|+||||.....         ..+........  ..++.+++|+|+ ..+   .+....++.+...-...-+|+||
T Consensus       130 ~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~--~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~~i~v~NK  207 (315)
T 1jwy_B          130 VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYI--KKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITK  207 (315)
T ss_dssp             SCSEEEEECCCCC---------CSHHHHHHHHHHHH--HSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEEEEEEC
T ss_pred             CCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHH--cCCCeEEEEEEecCcchhhhHHHHHHHHhCCCCCcEEEEEcC
Confidence            4689999999975311         11222221122  235778888886 322   22234444443322335588999


Q ss_pred             CCCCCch
Q 011624          332 LDGDSRG  338 (481)
Q Consensus       332 vD~~~~~  338 (481)
                      +|.....
T Consensus       208 ~Dl~~~~  214 (315)
T 1jwy_B          208 LDLMDKG  214 (315)
T ss_dssp             TTSSCSS
T ss_pred             cccCCcc
Confidence            9975443

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=97.77  E-value=4.7e-05  Score=75.60  Aligned_cols=117  Identities=21%  Similarity=0.205  Sum_probs=62.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..++++|.+||||||++..|.      |.++..++..+   ..     +.....+  ++                   ..
T Consensus         8 g~V~ivG~~nvGKSTLln~l~------g~~~~ivs~~~---~t-----Tr~~i~~--i~-------------------~~   52 (301)
T 1wf3_A            8 GFVAIVGKPNVGKSTLLNNLL------GVKVAPISPRP---QT-----TRKRLRG--IL-------------------TE   52 (301)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH------TSCCSCCCSSS---CC-----CCSCEEE--EE-------------------EE
T ss_pred             CEEEEECCCCCCHHHHHHHHh------CCceeeecCCC---Cc-----eeEEEEE--EE-------------------Ee
Confidence            468899999999999998886      44443221111   10     0000000  00                   12


Q ss_pred             CCCcEEEEcCCCCccccHH----HHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhhc--CCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKA----MMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIE--IGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~----~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~--~~i~GvIlnKvD~~  335 (481)
                      .++.++|+||||.......    +.......  ....+.+++|+|++.+  .............  -...-+|+||+|..
T Consensus        53 ~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~--l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~~~~p~ilV~NK~Dl~  130 (301)
T 1wf3_A           53 GRRQIVFVDTPGLHKPMDALGEFMDQEVYEA--LADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNKLDAA  130 (301)
T ss_dssp             TTEEEEEEECCCCCCCCSHHHHHHHHHHHHH--TSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSCEEEEEECGGGC
T ss_pred             CCcEEEEecCccccchhhHHHHHHHHHHHHH--HhcCCEEEEEEECCCCCChHHHHHHHHHHhhcCCCCEEEEEECcccC
Confidence            4678999999997643211    11221111  2245889999998543  1111112222221  12356899999975


Q ss_pred             Cc
Q 011624          336 SR  337 (481)
Q Consensus       336 ~~  337 (481)
                      ..
T Consensus       131 ~~  132 (301)
T 1wf3_A          131 KY  132 (301)
T ss_dssp             SS
T ss_pred             Cc
Confidence            44

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.76  E-value=4e-06  Score=77.75  Aligned_cols=27  Identities=44%  Similarity=0.652  Sum_probs=24.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQG  211 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G  211 (481)
                      +++++|++|+||||+...|+..+...|
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~~~G   29 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLKSSG   29 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCChHHHHHHHHHhhcccCC
Confidence            688999999999999999999888667

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.73  E-value=7e-05  Score=71.24  Aligned_cols=101  Identities=11%  Similarity=0.097  Sum_probs=60.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe--ccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA--GDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId--~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~  259 (481)
                      +..+++++|+.|+||||.+..++..+..+|.+|+++.  .|. | +. .   ......|+...... .....++. +.+.
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~-r-~~-~---~i~srlG~~~~~~~-~~~~~~i~-~~i~   82 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDT-R-SI-R---NIQSRTGTSLPSVE-VESAPEIL-NYIM   82 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCG-G-GC-S---SCCCCCCCSSCCEE-ESSTHHHH-HHHH
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCc-h-HH-H---HHHHhcCCCccccc-cCCHHHHH-HHHH
Confidence            4679999999999999999999999999999999883  332 2 21 1   12333444322111 11222222 2221


Q ss_pred             H-HHcCCCcEEEEcCCCCccccHHHHHHHHhhhh
Q 011624          260 E-AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKR  292 (481)
Q Consensus       260 ~-~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~  292 (481)
                      . .....+|+|+||-.-.+.  ......+..+..
T Consensus        83 ~~~~~~~~dvViIDEaQ~l~--~~~ve~l~~L~~  114 (223)
T 2b8t_A           83 SNSFNDETKVIGIDEVQFFD--DRICEVANILAE  114 (223)
T ss_dssp             STTSCTTCCEEEECSGGGSC--THHHHHHHHHHH
T ss_pred             HHhhCCCCCEEEEecCccCc--HHHHHHHHHHHh
Confidence            1 112459999999986653  234445544443

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=97.72  E-value=0.00011  Score=69.70  Aligned_cols=89  Identities=20%  Similarity=0.247  Sum_probs=45.8

Q ss_pred             CCCcEEEEcCCCCccc---cHHHHHHHHhhhhc--cCCceEEEEEeCcc--hH--HHHHHH-HHhhhc-CCeeEEEEcCC
Q 011624          264 KNVDVVIVDTAGRLQI---DKAMMDELKDVKRV--LNPTEVLLVVDAMT--GQ--EAAALV-TTFNIE-IGITGAILTKL  332 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~--~~p~~vvLVvda~~--~~--~~~~~~-~~f~~~-~~i~GvIlnKv  332 (481)
                      .+..+.|+||||....   +.....++......  ..++.+++|+|+..  ..  .....+ ..|... ....-+|+||+
T Consensus        76 ~~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~  155 (239)
T 3lxx_A           76 KETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGERARSFMILIFTRK  155 (239)
T ss_dssp             TTEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHHHGGGEEEEEECG
T ss_pred             CCceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhhccceEEEEEeCC
Confidence            3557899999997643   12223344333322  24588899999732  11  122222 223221 12456899999


Q ss_pred             CCCCc--h--------hHHHHHHHHhCCCe
Q 011624          333 DGDSR--G--------GAALSVKEVSGKPI  352 (481)
Q Consensus       333 D~~~~--~--------g~~~~~~~~~glPV  352 (481)
                      |....  .        ..+..+.+.++.++
T Consensus       156 D~~~~~~~~~~i~~~~~~l~~l~~~~~~~~  185 (239)
T 3lxx_A          156 DDLGDTNLHDYLREAPEDIQDLMDIFGDRY  185 (239)
T ss_dssp             GGC------------CHHHHHHHHHHSSSE
T ss_pred             ccCCcccHHHHHHhchHHHHHHHHHcCCEE
Confidence            95322  1        13445556666654

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=97.70  E-value=0.00021  Score=73.69  Aligned_cols=128  Identities=18%  Similarity=0.174  Sum_probs=67.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh-HHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA-AIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~-aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ...|+++|..|+||||++..|...+.+.|...      .|... ..+.. ......|+.+.....             .+
T Consensus        11 ~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~------~~~~~~~~d~~-~~e~~~GiTi~~~~~-------------~~   70 (405)
T 2c78_A           11 HVNVGTIGHVDHGKTTLTAALTYVAAAENPNV------EVKDYGDIDKA-PEERARGITINTAHV-------------EY   70 (405)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHHHSCTTS------CCCCHHHHSCS-HHHHHHTCCCSCEEE-------------EE
T ss_pred             eEEEEEEcCCCCCHHHHHHHHHhhhhhcCccc------cccchhhccCC-HHHHHcCCCEEeeee-------------Ee
Confidence            35688899999999999999988777766420      11110 11111 001112322211000             00


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhh-hcCCeeEEEEcCCCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFN-IEIGITGAILTKLDGDS  336 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~-~~~~i~GvIlnKvD~~~  336 (481)
                      ...++.+.|+||||....    ...+....  ...+.+++|+|+..+  ....+.+.... ..++..-+++||+|...
T Consensus        71 ~~~~~~~~iiDtpG~~~f----~~~~~~~~--~~aD~~ilVvda~~g~~~qt~~~l~~~~~~~ip~iivviNK~Dl~~  142 (405)
T 2c78_A           71 ETAKRHYSHVDCPGHADY----IKNMITGA--AQMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMVD  142 (405)
T ss_dssp             ECSSCEEEEEECCCSGGG----HHHHHHHH--TTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGGCC
T ss_pred             ccCCeEEEEEECCChHHH----HHHHHHHH--HHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEEEEEECccccC
Confidence            124678999999997542    22222222  245889999999544  12222222111 12231347899999753

>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=97.69  E-value=6.4e-05  Score=68.74  Aligned_cols=40  Identities=28%  Similarity=0.255  Sum_probs=36.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..+++++|++|+||||++..|+..+..+|++|..+..|+.
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~~g~~v~~i~~~~~   45 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHH   45 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccccCCceeEEeeCCC
Confidence            3588999999999999999999999999999999998763

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.69  E-value=0.00031  Score=67.55  Aligned_cols=43  Identities=30%  Similarity=0.553  Sum_probs=35.2

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~  225 (481)
                      ...|.+|+++|++|+||||++..|+..+   +..+.+++.|.+|..
T Consensus        29 ~~~~~~i~l~G~~GsGKSTla~~L~~~l---~~~~~~~~~D~~r~~   71 (253)
T 2p5t_B           29 SKQPIAILLGGQSGAGKTTIHRIKQKEF---QGNIVIIDGDSFRSQ   71 (253)
T ss_dssp             CSSCEEEEEESCGGGTTHHHHHHHHHHT---TTCCEEECGGGGGTT
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHhc---CCCcEEEecHHHHHh
Confidence            3467899999999999999999998765   345678999998743

>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=97.68  E-value=0.00028  Score=61.35  Aligned_cols=85  Identities=18%  Similarity=0.139  Sum_probs=47.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhh--cCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNI--EIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~--~~~i~GvIlnKvD~~  335 (481)
                      ..+++.++||||...... .....   ..  ..+.+++|+|.....+.   .   ..+..+..  ..+ .-+|+||+|..
T Consensus        49 ~~~~~~~~D~~G~~~~~~-~~~~~---~~--~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p-~iiv~nK~Dl~  121 (166)
T 2ce2_X           49 ETCLLDILDTAGQEEYSA-MRDQY---MR--TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVP-MVLVGNKSDLA  121 (166)
T ss_dssp             EEEEEEEEECCCCSSCCH-HHHHH---HH--HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCC-EEEEEECTTCS
T ss_pred             EEEEEEEEECCCchhhhH-HHHHh---hc--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEEchhhh
Confidence            356789999999753222 22211   11  23778999998654322   1   22222222  233 45899999954


Q ss_pred             C---chhHHHHHHHHhCCCeEEe
Q 011624          336 S---RGGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       336 ~---~~g~~~~~~~~~glPV~~i  355 (481)
                      .   ....+..++...+.|+..+
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~  144 (166)
T 2ce2_X          122 ARTVESRQAQDLARSYGIPYIET  144 (166)
T ss_dssp             CCCSCHHHHHHHHHHHTCCEEEE
T ss_pred             hcccCHHHHHHHHHHcCCeEEEe
Confidence            3   2344466677778887433

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=97.68  E-value=0.00012  Score=65.05  Aligned_cols=88  Identities=16%  Similarity=0.089  Sum_probs=46.0

Q ss_pred             CCcEEEEcCCCCccccHH-HHHHHH-hhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCc---hh
Q 011624          265 NVDVVIVDTAGRLQIDKA-MMDELK-DVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSR---GG  339 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~-~~~el~-~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~---~g  339 (481)
                      +..+.++||||....... ....+. .......++.+++|+|+............+...-...-+|.||+|....   ..
T Consensus        49 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~  128 (165)
T 2wji_A           49 GEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATALERNLYLTLQLMEMGANLLLALNKMDLAKSLGIEI  128 (165)
T ss_dssp             TEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCHHHHHHHHHHHHHTTCCEEEEEECHHHHHHTTCCC
T ss_pred             CcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCchhHhHHHHHHHHhcCCCEEEEEEchHhccccChhh
Confidence            456899999997543110 001111 1111124688899999965443333333332211234588999995321   11


Q ss_pred             HHHHHHHHhCCCe
Q 011624          340 AALSVKEVSGKPI  352 (481)
Q Consensus       340 ~~~~~~~~~glPV  352 (481)
                      ....++...+.|+
T Consensus       129 ~~~~~~~~~~~~~  141 (165)
T 2wji_A          129 DVDKLEKILGVKV  141 (165)
T ss_dssp             CHHHHHHHHTSCE
T ss_pred             HHHHHHHHhCCCE
Confidence            2345566667766

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.67  E-value=5.3e-05  Score=74.67  Aligned_cols=65  Identities=25%  Similarity=0.465  Sum_probs=49.1

Q ss_pred             CCChhHHHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          150 GVRPDQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       150 ~~~~~~~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+++ +++.+++.+.+..+++...     ...+|.+|+++|++||||||++..|+..+.   .....|++|.+|
T Consensus         6 ~~s~-~~~~~~~~~~~~~~l~~~~-----~~~~~~livl~G~sGsGKSTla~~L~~~~~---~~~~~Is~D~~R   70 (287)
T 1gvn_B            6 NFTD-KQFENRLNDNLEELIQGKK-----AVESPTAFLLGGQPGSGKTSLRSAIFEETQ---GNVIVIDNDTFK   70 (287)
T ss_dssp             CCCH-HHHHHHHHHHHHHHHTTCC-----CCSSCEEEEEECCTTSCTHHHHHHHHHHTT---TCCEEECTHHHH
T ss_pred             CCCH-HHHHHHHHHHHHHHhcccc-----CCCCCeEEEEECCCCCCHHHHHHHHHHHhC---CCeEEEechHhH
Confidence            3455 5667788888888887532     234688999999999999999999986542   245778999876

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=97.65  E-value=0.00054  Score=69.35  Aligned_cols=88  Identities=22%  Similarity=0.256  Sum_probs=53.9

Q ss_pred             HCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHH---------HHHHHHHhcCccccccccCCCCEEEEEEcCCC
Q 011624          123 EADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIV---------RDELVKLMGGEVSELVFAKSRPTVILLAGLQG  193 (481)
Q Consensus       123 ~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l---------~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~G  193 (481)
                      ..+++..-+.++++...+....    .+......+.+..         ...|..+|+++..       +..++.++|++|
T Consensus        73 ~~~~s~~~~~~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~isTG~~~LD~lL~ggi~-------~G~i~~I~G~~G  141 (349)
T 1pzn_A           73 VAGISEGTALKIIQAARKAANL----GTFMRADEYLKKRATIGRISTGSKSLDKLLGGGIE-------TQAITEVFGEFG  141 (349)
T ss_dssp             HHCCCHHHHHHHHHHHHHHCST----TSCEEHHHHHHHHHTCCEECCSCHHHHHHHTSSEE-------SSEEEEEEESTT
T ss_pred             hcCCCHHHHHHHHHHHhhhccc----cCCccHHHHHhhhccCCeecCCCHHHHHHhcCCCC-------CCeEEEEECCCC
Confidence            3566666666666665544311    0112222222111         1346666665443       568999999999


Q ss_pred             CCHHHHHHHHHHHHHH---c---CCeEEEEeccC
Q 011624          194 VGKTTVSAKLANYLKK---Q---GKSCMLVAGDV  221 (481)
Q Consensus       194 vGKTTta~~LA~~L~~---~---G~kVlLId~D~  221 (481)
                      +||||++..++..+..   .   |-+|++|+...
T Consensus       142 sGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~  175 (349)
T 1pzn_A          142 SGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN  175 (349)
T ss_dssp             SSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             CCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCC
Confidence            9999999999887642   2   35888888764

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.65  E-value=0.00017  Score=68.07  Aligned_cols=52  Identities=27%  Similarity=0.358  Sum_probs=40.5

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHH-HHcCCeEEEEeccCC
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYL-KKQGKSCMLVAGDVY  222 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L-~~~G~kVlLId~D~~  222 (481)
                      .|.++++++..       ++.+++++|.+|+||||++.++|... .+.|.+|++++.+.-
T Consensus        18 ~LD~~l~GGl~-------~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~   70 (251)
T 2zts_A           18 GFDELIEGGFP-------EGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEER   70 (251)
T ss_dssp             TTGGGTTTSEE-------TTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSC
T ss_pred             HHHHhhcCCCC-------CCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCC
Confidence            34555655443       45799999999999999999998764 566899999998854

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=97.63  E-value=0.00065  Score=66.51  Aligned_cols=40  Identities=25%  Similarity=0.239  Sum_probs=35.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~  221 (481)
                      +..+++++|++|+||||++..|+..+... |.+|++++.+.
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~e~   74 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEE   74 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeCcC
Confidence            45699999999999999999999988765 88999998875

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=97.63  E-value=0.0002  Score=62.42  Aligned_cols=70  Identities=19%  Similarity=0.193  Sum_probs=37.4

Q ss_pred             CCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcchH-HH-HHHHHHhh-hcCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-EA-AALVTTFN-IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~~-~~-~~~~~~f~-~~~~i~GvIlnKvD~~~~  337 (481)
                      +..+.|+||||....   ............  ...+.+++|+|+.... .. ........ ... ..-+|.||+|....
T Consensus        48 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~--~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-p~ilv~nK~Dl~~~  123 (161)
T 2dyk_A           48 RGRFLLVDTGGLWSGDKWEKKIQEKVDRAL--EDAEVVLFAVDGRAELTQADYEVAEYLRRKGK-PVILVATKVDDPKH  123 (161)
T ss_dssp             TEEEEEEECGGGCSSSSCCHHHHHHHHHHT--TTCSEEEEEEESSSCCCHHHHHHHHHHHHHTC-CEEEEEECCCSGGG
T ss_pred             CceEEEEECCCCCCccchHHHHHHHHHHHH--HhCCEEEEEEECCCcccHhHHHHHHHHHhcCC-CEEEEEECcccccc
Confidence            457899999997642   111222222122  2357889999985431 11 11112121 223 34689999997543

>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=97.63  E-value=0.00027  Score=62.63  Aligned_cols=82  Identities=18%  Similarity=0.126  Sum_probs=45.5

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---H---HHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---A---LVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~---~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||..........    ...  ..+.+++|+|+....+..   .   .+......-...-+|+||+|.... 
T Consensus        63 ~~~~~l~Dt~G~~~~~~~~~~----~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  136 (179)
T 1z0f_A           63 KIKLQIWDTAGQERFRAVTRS----YYR--GAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQR  136 (179)
T ss_dssp             EEEEEEEECTTGGGTCHHHHH----HHH--TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC
T ss_pred             EEEEEEEECCCChHhhhhHHH----Hhc--cCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc
Confidence            467899999996432221111    111  347889999996553221   1   122222112235588999996422 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.++
T Consensus       137 ~~~~~~~~~~~~~~~~~~  154 (179)
T 1z0f_A          137 DVTYEEAKQFAEENGLLF  154 (179)
T ss_dssp             CSCHHHHHHHHHHTTCEE
T ss_pred             ccCHHHHHHHHHHcCCEE
Confidence               234455666667766

>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=97.61  E-value=0.00024  Score=66.29  Aligned_cols=40  Identities=13%  Similarity=0.115  Sum_probs=35.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +..++++|++|+||||++..++..+...|.++..++++.+
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~   91 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIH   91 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGG
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHH
Confidence            4578899999999999999999999988999999988654

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=97.61  E-value=0.00011  Score=70.45  Aligned_cols=23  Identities=26%  Similarity=0.462  Sum_probs=19.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ++.-|+++|.+||||||++..|.
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~   43 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSIL   43 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHh
Confidence            35678889999999999998885

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.60  E-value=6.9e-05  Score=68.24  Aligned_cols=43  Identities=40%  Similarity=0.661  Sum_probs=38.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .++.+|+++|.+|+||||++..|+..|...|.+|.+++.|..+
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~d~~~   53 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDGDWAR   53 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeHHHHH
Confidence            3578999999999999999999999999999999999887543

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=97.59  E-value=0.00068  Score=71.79  Aligned_cols=41  Identities=20%  Similarity=0.101  Sum_probs=37.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~  222 (481)
                      +..+++++|.+|+||||++..+|..++.+ |.+|++++.+.-
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~s  282 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEES  282 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSSC
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccCC
Confidence            45799999999999999999999999876 999999999864

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=97.59  E-value=0.00024  Score=63.91  Aligned_cols=133  Identities=19%  Similarity=0.166  Sum_probs=69.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ++..++++|.+||||||+...|+      |.+.. +.  . .|+           ..+......               .
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~------~~~~~-~~--~-~~~-----------~t~~~~~~~---------------~   49 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALT------GENVY-IG--N-WPG-----------VTVEKKEGE---------------F   49 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHH------TTCEE-EE--E-CTT-----------SCCEEEEEE---------------E
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh------CCCcc-cc--C-CCC-----------eeccceEEE---------------E
Confidence            34578899999999999998886      22211 00  0 011           011110000               0


Q ss_pred             HcCCCcEEEEcCCCCcccc-----HHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQID-----KAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d-----~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ...++.+.|+||||.....     ..+...   ......++.+++|+|+................-...-+|.||+|...
T Consensus        50 ~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~---~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  126 (188)
T 2wjg_A           50 EYNGEKFKVVDLPGVYSLTANSIDEIIARD---YIINEKPDLVVNIVDATALERNLYLTLQLMEMGANLLLALNKMDLAK  126 (188)
T ss_dssp             EETTEEEEEEECCCCSCCSSSSHHHHHHHH---HHHHHCCSEEEEEEEGGGHHHHHHHHHHHHTTTCCEEEEEECHHHHH
T ss_pred             EeCCcEEEEEECCCcCccccccHHHHHHHH---HHhccCCCEEEEEecchhHHHHHHHHHHHHhcCCCEEEEEEhhhccc
Confidence            1135678999999975431     111111   11112357789999986544333333333221123457899999532


Q ss_pred             c---hhHHHHHHHHhCCCeE
Q 011624          337 R---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 ~---~g~~~~~~~~~glPV~  353 (481)
                      .   ...+..+....+.|+.
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~  146 (188)
T 2wjg_A          127 SLGIEIDVDKLEKILGVKVV  146 (188)
T ss_dssp             HTTCCCCHHHHHHHHTSCEE
T ss_pred             cccchHHHHHHHHHhCCCeE
Confidence            1   1234556666777763

>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=97.58  E-value=0.00025  Score=66.03  Aligned_cols=52  Identities=25%  Similarity=0.369  Sum_probs=38.3

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH------cCCeEEEEeccC
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK------QGKSCMLVAGDV  221 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~------~G~kVlLId~D~  221 (481)
                      ..|..+++++..       +..+++++|++|+||||++..|+..+..      .+..+++++.+.
T Consensus        12 ~~LD~~l~ggi~-------~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~   69 (231)
T 4a74_A           12 KSLDKLLGGGIE-------TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN   69 (231)
T ss_dssp             HHHHHHTTSSEE-------SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSS
T ss_pred             hhHHhHhcCCCC-------CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCC
Confidence            355666755443       4679999999999999999999875543      245677787764

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=97.57  E-value=0.00071  Score=71.43  Aligned_cols=71  Identities=17%  Similarity=0.184  Sum_probs=33.6

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHH--Hh-hhhccCCceEEEEEeCcchH------HHHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDEL--KD-VKRVLNPTEVLLVVDAMTGQ------EAAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el--~~-i~~~~~p~~vvLVvda~~~~------~~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      .++.+.|+||||..... ......  .. ......++.+++|+|++...      ........+. . ...-+|+||+|.
T Consensus       279 ~g~~l~liDT~G~~~~~-~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~-~-~piIvV~NK~Dl  355 (476)
T 3gee_A          279 DKTMFRLTDTAGLREAG-EEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAHP-A-AKFLTVANKLDR  355 (476)
T ss_dssp             TTEEEEEEC---------------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT-T-SEEEEEEECTTS
T ss_pred             CCeEEEEEECCCCCcch-hHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhcC-C-CCEEEEEECcCC
Confidence            45679999999975321 111111  11 11223468899999985432      2223333333 2 235588999997


Q ss_pred             CCc
Q 011624          335 DSR  337 (481)
Q Consensus       335 ~~~  337 (481)
                      ...
T Consensus       356 ~~~  358 (476)
T 3gee_A          356 AAN  358 (476)
T ss_dssp             CTT
T ss_pred             CCc
Confidence            544

>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=97.57  E-value=0.00027  Score=62.07  Aligned_cols=83  Identities=18%  Similarity=0.151  Sum_probs=45.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HH---HHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AA---LVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~---~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||...........    .  ...+.+++|+|+....+.   ..   .+......-...-+|+||+|.... 
T Consensus        51 ~~~~~l~D~~G~~~~~~~~~~~----~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  124 (170)
T 1g16_A           51 KVKLQIWDTAGQERFRTITTAY----Y--RGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRV  124 (170)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHH----H--TTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTCC
T ss_pred             EEEEEEEeCCCChhhhhhHHHH----h--ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCCcCc
Confidence            4578999999964321111111    1  134778999998654322   11   122221112234589999996322 


Q ss_pred             --hhHHHHHHHHhCCCeE
Q 011624          338 --GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 --~g~~~~~~~~~glPV~  353 (481)
                        ...+..++...+.|+.
T Consensus       125 ~~~~~~~~~~~~~~~~~~  142 (170)
T 1g16_A          125 VTADQGEALAKELGIPFI  142 (170)
T ss_dssp             SCHHHHHHHHHHHTCCEE
T ss_pred             cCHHHHHHHHHHcCCeEE
Confidence              2344556667787773

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=97.57  E-value=0.00032  Score=72.15  Aligned_cols=126  Identities=18%  Similarity=0.192  Sum_probs=67.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh-HHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA-AIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~-aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      .-|+++|..|+||||++..|.....+.|..       .|... ..+.. ......|+.+-....             .+.
T Consensus         4 ~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~-------~~~~~~~~d~~-~~e~~~giTi~~~~~-------------~~~   62 (397)
T 1d2e_A            4 VNVGTIGHVDHGKTTLTAAITKILAEGGGA-------KFKKYEEIDNA-PEERARGITINAAHV-------------EYS   62 (397)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTSB-------CCCCHHHHHSC-CEEEETTEEEECEEE-------------EEE
T ss_pred             EEEEEEeCCCCCHHHHHHHHhChhhhcCcc-------ccchhhhhhcC-HHHHhcCcEEEeeeE-------------Eec
Confidence            357889999999999999998877666642       11111 11111 001112222211000             011


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhh-hcCCeeEEEEcCCCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFN-IEIGITGAILTKLDGDS  336 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~-~~~~i~GvIlnKvD~~~  336 (481)
                      ..++.+.|+||||...    ....+...  ....+.+++|+|+..+  ....+.+.... ..++..-+++||+|...
T Consensus        63 ~~~~~~~iiDtpG~~~----f~~~~~~~--~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~  133 (397)
T 1d2e_A           63 TAARHYAHTDCPGHAD----YVKNMITG--TAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAVQ  133 (397)
T ss_dssp             CSSCEEEEEECSSHHH----HHHHHHHT--SSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCS
T ss_pred             cCCeEEEEEECCChHH----HHHHHHhh--HhhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCeEEEEEECcccCC
Confidence            2467899999999642    33333222  2346889999999653  11122221111 12332247899999753

>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=97.54  E-value=0.00012  Score=64.19  Aligned_cols=82  Identities=17%  Similarity=0.155  Sum_probs=45.5

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HH---HHHHhhhcCCeeEEEEcCCCCCC--
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AA---LVTTFNIEIGITGAILTKLDGDS--  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~---~~~~f~~~~~i~GvIlnKvD~~~--  336 (481)
                      .+.+.|+||||...... ....   ..  ...+.+++|+|+....+.   ..   .+.......+ .-+|+||+|...  
T Consensus        53 ~~~~~l~Dt~G~~~~~~-~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p-iilv~nK~Dl~~~~  125 (168)
T 1z2a_A           53 DVRLMLWDTAGQEEFDA-ITKA---YY--RGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIP-TALVQNKIDLLDDS  125 (168)
T ss_dssp             EEEEEEECCTTGGGTTC-CCHH---HH--TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCC-EEEEEECGGGGGGC
T ss_pred             EEEEEEEcCCCcHhHHH-HHHH---Hh--cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECcccCccc
Confidence            46799999999643211 1111   11  134788999998654322   11   1222222333 458999999532  


Q ss_pred             --chhHHHHHHHHhCCCeE
Q 011624          337 --RGGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 --~~g~~~~~~~~~glPV~  353 (481)
                        ....+..++...+.|+.
T Consensus       126 ~~~~~~~~~~~~~~~~~~~  144 (168)
T 1z2a_A          126 CIKNEEAEGLAKRLKLRFY  144 (168)
T ss_dssp             SSCHHHHHHHHHHHTCEEE
T ss_pred             ccCHHHHHHHHHHcCCeEE
Confidence              23444566667777763

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=97.53  E-value=0.00047  Score=62.12  Aligned_cols=82  Identities=16%  Similarity=0.097  Sum_probs=45.5

Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhhhcC-CeeEEEEcCCCCCC---ch
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFNIEI-GITGAILTKLDGDS---RG  338 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~~~~-~i~GvIlnKvD~~~---~~  338 (481)
                      +.+.|+||||...... ....   ..  ...+.+++|+|+.......   ..+..+.... ...-+|+||+|...   ..
T Consensus        93 ~~~~i~Dt~G~~~~~~-~~~~---~~--~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~piilv~NK~D~~~~~~~~  166 (208)
T 3clv_A           93 IKFDIWDTAGQERYAS-IVPL---YY--RGATCAIVVFDISNSNTLDRAKTWVNQLKISSNYIIILVANKIDKNKFQVDI  166 (208)
T ss_dssp             EEEEEEECTTGGGCTT-THHH---HH--TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCCEEEEEEECTTCC-CCSCH
T ss_pred             eEEEEEECCCcHHHHH-HHHH---Hh--cCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCcccccCCH
Confidence            6789999999643221 1111   11  1347889999996653322   2222222111 34568999999322   12


Q ss_pred             hHHHHHHHHhCCCeE
Q 011624          339 GAALSVKEVSGKPIK  353 (481)
Q Consensus       339 g~~~~~~~~~glPV~  353 (481)
                      ..+...+...++|+.
T Consensus       167 ~~~~~~~~~~~~~~~  181 (208)
T 3clv_A          167 LEVQKYAQDNNLLFI  181 (208)
T ss_dssp             HHHHHHHHHTTCEEE
T ss_pred             HHHHHHHHHcCCcEE
Confidence            444556666677663

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=97.52  E-value=0.0012  Score=64.15  Aligned_cols=41  Identities=20%  Similarity=0.201  Sum_probs=33.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc----------CCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ----------GKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~----------G~kVlLId~D~~  222 (481)
                      +..+++++|++|+||||++..++..+...          +.+|++++.+-.
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~   79 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDP   79 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCC
Confidence            45799999999999999999999876642          467888887653

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=97.51  E-value=0.00024  Score=64.26  Aligned_cols=85  Identities=15%  Similarity=0.132  Sum_probs=47.5

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||...... ....   ..  ...+.+++|+|+....+.   .   ..+..+...-...-+|+||+|.... 
T Consensus        64 ~~~~~i~Dt~G~~~~~~-~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~  137 (196)
T 3tkl_A           64 TIKLQIWDTAGQERFRT-ITSS---YY--RGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK  137 (196)
T ss_dssp             EEEEEEEEECCSGGGCT-THHH---HH--TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC
T ss_pred             EEEEEEEECCCcHhhhh-hHHH---HH--hhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccccccc
Confidence            36789999999643221 1111   11  234788999998654322   1   1222222112234588999996432 


Q ss_pred             ---hhHHHHHHHHhCCCeEEe
Q 011624          338 ---GGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~~i  355 (481)
                         ...+..++...+.|+..+
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~  158 (196)
T 3tkl_A          138 VVDYTTAKEFADSLGIPFLET  158 (196)
T ss_dssp             CSCHHHHHHHHHHTTCCEEEE
T ss_pred             ccCHHHHHHHHHHcCCcEEEE
Confidence               234456677778887433

>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=97.50  E-value=0.00037  Score=62.05  Aligned_cols=83  Identities=16%  Similarity=0.077  Sum_probs=45.4

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhhh---cCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFNI---EIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~~---~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||...... ....   ..  ...+.+++|+|+....+.   ......+..   .-...-+|+||+|.... 
T Consensus        60 ~~~~~i~Dt~G~~~~~~-~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~  133 (181)
T 2efe_B           60 TVKFEIWDTAGQERYHS-LAPM---YY--RGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDAR  133 (181)
T ss_dssp             EEEEEEEECCCSGGGGG-GTHH---HH--TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC
T ss_pred             EEEEEEEeCCCChhhhh-hhHH---Hh--ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccc
Confidence            46789999999643211 1111   11  134788999998655332   222222221   12234588999996422 


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+...+...+.|+.
T Consensus       134 ~~~~~~~~~~~~~~~~~~~  152 (181)
T 2efe_B          134 KVTAEDAQTYAQENGLFFM  152 (181)
T ss_dssp             CSCHHHHHHHHHHTTCEEE
T ss_pred             cCCHHHHHHHHHHcCCEEE
Confidence               2344556666777663

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=97.49  E-value=0.00043  Score=64.40  Aligned_cols=90  Identities=20%  Similarity=0.145  Sum_probs=54.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC--chhHHHHHHHhhhhcCCCeecCCCCC--CH------H
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY--RPAAIDQLVILGEQVGVPVYTAGTEV--KP------S  251 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~--rp~aidql~~~~~~~gv~v~~~~~~~--~~------~  251 (481)
                      ++.|++++|+| .||||.+..+|.....+|++|+++....-  ..+-.+-+.    ..++.+...+...  ..      .
T Consensus        28 ~g~i~v~tG~G-kGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~----~L~v~~~~~g~gf~~~~~~~~~~~  102 (196)
T 1g5t_A           28 RGIIIVFTGNG-KGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLE----PHGVEFQVMATGFTWETQNREADT  102 (196)
T ss_dssp             CCCEEEEESSS-SCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHG----GGTCEEEECCTTCCCCGGGHHHHH
T ss_pred             CceEEEECCCC-CCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHH----hCCcEEEEcccccccCCCCcHHHH
Confidence            45667666655 99999999999999999999999966542  222222221    2234444333211  11      1


Q ss_pred             HHHHHHHHH----HHcCCCcEEEEcCCCC
Q 011624          252 QIAKQGLEE----AKKKNVDVVIVDTAGR  276 (481)
Q Consensus       252 ~~l~~~l~~----~~~~~~D~VIIDt~G~  276 (481)
                      ..+...+..    +....||+||+|-.+.
T Consensus       103 ~~a~~~l~~a~~~l~~~~yDlvILDEi~~  131 (196)
T 1g5t_A          103 AACMAVWQHGKRMLADPLLDMVVLDELTY  131 (196)
T ss_dssp             HHHHHHHHHHHHHTTCTTCSEEEEETHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCCEEEEeCCCc
Confidence            122333333    3346799999999743

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=97.49  E-value=0.00093  Score=59.17  Aligned_cols=133  Identities=20%  Similarity=0.226  Sum_probs=69.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ..-|+++|.+||||||++..|...              .+...       +....+...........            .
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~--------------~~~~~-------~~~t~~~~~~~~~~~~~------------~   52 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQE--------------TFGKQ-------YKQTIGLDFFLRRITLP------------G   52 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGG--------------GTTHH-------HHHTTTSSEEEEEEEET------------T
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhC--------------cCCCC-------CCCceeEEEEEEEEEeC------------C
Confidence            345788899999999999887521              12111       11122322221100000            0


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhh---cCCeeEEEEcCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNI---EIGITGAILTKLD  333 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~---~~~i~GvIlnKvD  333 (481)
                      ...+.+.|+||||...... ....   ..  ...+.+++|+|++...+.   .   ..+..+..   .....-+|.||+|
T Consensus        53 ~~~~~~~~~Dt~G~~~~~~-~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~D  126 (178)
T 2hxs_A           53 NLNVTLQIWDIGGQTIGGK-MLDK---YI--YGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKID  126 (178)
T ss_dssp             TEEEEEEEEECTTCCTTCT-THHH---HH--TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGG
T ss_pred             CCEEEEEEEECCCCccccc-hhhH---HH--hhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccc
Confidence            0236789999999753211 1111   11  234788999998655332   1   12222211   2333568899999


Q ss_pred             CCCc----hhHHHHHHHHhCCCeEE
Q 011624          334 GDSR----GGAALSVKEVSGKPIKL  354 (481)
Q Consensus       334 ~~~~----~g~~~~~~~~~glPV~~  354 (481)
                      ....    ...+..++...++|+..
T Consensus       127 l~~~~~~~~~~~~~~~~~~~~~~~~  151 (178)
T 2hxs_A          127 LEHMRTIKPEKHLRFCQENGFSSHF  151 (178)
T ss_dssp             GGGGCSSCHHHHHHHHHHHTCEEEE
T ss_pred             cccccccCHHHHHHHHHHcCCcEEE
Confidence            6431    23445566667777643

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=97.49  E-value=0.00027  Score=68.53  Aligned_cols=72  Identities=18%  Similarity=0.117  Sum_probs=38.6

Q ss_pred             CCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcc--h-H---HHHHHHH-HhhhcC-CeeEEEEcCC
Q 011624          264 KNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMT--G-Q---EAAALVT-TFNIEI-GITGAILTKL  332 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~--~-~---~~~~~~~-~f~~~~-~i~GvIlnKv  332 (481)
                      .++.+.|+||||....   +......+........++.+++|+|...  . .   .....+. .+.... ...-+|+||+
T Consensus        85 ~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~  164 (270)
T 1h65_A           85 AGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHA  164 (270)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECC
T ss_pred             CCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECc
Confidence            4567999999998543   2334444433322223577888866521  1 1   1222222 222221 2345899999


Q ss_pred             CCC
Q 011624          333 DGD  335 (481)
Q Consensus       333 D~~  335 (481)
                      |..
T Consensus       165 Dl~  167 (270)
T 1h65_A          165 QFS  167 (270)
T ss_dssp             SCC
T ss_pred             ccC
Confidence            964

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=97.49  E-value=0.004  Score=71.81  Aligned_cols=125  Identities=22%  Similarity=0.208  Sum_probs=63.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      ..|+++|..++||||++..|.....+.|....    ..|.  ..+.+ ......|+.+.....             .+..
T Consensus       297 lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f----~~~a--~lD~~-~~ErerGITIdva~v-------------~f~~  356 (1289)
T 3avx_A          297 VNVGTIGHVDHGKTTLTAAITTVLAKTYGGAA----RAFD--QIDNA-PEEKARGITINTSHV-------------EYDT  356 (1289)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHHSCC----------------------------CCSCE-------------EEEC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHhhhcccccccc----cccc--ccccc-cccccCceeEEEEEE-------------EEcC
Confidence            46788999999999999999876655553210    0010  01111 111112222211000             0012


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .++.+.|+||||...    ....+..  .....+.++||+|+..+   +  +....+...  .++..-+++||+|...
T Consensus       357 ~~~kI~IIDTPGHed----F~~~mi~--gas~AD~aILVVDAtdGv~~QTrEhL~ll~~l--gIP~IIVVINKiDLv~  426 (1289)
T 3avx_A          357 PTRHYAHVDCPGHAD----YVKNMIT--GAAQMDGAILVVAATDGPMPQTREHILLGRQV--GVPYIIVFLNKCDMVD  426 (1289)
T ss_dssp             SSCEEEEEECCCHHH----HHHHHHH--TSCCCSEEEEEEETTTCSCTTHHHHHHHHHHH--TCSCEEEEEECCTTCC
T ss_pred             CCEEEEEEECCChHH----HHHHHHH--HHhhCCEEEEEEcCCccCcHHHHHHHHHHHHc--CCCeEEEEEeeccccc
Confidence            457899999999642    3333322  23346889999999544   2  222222222  2332347899999754

>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=97.48  E-value=0.00023  Score=62.48  Aligned_cols=82  Identities=13%  Similarity=0.012  Sum_probs=44.0

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH------HHHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA------ALVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~------~~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||..... .....   ..  ...+.+++|+|+.......      ..+..+.....+.-+|.||+|.... 
T Consensus        54 ~~~~~~~Dt~G~~~~~-~~~~~---~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~  127 (170)
T 1z0j_A           54 LHKFLIWDTAGLERFR-ALAPM---YY--RGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVR  127 (170)
T ss_dssp             EEEEEEEEECCSGGGG-GGTHH---HH--TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGC
T ss_pred             EEEEEEEcCCCchhhh-cccHh---hC--cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCcccccc
Confidence            4678999999974321 11111   11  1347889999986543221      2222222222234577899996432 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.|+
T Consensus       128 ~v~~~~~~~~~~~~~~~~  145 (170)
T 1z0j_A          128 EVMERDAKDYADSIHAIF  145 (170)
T ss_dssp             CSCHHHHHHHHHHTTCEE
T ss_pred             ccCHHHHHHHHHHcCCEE
Confidence               233445556666665

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=97.48  E-value=0.00011  Score=77.02  Aligned_cols=118  Identities=19%  Similarity=0.272  Sum_probs=55.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ...|+++|.+||||||+...|.      |.+...+...   |+.     +..    .....                 +.
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~------~~~~~~v~~~---~g~-----t~~----~~~~~-----------------~~   67 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIA------GERISIVEDT---PGV-----TRD----RIYSS-----------------AE   67 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHE------EEEEC-----------------------CEEEE-----------------CT
T ss_pred             CCEEEEECCCCCcHHHHHHHHh------CCCCcccCCC---CCc-----cee----EEEEE-----------------EE
Confidence            3478899999999999998885      4443322111   110     000    00000                 01


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhh--ccCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKR--VLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~--~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      +.+..+.|+||||....+.....++.....  .-.++.+++|+|+..+  ......+......-...-+|+||+|..
T Consensus        68 ~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~~~~pvilV~NK~D~~  144 (456)
T 4dcu_A           68 WLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVVLAVNKLDNT  144 (456)
T ss_dssp             TCSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCHHHHHHHHHHTTCCSCEEEEEECC---
T ss_pred             ECCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCChHHHHHHHHHHHcCCCEEEEEECccch
Confidence            245679999999965322111222211111  1135889999998543  222222232222222345889999964

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=97.48  E-value=0.00022  Score=68.86  Aligned_cols=72  Identities=19%  Similarity=0.169  Sum_probs=39.1

Q ss_pred             CCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcc----hH--HHHHHHHH-hhhcC-CeeEEEEcCC
Q 011624          264 KNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMT----GQ--EAAALVTT-FNIEI-GITGAILTKL  332 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~----~~--~~~~~~~~-f~~~~-~i~GvIlnKv  332 (481)
                      .+..+.|+||||....   .......+........++.+++|++...    ..  .....+.. +.... ...-+|+||+
T Consensus        82 ~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~  161 (262)
T 3def_A           82 GGFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHA  161 (262)
T ss_dssp             TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECT
T ss_pred             CCeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCc
Confidence            4567999999997543   2344444444443334567788865421    11  23333332 22222 2345889999


Q ss_pred             CCC
Q 011624          333 DGD  335 (481)
Q Consensus       333 D~~  335 (481)
                      |..
T Consensus       162 Dl~  164 (262)
T 3def_A          162 QFS  164 (262)
T ss_dssp             TCC
T ss_pred             ccC
Confidence            963

>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=97.47  E-value=0.00053  Score=61.70  Aligned_cols=82  Identities=12%  Similarity=0.089  Sum_probs=44.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch-----HHHHHHHHHhh-------hcCCeeEEEEcC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG-----QEAAALVTTFN-------IEIGITGAILTK  331 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~-----~~~~~~~~~f~-------~~~~i~GvIlnK  331 (481)
                      ..+.+.|+||||...... ....   ..  ...+.+++|+|+...     .+....+..+-       ... ..-+|.||
T Consensus        72 ~~~~~~i~Dt~G~~~~~~-~~~~---~~--~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~-piilv~NK  144 (198)
T 3t1o_A           72 FKTRFHLYTVPGQVFYNA-SRKL---IL--RGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDV-PIVIQVNK  144 (198)
T ss_dssp             CEEEEEEEECCSCCSCSH-HHHH---HT--TTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSS-CEEEEEEC
T ss_pred             CceEEEEEeCCChHHHHH-HHHH---HH--hcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCC-CEEEEEEc
Confidence            356789999999653221 1111   11  235788999999732     12222222221       222 34588999


Q ss_pred             CCCCCc--hhHHHHHHHHhCC-Ce
Q 011624          332 LDGDSR--GGAALSVKEVSGK-PI  352 (481)
Q Consensus       332 vD~~~~--~g~~~~~~~~~gl-PV  352 (481)
                      +|....  ...+...+...+. ++
T Consensus       145 ~Dl~~~~~~~~~~~~~~~~~~~~~  168 (198)
T 3t1o_A          145 RDLPDALPVEMVRAVVDPEGKFPV  168 (198)
T ss_dssp             TTSTTCCCHHHHHHHHCTTCCSCE
T ss_pred             hhcccccCHHHHHHHHHhcCCceE
Confidence            996443  3334445544555 54

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=97.46  E-value=0.00019  Score=63.67  Aligned_cols=84  Identities=18%  Similarity=0.137  Sum_probs=46.2

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---HHHHhhhcC--CeeEEEEcCCCCCCc--
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---LVTTFNIEI--GITGAILTKLDGDSR--  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~~~~f~~~~--~i~GvIlnKvD~~~~--  337 (481)
                      .+.+.|+||||...... .   ..  ......+.+++|+|+....+...   ....+....  ...-+|+||+|....  
T Consensus        57 ~~~~~i~Dt~G~~~~~~-~---~~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  130 (181)
T 3tw8_B           57 KVKLQIWDTAGQERFRT-I---TS--TYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPERKV  130 (181)
T ss_dssp             EEEEEEEEETTGGGCSS-C---CG--GGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHCTTSEEEEEEECTTCGGGCC
T ss_pred             EEEEEEEcCCCchhhhh-h---HH--HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCEEEEEECCCCchhcc
Confidence            36789999999542210 0   00  01123478899999966543322   222222111  234588999996432  


Q ss_pred             --hhHHHHHHHHhCCCeEE
Q 011624          338 --GGAALSVKEVSGKPIKL  354 (481)
Q Consensus       338 --~g~~~~~~~~~glPV~~  354 (481)
                        .......+...+.|+..
T Consensus       131 ~~~~~~~~~~~~~~~~~~~  149 (181)
T 3tw8_B          131 VETEDAYKFAGQMGIQLFE  149 (181)
T ss_dssp             SCHHHHHHHHHHHTCCEEE
T ss_pred             cCHHHHHHHHHHcCCeEEE
Confidence              23445666777888743

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=97.45  E-value=0.00088  Score=59.07  Aligned_cols=83  Identities=14%  Similarity=0.067  Sum_probs=39.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhh-----hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFN-----IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~-----~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.++||||....+...+..  ..  ....+.+++|+|.....+..   .....+.     ...+ .-+|.||+|...
T Consensus        51 ~~~~~~~D~~g~~~~~~~~~~~--~~--~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~p-iilv~NK~Dl~~  125 (175)
T 2nzj_A           51 DTTLVVVDTWEAEKLDKSWSQE--SC--LQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVP-IILVGNKADLAR  125 (175)
T ss_dssp             EEEEEEECCC-------CHHHH--HT--TTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CC-EEEEEECTTCTT
T ss_pred             EEEEEEEecCCCCccchhhhHH--hh--cccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCC-EEEEEEChhhcc
Confidence            4578999999974321111111  11  12347789999986543221   1111121     1233 458899999643


Q ss_pred             c----hhHHHHHHHHhCCCe
Q 011624          337 R----GGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV  352 (481)
                      .    .......+...+.|+
T Consensus       126 ~~~v~~~~~~~~~~~~~~~~  145 (175)
T 2nzj_A          126 CREVSVEEGRACAVVFDCKF  145 (175)
T ss_dssp             TCCSCHHHHHHHHHHHTSEE
T ss_pred             ccccCHHHHHHHHHHcCCeE
Confidence            2    223344555667666

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=97.44  E-value=0.00019  Score=65.84  Aligned_cols=83  Identities=14%  Similarity=0.163  Sum_probs=45.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH------HHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA------LVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~------~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||...... .   ..  ......+.+++|+|+....+...      .+..+...-...-+|+||+|.... 
T Consensus        56 ~~~~~l~Dt~G~~~~~~-~---~~--~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  129 (206)
T 2bcg_Y           56 TVKLQIWDTAGQERFRT-I---TS--SYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKR  129 (206)
T ss_dssp             EEEEEEECCTTTTTTTC-C---CG--GGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTC
T ss_pred             EEEEEEEeCCChHHHHH-H---HH--HhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc
Confidence            46789999999643210 0   00  11123478899999865533221      122222122234688999996432 


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+..++...+.|+.
T Consensus       130 ~~~~~~~~~~~~~~~~~~~  148 (206)
T 2bcg_Y          130 VVEYDVAKEFADANKMPFL  148 (206)
T ss_dssp             CSCHHHHHHHHHHTTCCEE
T ss_pred             ccCHHHHHHHHHHcCCeEE
Confidence               2344556666777763

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=97.44  E-value=0.00026  Score=65.71  Aligned_cols=73  Identities=16%  Similarity=0.084  Sum_probs=38.2

Q ss_pred             CCCcEEEEcCCCCcccc------HHHHHHHHhhhhc-cCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          264 KNVDVVIVDTAGRLQID------KAMMDELKDVKRV-LNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d------~~~~~el~~i~~~-~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      .+..+.|+||||.....      ......+...... ...+.+++|+|+..+  .........+...-...-+|+||+|.
T Consensus        77 ~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~~~~p~i~v~nK~Dl  156 (223)
T 4dhe_A           77 AEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAPTGKPIHSLLTKCDK  156 (223)
T ss_dssp             TSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGGGCCCEEEEEECGGG
T ss_pred             CCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHhcCCCEEEEEecccc
Confidence            45789999999964320      1111111122222 123668999998533  22222333333222234588999997


Q ss_pred             CC
Q 011624          335 DS  336 (481)
Q Consensus       335 ~~  336 (481)
                      ..
T Consensus       157 ~~  158 (223)
T 4dhe_A          157 LT  158 (223)
T ss_dssp             SC
T ss_pred             CC
Confidence            54

>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=97.44  E-value=0.00056  Score=62.46  Aligned_cols=23  Identities=35%  Similarity=0.511  Sum_probs=19.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +..-|+++|.+||||||++..|.
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~   49 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLC   49 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHH
Confidence            45678889999999999998775

>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=97.44  E-value=0.00021  Score=64.92  Aligned_cols=83  Identities=17%  Similarity=0.073  Sum_probs=44.7

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHH---HHhhhcCCeeEEEEcCCCCCC-
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALV---TTFNIEIGITGAILTKLDGDS-  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~---~~f~~~~~i~GvIlnKvD~~~-  336 (481)
                      ..+.+.|+||||...... ....   ..  ...+.+++|+|.....+.   ....   ..+...-...-+|+||+|... 
T Consensus        70 ~~~~~~i~Dt~G~~~~~~-~~~~---~~--~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~  143 (192)
T 2fg5_A           70 ELHKFLIWDTAGQERFHS-LAPM---YY--RGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI  143 (192)
T ss_dssp             SEEEEEEEEECCSGGGGG-GTHH---HH--TTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             EEEEEEEEcCCCchhhHh-hhHH---hh--ccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccc
Confidence            356789999999643211 1111   11  134788999998554322   1122   222111223558899999642 


Q ss_pred             ---chhHHHHHHHHhCCCe
Q 011624          337 ---RGGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ---~~g~~~~~~~~~glPV  352 (481)
                         ....+..++...+.|+
T Consensus       144 ~~v~~~~~~~~~~~~~~~~  162 (192)
T 2fg5_A          144 REVPLKDAKEYAESIGAIV  162 (192)
T ss_dssp             CCSCHHHHHHHHHTTTCEE
T ss_pred             cccCHHHHHHHHHHcCCEE
Confidence               1334455555666665

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.44  E-value=0.00049  Score=63.12  Aligned_cols=83  Identities=17%  Similarity=0.159  Sum_probs=45.4

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||..........    .  ....+.+++|+|+......   .   ..+......-...-+|+||+|.... 
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~----~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  141 (213)
T 3cph_A           68 KVKLQLWDTAGQERFRTITTA----Y--YRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETRV  141 (213)
T ss_dssp             EEEEEEECCTTGGGGTCCCHH----H--HTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCSSCC
T ss_pred             EEEEEEEeCCCcHHHHHHHHH----H--hccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc
Confidence            367899999996432111111    1  1234788999998654322   1   1222222112234588999997322 


Q ss_pred             --hhHHHHHHHHhCCCeE
Q 011624          338 --GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 --~g~~~~~~~~~glPV~  353 (481)
                        ...+..++...++|+.
T Consensus       142 ~~~~~~~~~~~~~~~~~~  159 (213)
T 3cph_A          142 VTADQGEALAKELGIPFI  159 (213)
T ss_dssp             SCHHHHHHHHHHHTCCEE
T ss_pred             cCHHHHHHHHHHcCCEEE
Confidence              2334556666787763

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=97.43  E-value=0.00094  Score=71.25  Aligned_cols=44  Identities=39%  Similarity=0.561  Sum_probs=38.9

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      ..|.+|+++|.+|+||||++.+|+.+|...+.++.+++.|.+|.
T Consensus        33 ~~~~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s~D~~r~   76 (520)
T 2axn_A           33 NSPTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVGEYRR   76 (520)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEecccHHHH
Confidence            35789999999999999999999999988899999899886653

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=97.43  E-value=0.00028  Score=65.39  Aligned_cols=96  Identities=11%  Similarity=0.114  Sum_probs=57.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe--ccCCchhHHHHHHHhhhhcCCCe--ecCCCCCCHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA--GDVYRPAAIDQLVILGEQVGVPV--YTAGTEVKPSQIAKQG  257 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId--~D~~rp~aidql~~~~~~~gv~v--~~~~~~~~~~~~l~~~  257 (481)
                      +.++.+++|+.|+||||.+..++..+..+|++|+++.  .|. |.+  +.  ......|+..  .....   ..    +.
T Consensus         7 ~g~i~v~~G~mgsGKTT~ll~~a~r~~~~g~kV~v~k~~~d~-r~~--~~--~i~s~~g~~~~a~~~~~---~~----~i   74 (191)
T 1xx6_A            7 HGWVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDN-RYS--KE--DVVSHMGEKEQAVAIKN---SR----EI   74 (191)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC----------C--EEECTTSCEEECEEESS---ST----HH
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCc-cch--HH--HHHhhcCCceeeEeeCC---HH----HH
Confidence            4579999999999999999999999999999999885  332 211  00  1112223321  11111   11    33


Q ss_pred             HHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhh
Q 011624          258 LEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKR  292 (481)
Q Consensus       258 l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~  292 (481)
                      ++.+. .++|+|+||-+..+.  ......+..+..
T Consensus        75 ~~~~~-~~~dvViIDEaqfl~--~~~v~~l~~l~~  106 (191)
T 1xx6_A           75 LKYFE-EDTEVIAIDEVQFFD--DEIVEIVNKIAE  106 (191)
T ss_dssp             HHHCC-TTCSEEEECSGGGSC--THHHHHHHHHHH
T ss_pred             HHHHh-ccCCEEEEECCCCCC--HHHHHHHHHHHh
Confidence            33332 469999999987653  233555554443

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.42  E-value=0.0003  Score=62.37  Aligned_cols=40  Identities=18%  Similarity=0.255  Sum_probs=34.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ...+++.|++|+||||++..++..+...|+++..+++..+
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~   75 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASM   75 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHh
Confidence            4578899999999999999999988888988888877643

>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=97.41  E-value=0.00039  Score=62.67  Aligned_cols=82  Identities=18%  Similarity=0.131  Sum_probs=43.8

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhh--cCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNI--EIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~--~~~i~GvIlnKvD~~~  336 (481)
                      .+++.|+||||..... ....   ...  ...+.+++|+|.....+.   .   ..+..+..  .. ..-+|+||+|...
T Consensus        68 ~~~~~l~Dt~G~~~~~-~~~~---~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~-p~ilv~nK~Dl~~  140 (190)
T 3con_A           68 TCLLDILDTAGQEEYS-AMRD---QYM--RTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDV-PMVLVGNKCDLPT  140 (190)
T ss_dssp             EEEEEEEECCC---------------C--TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCC-CEEEEEECTTCSC
T ss_pred             EEEEEEEECCChHHHH-HHHH---Hhh--CcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCC-eEEEEEECCcCCc
Confidence            4679999999964211 1111   111  234778899998654322   1   12222221  23 3458999999643


Q ss_pred             ---chhHHHHHHHHhCCCeE
Q 011624          337 ---RGGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 ---~~g~~~~~~~~~glPV~  353 (481)
                         ....+..++...++|+.
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~  160 (190)
T 3con_A          141 RTVDTKQAHELAKSYGIPFI  160 (190)
T ss_dssp             CCSCHHHHHHHHHHHTCCEE
T ss_pred             ccCCHHHHHHHHHHcCCeEE
Confidence               23445667777788773

>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=97.41  E-value=0.00034  Score=64.76  Aligned_cols=22  Identities=36%  Similarity=0.514  Sum_probs=18.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..-|+++|++|+||||++..|.
T Consensus        12 ~~~i~~~G~~g~GKTsl~~~l~   33 (218)
T 1nrj_B           12 QPSIIIAGPQNSGKTSLLTLLT   33 (218)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4567889999999999998875

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=97.41  E-value=0.0014  Score=72.01  Aligned_cols=140  Identities=19%  Similarity=0.185  Sum_probs=70.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH---HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK---KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~---~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l  258 (481)
                      +.+.++++|++|+||||++..|+....   ..| +|  .+..... +... . .  ...++.+......           
T Consensus         8 ~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G-~V--~~g~~~~-d~~~-~-e--~~~giti~~~~~~-----------   68 (665)
T 2dy1_A            8 MIRTVALVGHAGSGKTTLTEALLYKTGAKERRG-RV--EEGTTTT-DYTP-E-A--KLHRTTVRTGVAP-----------   68 (665)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCC-CG--GGTCCSS-CCSH-H-H--HHTTSCCSCEEEE-----------
T ss_pred             CCcEEEEECCCCChHHHHHHHHHHhcCCCCccc-ee--cCCcccc-cCCH-H-H--HhcCCeEEecceE-----------
Confidence            457899999999999999999875432   112 11  1110110 0000 0 0  0112222110000           


Q ss_pred             HHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHhh-hcCCeeEEEEcCCCCC
Q 011624          259 EEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTFN-IEIGITGAILTKLDGD  335 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f~-~~~~i~GvIlnKvD~~  335 (481)
                        +....+.+.|+||||....    ..++......  .+.+++|+|+..+.  ......+... ..+. .-+++||+|..
T Consensus        69 --~~~~~~~~nliDTpG~~~f----~~~~~~~l~~--ad~~ilVvD~~~g~~~qt~~~~~~~~~~~ip-~ilv~NKiD~~  139 (665)
T 2dy1_A           69 --LLFRGHRVFLLDAPGYGDF----VGEIRGALEA--ADAALVAVSAEAGVQVGTERAWTVAERLGLP-RMVVVTKLDKG  139 (665)
T ss_dssp             --EEETTEEEEEEECCCSGGG----HHHHHHHHHH--CSEEEEEEETTTCSCHHHHHHHHHHHHTTCC-EEEEEECGGGC
T ss_pred             --EeeCCEEEEEEeCCCccch----HHHHHHHHhh--cCcEEEEEcCCcccchhHHHHHHHHHHccCC-EEEEecCCchh
Confidence              0124677899999997542    2333333332  37889999985441  1222222221 2233 34789999975


Q ss_pred             Cchh-HHHHHHHHhC
Q 011624          336 SRGG-AALSVKEVSG  349 (481)
Q Consensus       336 ~~~g-~~~~~~~~~g  349 (481)
                      .... .+..+....+
T Consensus       140 ~~~~~~~~~l~~~l~  154 (665)
T 2dy1_A          140 GDYYALLEDLRSTLG  154 (665)
T ss_dssp             CCHHHHHHHHHHHHC
T ss_pred             hhHHHHHHHHHHHhC
Confidence            2222 3345555566

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=97.41  E-value=0.00053  Score=60.22  Aligned_cols=83  Identities=19%  Similarity=0.089  Sum_probs=43.2

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---H---HHHHhhhcCCeeEEEEcCCCCCC--
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---A---LVTTFNIEIGITGAILTKLDGDS--  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~---~~~~f~~~~~i~GvIlnKvD~~~--  336 (481)
                      .+.+.|+||||....     ..+.. ......+.+++|+|.....+..   .   .+......-...-+|+||+|...  
T Consensus        54 ~~~l~i~Dt~G~~~~-----~~~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  127 (170)
T 1z08_A           54 RVNLAIWDTAGQERF-----HALGP-IYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKER  127 (170)
T ss_dssp             EEEEEEEECCCC------------C-CSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGC
T ss_pred             EEEEEEEECCCcHhh-----hhhHH-HHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECccccccc
Confidence            457889999996321     11110 1112357889999986553221   1   12222111223458999999643  


Q ss_pred             --chhHHHHHHHHhCCCeE
Q 011624          337 --RGGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 --~~g~~~~~~~~~glPV~  353 (481)
                        ....+...+...+.|+.
T Consensus       128 ~~~~~~~~~~~~~~~~~~~  146 (170)
T 1z08_A          128 HVSIQEAESYAESVGAKHY  146 (170)
T ss_dssp             CSCHHHHHHHHHHTTCEEE
T ss_pred             ccCHHHHHHHHHHcCCeEE
Confidence              12344556666676663

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=97.40  E-value=0.0012  Score=61.82  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=19.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +..-|+++|.+||||||++..|.
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~   50 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVS   50 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            45678889999999999998875

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=97.40  E-value=0.00067  Score=72.35  Aligned_cols=88  Identities=18%  Similarity=0.193  Sum_probs=55.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCC-----------eecCC-CCCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVP-----------VYTAG-TEVK  249 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~-----------v~~~~-~~~~  249 (481)
                      +..+++++|++|+||||++..++..+...|.+|+++..+--.    .++.......|.+           +.... ..+.
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~ee~~----~~l~~~~~~~g~~~~~~~~~g~~~~~~~~p~~LS  355 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESR----AQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAG  355 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCH----HHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSC
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEEeCCH----HHHHHHHHHcCCCHHHHHhCCCEEEEEeccccCC
Confidence            456999999999999999999998888789888777654321    1222222222221           11111 1234


Q ss_pred             HHHHHHHHHHHHHcCCCcEEEEcCC
Q 011624          250 PSQIAKQGLEEAKKKNVDVVIVDTA  274 (481)
Q Consensus       250 ~~~~l~~~l~~~~~~~~D~VIIDt~  274 (481)
                      ..+..+.++..+...+++++|+| |
T Consensus       356 ~g~~q~~~~a~~l~~~p~llilD-p  379 (525)
T 1tf7_A          356 LEDHLQIIKSEINDFKPARIAID-S  379 (525)
T ss_dssp             HHHHHHHHHHHHHTTCCSEEEEE-C
T ss_pred             HHHHHHHHHHHHHhhCCCEEEEc-C
Confidence            44555556666655678888888 5

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=97.39  E-value=0.001  Score=69.71  Aligned_cols=66  Identities=11%  Similarity=0.214  Sum_probs=38.1

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---------HHHHHHHHh-hhcCCeeEEEEcCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---------EAAALVTTF-NIEIGITGAILTKLD  333 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---------~~~~~~~~f-~~~~~i~GvIlnKvD  333 (481)
                      .++.+.|+||||.-.    +...+..  .....+.++||+|+..+.         ...+.+... ...++..-+++||+|
T Consensus        83 ~~~~~~iiDtPGh~~----f~~~~~~--~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~v~~iivviNK~D  156 (458)
T 1f60_A           83 PKYQVTVIDAPGHRD----FIKNMIT--GTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVRQLIVAVNKMD  156 (458)
T ss_dssp             SSEEEEEEECCCCTT----HHHHHHH--SSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCCEEEEEEECGG
T ss_pred             CCceEEEEECCCcHH----HHHHHHh--hhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcCCCeEEEEEEccc
Confidence            456799999999642    2333322  233568899999997552         122222111 112332456899999


Q ss_pred             CC
Q 011624          334 GD  335 (481)
Q Consensus       334 ~~  335 (481)
                      ..
T Consensus       157 l~  158 (458)
T 1f60_A          157 SV  158 (458)
T ss_dssp             GG
T ss_pred             cc
Confidence            75

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=97.38  E-value=0.0023  Score=62.28  Aligned_cols=21  Identities=29%  Similarity=0.409  Sum_probs=18.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|+++|.+||||||+...|.
T Consensus        27 ~~i~vvG~~~~GKSSLln~l~   47 (299)
T 2aka_B           27 PQIAVVGGQSAGKSSVLENFV   47 (299)
T ss_dssp             CEEEEEEBTTSCHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHH
Confidence            367888999999999998886

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=97.38  E-value=0.00044  Score=73.03  Aligned_cols=67  Identities=16%  Similarity=0.182  Sum_probs=37.4

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---------HHHHHHHHh-hhcCCeeEEEEcCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---------EAAALVTTF-NIEIGITGAILTKLD  333 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---------~~~~~~~~f-~~~~~i~GvIlnKvD  333 (481)
                      .++.+.|+||||.-..    ...+...  ....+.+++|+|+..+.         ...+.+... ...+...-+++||+|
T Consensus       109 ~~~~~~iiDTPG~~~f----~~~~~~~--~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~D  182 (483)
T 3p26_A          109 HRANFTIVDAPGHRDF----VPNAIMG--ISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMD  182 (483)
T ss_dssp             SSCEEEEECCCCCGGG----HHHHHHH--HTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGG
T ss_pred             CCceEEEEECCCcHHH----HHHHHHh--hhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcC
Confidence            4678999999998532    2222222  22358899999996541         111111111 112233457899999


Q ss_pred             CCC
Q 011624          334 GDS  336 (481)
Q Consensus       334 ~~~  336 (481)
                      ...
T Consensus       183 l~~  185 (483)
T 3p26_A          183 NVD  185 (483)
T ss_dssp             GGT
T ss_pred             ccc
Confidence            653

>2g0t_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; 2.67A {Thermotoga maritima} SCOP: c.37.1.10

Probab=97.37  E-value=0.001  Score=67.30  Aligned_cols=147  Identities=20%  Similarity=0.225  Sum_probs=86.3

Q ss_pred             CEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       183 ~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .+.+.++|. .++||||++..|...+.++|+++..+..-..       ....+...|++.-..... .-.......+..+
T Consensus       169 ~~ri~v~GTDt~vGKt~t~~~L~~~l~~~G~~v~~v~tgqt-------g~li~~~~gv~~D~~~~~-~~ag~~e~~i~~~  240 (350)
T 2g0t_A          169 IKVVGVFGTDCVVGKRTTAVQLWERALEKGIKAGFLATGQT-------GILIGADAGYVIDAVPAD-FVSGVVEKAVLKL  240 (350)
T ss_dssp             SEEEEEEESSSSSSHHHHHHHHHHHHHHTTCCEEEEECSHH-------HHHTTCSEECCGGGSBGG-GHHHHHHHHHHHH
T ss_pred             ceEEEEecCCCCccCccHHHHHHHHHHhcCCeEEEEccCce-------eeeeccCCCCCCCceecc-hhhHHHHhhHHHh
Confidence            345666666 8899999999999999999999996543211       111222234432111100 0111122223333


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc--------------chHHHHHHHHHhhhcCCeeEE
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM--------------TGQEAAALVTTFNIEIGITGA  327 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~--------------~~~~~~~~~~~f~~~~~i~Gv  327 (481)
                      ..+++|++||.++|.+........ ...++.-.+|+.++|+-++.              .-++....++.+. ..++.|+
T Consensus       241 ~~~~~D~ivVEGqGgl~~P~~~~v-~~~ll~g~~p~~vIl~h~~~r~~~~~~~~~~~~~~i~~~i~~ie~l~-~~~V~gi  318 (350)
T 2g0t_A          241 EKTGKEIVFVEGQGALRHPAYGQV-TLGLLYGSNPDVVFLVHDPSRDHFESFPEIPKKPDFEEERRLIETLS-NAKVIGG  318 (350)
T ss_dssp             HHTTCSEEEEECCSCTTCTTTHHH-HHHHHHHHCCSEEEEECCTTCSSCTTCTTSSCCCCHHHHHHHHHHSS-SCEEEEE
T ss_pred             hhcCCCEEEEccCeeccccCchHH-HHHHHcCCCCCEEEEEeCCCCccccCCCcccCCcCHHHHHHHHHHhc-CCcEEEE
Confidence            237899999999987654221211 12244555678777776432              2244556666666 5779999


Q ss_pred             E-EcCCCCCCchhHHHHHHHHhCCCe
Q 011624          328 I-LTKLDGDSRGGAALSVKEVSGKPI  352 (481)
Q Consensus       328 I-lnKvD~~~~~g~~~~~~~~~glPV  352 (481)
                      + +|-             .+++|+|+
T Consensus       319 ~~lN~-------------~~~~glP~  331 (350)
T 2g0t_A          319 VSLNG-------------GFETDLPV  331 (350)
T ss_dssp             ECSSC-------------CCCCSSCE
T ss_pred             EEcCc-------------hHHHCCCe
Confidence            9 997             34568887

>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=97.37  E-value=0.0008  Score=61.77  Aligned_cols=82  Identities=18%  Similarity=0.080  Sum_probs=45.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HH---HHHhhhcCCeeEEEEcCCCCCC--
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---AL---VTTFNIEIGITGAILTKLDGDS--  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~---~~~f~~~~~i~GvIlnKvD~~~--  336 (481)
                      .+.+.|+||||.... ......   ..  ...+.+++|+|.+...+..   ..   +..+...-...-+|.||+|...  
T Consensus        77 ~~~l~i~Dt~G~~~~-~~~~~~---~~--~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~  150 (201)
T 2hup_A           77 RVKLQIWDTAGQERF-RTITQS---YY--RSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELR  150 (201)
T ss_dssp             EEEEEEECCTTCGGG-HHHHHH---HH--TTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC
T ss_pred             EEEEEEEECCCcHhH-HHHHHH---HH--hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCcccccc
Confidence            367899999997432 111111   11  2358889999986553321   12   2222111123458899999643  


Q ss_pred             --chhHHHHHHHHhCC-Ce
Q 011624          337 --RGGAALSVKEVSGK-PI  352 (481)
Q Consensus       337 --~~g~~~~~~~~~gl-PV  352 (481)
                        ....+..++...+. ++
T Consensus       151 ~v~~~~~~~~~~~~~~~~~  169 (201)
T 2hup_A          151 EVSLAEAQSLAEHYDILCA  169 (201)
T ss_dssp             CSCHHHHHHHHHHTTCSEE
T ss_pred             ccCHHHHHHHHHHcCCCEE
Confidence              22344556666676 55

>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=97.37  E-value=0.00069  Score=61.78  Aligned_cols=83  Identities=13%  Similarity=0.127  Sum_probs=46.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HH---HHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---AL---VTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~---~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||.... ...   .....  ...+.+++|+|+....+..   ..   +..+...-...-+|+||+|.... 
T Consensus        56 ~~~~~l~Dt~G~~~~-~~~---~~~~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  129 (203)
T 1zbd_A           56 RIKLQIWDTAGLERY-RTI---TTAYY--RGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER  129 (203)
T ss_dssp             EEEEEEEEECCSGGG-HHH---HHTTG--GGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSC
T ss_pred             EEEEEEEECCCchhh-cch---HHHhh--cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCccc
Confidence            467899999997431 111   11122  2347889999996553321   11   22222112235589999996432 


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+..++...+.|+.
T Consensus       130 ~~~~~~~~~~~~~~~~~~~  148 (203)
T 1zbd_A          130 VVSSERGRQLADHLGFEFF  148 (203)
T ss_dssp             CSCHHHHHHHHHHHTCEEE
T ss_pred             ccCHHHHHHHHHHCCCeEE
Confidence               2344556667787763

>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=97.37  E-value=0.0014  Score=58.20  Aligned_cols=83  Identities=14%  Similarity=0.139  Sum_probs=44.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||.....    ......  ....+.+++|+|+....+.   .   ..+..+...-...-+|+||+|.... 
T Consensus        59 ~~~~~~~Dt~G~~~~~----~~~~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  132 (180)
T 2g6b_A           59 KVKLQMWDTAGQERFR----SVTHAY--YRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHER  132 (180)
T ss_dssp             EEEEEEEECCCC------------CC--GGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCC
T ss_pred             EEEEEEEeCCCcHHHH----HHHHHH--ccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCccc
Confidence            4578999999964211    111111  1234788999999655332   1   1222222112235588999996432 


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+..++...+.|+.
T Consensus       133 ~~~~~~~~~~~~~~~~~~~  151 (180)
T 2g6b_A          133 VVKREDGEKLAKEYGLPFM  151 (180)
T ss_dssp             CSCHHHHHHHHHHHTCCEE
T ss_pred             ccCHHHHHHHHHHcCCeEE
Confidence               2344556666787773

>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=97.36  E-value=0.00032  Score=62.07  Aligned_cols=84  Identities=15%  Similarity=0.037  Sum_probs=44.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHH---HHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AAL---VTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~---~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||...... ....   ..  ...+.+++|+|+....+.   ...   +......-...-+|+||+|.... 
T Consensus        62 ~~~~~~~Dt~G~~~~~~-~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  135 (179)
T 2y8e_A           62 TVRLQLWDTAGQERFRS-LIPS---YI--RDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKR  135 (179)
T ss_dssp             EEEEEEEEECCSGGGGG-GSHH---HH--HTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGC
T ss_pred             EEEEEEEECCCcHHHHH-HHHH---Hh--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccC
Confidence            45789999999643211 1111   11  134788999998654322   111   12221112234589999996321 


Q ss_pred             ---hhHHHHHHHHhCCCeEE
Q 011624          338 ---GGAALSVKEVSGKPIKL  354 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~~  354 (481)
                         .......+...+.|+..
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~  155 (179)
T 2y8e_A          136 QVSTEEGERKAKELNVMFIE  155 (179)
T ss_dssp             CSCHHHHHHHHHHHTCEEEE
T ss_pred             cCCHHHHHHHHHHcCCeEEE
Confidence               23344555666776633

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=97.36  E-value=0.0012  Score=59.48  Aligned_cols=23  Identities=35%  Similarity=0.387  Sum_probs=19.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +..-|+++|.+||||||+...|.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~   44 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLI   44 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            34567888999999999998885

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=97.35  E-value=0.0011  Score=58.14  Aligned_cols=81  Identities=17%  Similarity=0.099  Sum_probs=43.8

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH------HHHHHHhh---hcCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA------AALVTTFN---IEIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~------~~~~~~f~---~~~~i~GvIlnKvD~~  335 (481)
                      .+.+.|+||||..... .....   ...  ..+.+++|+|.......      ...+..+.   ...+ .-+|+||+|..
T Consensus        50 ~~~~~~~Dt~G~~~~~-~~~~~---~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~p-ii~v~nK~Dl~  122 (172)
T 2erx_A           50 ICTLQITDTTGSHQFP-AMQRL---SIS--KGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIP-IMLVGNKCDES  122 (172)
T ss_dssp             EEEEEEEECCSCSSCH-HHHHH---HHH--HCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCC-EEEEEECGGGG
T ss_pred             EEEEEEEECCCchhhH-HHHHH---hcc--cCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCC-EEEEEEccccc
Confidence            4678999999975322 21111   111  23788999998654322      12222222   1233 45899999953


Q ss_pred             Cc----hhHHHHHHHHhCCCe
Q 011624          336 SR----GGAALSVKEVSGKPI  352 (481)
Q Consensus       336 ~~----~g~~~~~~~~~glPV  352 (481)
                      ..    ...........+.|+
T Consensus       123 ~~~~v~~~~~~~~~~~~~~~~  143 (172)
T 2erx_A          123 PSREVQSSEAEALARTWKCAF  143 (172)
T ss_dssp             GGCCSCHHHHHHHHHHHTCEE
T ss_pred             cccccCHHHHHHHHHHhCCeE
Confidence            22    223344555667665

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=97.35  E-value=0.0002  Score=72.44  Aligned_cols=20  Identities=30%  Similarity=0.428  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+||||||+...|.
T Consensus        33 ~I~vvG~~~~GKSSLln~L~   52 (353)
T 2x2e_A           33 QIAVVGGQSAGKSSVLENFV   52 (353)
T ss_dssp             EEEEECBTTSSHHHHHHTTT
T ss_pred             eEEEECCCCCCHHHHHHHHh
Confidence            57888999999999998885

>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=97.35  E-value=0.00065  Score=59.18  Aligned_cols=81  Identities=19%  Similarity=0.109  Sum_probs=43.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH------HHHHHhhh--cCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA------ALVTTFNI--EIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~------~~~~~f~~--~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||.... ......   ...  ..+.+++|+|.....+..      ..+.....  ..+ .-+|+||+|...
T Consensus        51 ~~~~~l~D~~G~~~~-~~~~~~---~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl~~  123 (168)
T 1u8z_A           51 EVQIDILDTAGQEDY-AAIRDN---YFR--SGEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKSDLED  123 (168)
T ss_dssp             EEEEEEEECCC---C-HHHHHH---HHH--HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSC-EEEEEECGGGGG
T ss_pred             EEEEEEEECCCcchh-HHHHHH---Hhh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECccccc
Confidence            467899999996432 222221   111  247889999986543221      12222221  233 458999999632


Q ss_pred             c----hhHHHHHHHHhCCCe
Q 011624          337 R----GGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV  352 (481)
                      .    ...+...+...+.|+
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~  143 (168)
T 1u8z_A          124 KRQVSVEEAKNRADQWNVNY  143 (168)
T ss_dssp             GCCSCHHHHHHHHHHHTCEE
T ss_pred             cCccCHHHHHHHHHHcCCeE
Confidence            1    234455566667766

>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=97.35  E-value=0.00016  Score=66.85  Aligned_cols=43  Identities=37%  Similarity=0.684  Sum_probs=37.4

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .++.+|+++|++|+||||++..|+..+...|..+.++|.|..+
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d~~~   65 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGDNVR   65 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCchhh
Confidence            3578999999999999999999999998778887788888654

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=97.35  E-value=0.00056  Score=61.96  Aligned_cols=83  Identities=17%  Similarity=0.086  Sum_probs=45.0

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhh---hcCCeeEEEEcCCCCCC--
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFN---IEIGITGAILTKLDGDS--  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~---~~~~i~GvIlnKvD~~~--  336 (481)
                      .+.+.|+||||...........      ....+.+++|+|+....+..   .....+.   ..-...-+|+||+|...  
T Consensus        69 ~~~~~i~Dt~G~~~~~~~~~~~------~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~  142 (191)
T 2a5j_A           69 QIKLQIWDTAGQESFRSITRSY------YRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR  142 (191)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHH------HTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC
T ss_pred             EEEEEEEECCCchhhhhhHHHH------hccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCcc
Confidence            4678999999964321111111      11347889999986543221   2122221   11223458899999642  


Q ss_pred             --chhHHHHHHHHhCCCeE
Q 011624          337 --RGGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 --~~g~~~~~~~~~glPV~  353 (481)
                        ....+...+...+.++.
T Consensus       143 ~v~~~~~~~~~~~~~~~~~  161 (191)
T 2a5j_A          143 DVKREEGEAFAREHGLIFM  161 (191)
T ss_dssp             CSCHHHHHHHHHHHTCEEE
T ss_pred             ccCHHHHHHHHHHcCCEEE
Confidence              12344556666777663

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=97.35  E-value=0.00043  Score=72.29  Aligned_cols=66  Identities=14%  Similarity=0.206  Sum_probs=37.4

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---------HHHHHHHH-hhhcCCeeEEEEcCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---------EAAALVTT-FNIEIGITGAILTKLD  333 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---------~~~~~~~~-f~~~~~i~GvIlnKvD  333 (481)
                      .++.+.|+||||.-.    ....+...  ...++.++||+|+..+.         ...+.+.. ....++..-+++||+|
T Consensus        93 ~~~~~~iiDTPGh~~----f~~~~~~~--~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~iIvviNK~D  166 (439)
T 3j2k_7           93 EKKHFTILDAPGHKS----FVPNMIGG--ASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMD  166 (439)
T ss_pred             CCeEEEEEECCChHH----HHHHHHhh--HhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCeEEEEeecCC
Confidence            456899999999643    22222222  22358899999996541         12222211 1222332347899999


Q ss_pred             CC
Q 011624          334 GD  335 (481)
Q Consensus       334 ~~  335 (481)
                      ..
T Consensus       167 l~  168 (439)
T 3j2k_7          167 DP  168 (439)
T ss_pred             Cc
Confidence            74

>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=97.34  E-value=0.0047  Score=61.95  Aligned_cols=103  Identities=17%  Similarity=0.229  Sum_probs=61.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH-
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK-  262 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~-  262 (481)
                      .++++|++|+||||++..++..+... +..+..++|...... .+-+.......+.+.-  .......+........+. 
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~-~~~~~~l~~~l~~~~~--~~~~~~~~~~~~l~~~l~~  122 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNF-TAIIGEIARSLNIPFP--RRGLSRDEFLALLVEHLRE  122 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSH-HHHHHHHHHHTTCCCC--SSCCCHHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCH-HHHHHHHHHHhCccCC--CCCCCHHHHHHHHHHHHhh
Confidence            88999999999999999999888776 688888887655421 1111122233333221  112233333333222222 


Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhh
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKR  292 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~  292 (481)
                      ..+..+++||-+..+  +......+..+..
T Consensus       123 ~~~~~vlilDE~~~l--~~~~~~~L~~~~~  150 (389)
T 1fnn_A          123 RDLYMFLVLDDAFNL--APDILSTFIRLGQ  150 (389)
T ss_dssp             TTCCEEEEEETGGGS--CHHHHHHHHHHTT
T ss_pred             cCCeEEEEEECcccc--chHHHHHHHHHHH
Confidence            234679999988765  4455566555543

>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=97.33  E-value=0.0008  Score=59.92  Aligned_cols=81  Identities=20%  Similarity=0.101  Sum_probs=45.0

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhh--cCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNI--EIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~--~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||.... ......   ...  ..+.+++|+|.......   .   ..+..+..  ..+ .-+|+||+|...
T Consensus        65 ~~~~~l~Dt~G~~~~-~~~~~~---~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl~~  137 (187)
T 2a9k_A           65 EVQIDILDTAGQEDY-AAIRDN---YFR--SGEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKSDLED  137 (187)
T ss_dssp             EEEEEEEECCCTTCC-HHHHHH---HHH--HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCC-EEEEEECGGGGG
T ss_pred             EEEEEEEECCCCccc-HHHHHH---Hhc--cCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccccc
Confidence            467899999997532 222221   111  24788999998654322   1   12222222  233 458999999532


Q ss_pred             ----chhHHHHHHHHhCCCe
Q 011624          337 ----RGGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ----~~g~~~~~~~~~glPV  352 (481)
                          ....+...+...+.|+
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~  157 (187)
T 2a9k_A          138 KRQVSVEEAKNRAEQWNVNY  157 (187)
T ss_dssp             GCCSCHHHHHHHHHHTTCEE
T ss_pred             cCccCHHHHHHHHHHcCCeE
Confidence                2334455666667766

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=97.33  E-value=0.0015  Score=67.99  Aligned_cols=65  Identities=20%  Similarity=0.239  Sum_probs=37.5

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHH--HHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEA--AALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~--~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .+..+.|+||||....    ...+...  ...++.+++|+|+..+   +..  ...+...  .++..-+++||+|...
T Consensus       102 ~~~~~~iiDtpGh~~f----~~~~~~~--~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~~--~~~~iIvviNK~Dl~~  171 (434)
T 1zun_B          102 AKRKFIIADTPGHEQY----TRNMATG--ASTCDLAIILVDARYGVQTQTRRHSYIASLL--GIKHIVVAINKMDLNG  171 (434)
T ss_dssp             SSEEEEEEECCCSGGG----HHHHHHH--HTTCSEEEEEEETTTCSCHHHHHHHHHHHHT--TCCEEEEEEECTTTTT
T ss_pred             CCceEEEEECCChHHH----HHHHHHH--HhhCCEEEEEEECCCCCcHHHHHHHHHHHHc--CCCeEEEEEEcCcCCc
Confidence            3567999999996532    2222221  2345889999999554   211  1222221  2333457899999754

>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=97.33  E-value=0.00056  Score=59.82  Aligned_cols=82  Identities=21%  Similarity=0.163  Sum_probs=43.9

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhhh---cCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFNI---EIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~~---~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||..... .....   ..  ...+.+++|+|+....+..   .....+..   .-...-+|+||+|.... 
T Consensus        51 ~~~~~~~D~~G~~~~~-~~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  124 (170)
T 1ek0_A           51 TVKFEIWDTAGQERFA-SLAPX---YY--RNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEG  124 (170)
T ss_dssp             EEEEEEEEECCSGGGG-GGHHH---HH--TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSS
T ss_pred             EEEEEEEECCCChhhh-hhhhh---hh--ccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccc
Confidence            4578999999964321 11111   11  2347889999996553322   11222211   11234578999995321 


Q ss_pred             ------hhHHHHHHHHhCCCe
Q 011624          338 ------GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ------~g~~~~~~~~~glPV  352 (481)
                            .......+...+.|+
T Consensus       125 ~~~~v~~~~~~~~~~~~~~~~  145 (170)
T 1ek0_A          125 GERKVAREEGEKLAEEKGLLF  145 (170)
T ss_dssp             CCCCSCHHHHHHHHHHHTCEE
T ss_pred             cccCCCHHHHHHHHHHcCCEE
Confidence                  123344555667766

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.33  E-value=0.0005  Score=83.17  Aligned_cols=87  Identities=21%  Similarity=0.370  Sum_probs=58.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC-chhHHHHHHHhhhhcCCCeecCC-CCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY-RPAAIDQLVILGEQVGVPVYTAG-TEVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~-rp~aidql~~~~~~~gv~v~~~~-~~~~~~~~l~~~l~  259 (481)
                      ++++++++|++|+||||++..++....++|.+|++++++-- .+-+       +...|+++-... ...++.+.+.+.+.
T Consensus      1426 ~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~-------a~~~G~dl~~l~v~~~~~~E~~l~~~~ 1498 (2050)
T 3cmu_A         1426 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY-------ARKLGVDIDNLLCSQPDTGEQALEICD 1498 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHH-------HHHTTCCTTTCEEECCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHH-------HHHcCCCchhceeecCChHHHHHHHHH
Confidence            57899999999999999999999998899999999998843 2332       223343321110 01223343323333


Q ss_pred             -HHHcCCCcEEEEcCCC
Q 011624          260 -EAKKKNVDVVIVDTAG  275 (481)
Q Consensus       260 -~~~~~~~D~VIIDt~G  275 (481)
                       .++...+|+||||.-.
T Consensus      1499 ~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1499 ALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHTCCSEEEESCGG
T ss_pred             HHHhcCCCCEEEEcChh
Confidence             3344689999999973

>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=97.32  E-value=0.00041  Score=60.73  Aligned_cols=82  Identities=17%  Similarity=0.076  Sum_probs=43.5

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhh---hcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFN---IEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~---~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||..... .....   ..  ...+.+++|+|+....+..   .....+.   ..--+.-+|.||+|.... 
T Consensus        54 ~~~~~~~D~~G~~~~~-~~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~  127 (170)
T 1r2q_A           54 TVKFEIWDTAGQERYH-SLAPM---YY--RGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKR  127 (170)
T ss_dssp             EEEEEEEEECCSGGGG-GGHHH---HH--TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC
T ss_pred             EEEEEEEeCCCcHHhh-hhhHH---hc--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCcccc
Confidence            5678999999964321 11111   11  2347889999986553321   1122221   111234466799996321 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.|+
T Consensus       128 ~~~~~~~~~~~~~~~~~~  145 (170)
T 1r2q_A          128 AVDFQEAQSYADDNSLLF  145 (170)
T ss_dssp             CSCHHHHHHHHHHTTCEE
T ss_pred             ccCHHHHHHHHHHcCCeE
Confidence               233455555666665

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.32  E-value=0.00025  Score=65.66  Aligned_cols=42  Identities=31%  Similarity=0.350  Sum_probs=38.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++.+++++|++|+||||++..|+..+...|.+|.+++.|.+.
T Consensus        21 ~~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d~~~   62 (201)
T 1rz3_A           21 GRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDDHI   62 (201)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccCccc
Confidence            578999999999999999999999998889999999888764

>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=97.32  E-value=0.00075  Score=60.41  Aligned_cols=82  Identities=17%  Similarity=0.140  Sum_probs=46.6

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHh---h--hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTF---N--IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f---~--~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||.... ...   .....  ...+.+++|+|+....+.   ......+   .  ... ..-+|+||+|...
T Consensus        69 ~~~~~l~Dt~G~~~~-~~~---~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~-piilv~nK~Dl~~  141 (195)
T 3bc1_A           69 RIHLQLWDTAGLERF-RSL---TTAFF--RDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENP-DIVLCGNKSDLED  141 (195)
T ss_dssp             EEEEEEEEECCSGGG-HHH---HHHTT--TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSC-CEEEEEECTTCGG
T ss_pred             EEEEEEEeCCCcHHH-HHH---HHHHH--cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-CEEEEEECccccc
Confidence            467899999997431 111   11122  235788999998655332   1222222   1  222 3458899999643


Q ss_pred             ----chhHHHHHHHHhCCCeE
Q 011624          337 ----RGGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 ----~~g~~~~~~~~~glPV~  353 (481)
                          ....+..++...+.|+.
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~~  162 (195)
T 3bc1_A          142 QRAVKEEEARELAEKYGIPYF  162 (195)
T ss_dssp             GCCSCHHHHHHHHHHHTCCEE
T ss_pred             ccccCHHHHHHHHHHcCCCEE
Confidence                12345566667788773

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=97.31  E-value=0.0001  Score=74.65  Aligned_cols=74  Identities=16%  Similarity=0.336  Sum_probs=41.6

Q ss_pred             CCcEEEEcCCCCccc-----cHHHHHHHHhhh--hccCCceEEEEEeCcc----hHHHHHHHHHhhhcCCeeEEEEcCCC
Q 011624          265 NVDVVIVDTAGRLQI-----DKAMMDELKDVK--RVLNPTEVLLVVDAMT----GQEAAALVTTFNIEIGITGAILTKLD  333 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~-----d~~~~~el~~i~--~~~~p~~vvLVvda~~----~~~~~~~~~~f~~~~~i~GvIlnKvD  333 (481)
                      ..++.|+||||....     ......++..+.  ....++.+++|+++..    .++....++.+.+.-...-+|+||+|
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nK~D  214 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDPSGDRTFGVLTKID  214 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTTEEEEEECGG
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcccCCCEEEEEeCCc
Confidence            457999999997643     111111111111  1235677888887632    23445566666543334568899999


Q ss_pred             CCCch
Q 011624          334 GDSRG  338 (481)
Q Consensus       334 ~~~~~  338 (481)
                      .....
T Consensus       215 l~~~~  219 (360)
T 3t34_A          215 LMDKG  219 (360)
T ss_dssp             GCCTT
T ss_pred             cCCCc
Confidence            65443

>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=97.31  E-value=0.00055  Score=68.54  Aligned_cols=72  Identities=14%  Similarity=0.200  Sum_probs=47.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      +.++++.|++|+||||++..+|..   .|.+|++++++.-.+              +..+.    .+..+.+....+.+.
T Consensus       123 gsviLI~GpPGsGKTtLAlqlA~~---~G~~VlyIs~~~eE~--------------v~~~~----~~le~~l~~i~~~l~  181 (331)
T 2vhj_A          123 SGMVIVTGKGNSGKTPLVHALGEA---LGGKDKYATVRFGEP--------------LSGYN----TDFNVFVDDIARAML  181 (331)
T ss_dssp             SEEEEEECSCSSSHHHHHHHHHHH---HHTTSCCEEEEBSCS--------------STTCB----CCHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHh---CCCCEEEEEecchhh--------------hhhhh----cCHHHHHHHHHHHHh
Confidence            467889999999999999999876   678888888821100              01111    233444444444443


Q ss_pred             cCCCcEEEEcCCCCc
Q 011624          263 KKNVDVVIVDTAGRL  277 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~  277 (481)
                        ..+++|||.-+.+
T Consensus       182 --~~~LLVIDsI~aL  194 (331)
T 2vhj_A          182 --QHRVIVIDSLKNV  194 (331)
T ss_dssp             --HCSEEEEECCTTT
T ss_pred             --hCCEEEEeccccc
Confidence              2349999998765

>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=97.31  E-value=0.0016  Score=57.14  Aligned_cols=82  Identities=9%  Similarity=0.005  Sum_probs=42.4

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhh---h--cCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFN---I--EIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~---~--~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.++||||.......+...   ...  ..+.+++|+|.....+..   .....+.   .  .. ..-+|.||+|...
T Consensus        50 ~~~~~i~D~~g~~~~~~~~~~~---~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-p~ilv~nK~Dl~~  123 (169)
T 3q85_A           50 EVTLIVYDIWEQGDAGGWLQDH---CLQ--TGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDL-PVILVGNKSDLAR  123 (169)
T ss_dssp             EEEEEEECCCCC--------CH---HHH--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCC-CEEEEEECTTCGG
T ss_pred             EEEEEEEECCCccccchhhhhh---hhc--cCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCC-CEEEEeeCcchhh
Confidence            4678899999975321111111   011  247889999986543221   2222221   1  23 3458899999642


Q ss_pred             ----chhHHHHHHHHhCCCe
Q 011624          337 ----RGGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ----~~g~~~~~~~~~glPV  352 (481)
                          ....+...+...+.|+
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~  143 (169)
T 3q85_A          124 SREVSLEEGRHLAGTLSCKH  143 (169)
T ss_dssp             GCCSCHHHHHHHHHHTTCEE
T ss_pred             cccCCHHHHHHHHHHcCCcE
Confidence                2234455666677766

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=97.31  E-value=0.00033  Score=63.35  Aligned_cols=84  Identities=15%  Similarity=0.135  Sum_probs=46.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HH---HHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AA---LVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~---~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.+.|+||||...... ..   .  ......+.+++|+|+....+.   ..   .+..+...-...-+|+||+|....
T Consensus        69 ~~~~~~l~Dt~G~~~~~~-~~---~--~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~  142 (189)
T 2gf9_A           69 KRIKLQIWDTAGQERYRT-IT---T--AYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDE  142 (189)
T ss_dssp             EEEEEEEEECCSCCSSCC-SG---G--GGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             eEEEEEEEeCCCcHHHhh-hH---H--HhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccc
Confidence            356789999999643211 10   1  111235788999998654322   11   222221112235688999996432


Q ss_pred             ----hhHHHHHHHHhCCCeE
Q 011624          338 ----GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV~  353 (481)
                          ...+..++...+.++.
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~  162 (189)
T 2gf9_A          143 RVVPAEDGRRLADDLGFEFF  162 (189)
T ss_dssp             CCSCHHHHHHHHHHHTCEEE
T ss_pred             cCCCHHHHHHHHHHcCCeEE
Confidence                2344566667777663

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=97.30  E-value=0.00011  Score=72.42  Aligned_cols=42  Identities=21%  Similarity=0.556  Sum_probs=34.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++.+|+++|++||||||++..|+..|...|.++.++++|.|-
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   45 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchhh
Confidence            456899999999999999999999888888999999999864

>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=97.30  E-value=0.00034  Score=63.32  Aligned_cols=84  Identities=19%  Similarity=0.071  Sum_probs=45.4

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhh---hcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFN---IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~---~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.+.|+||||...... ....   ..  ...+.+++|+|+......   ......+.   ..-...-+|+||+|....
T Consensus        72 ~~~~~~i~Dt~G~~~~~~-~~~~---~~--~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~  145 (193)
T 2oil_A           72 AAVKAQIWDTAGLERYRA-ITSA---YY--RGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQA  145 (193)
T ss_dssp             EEEEEEEEEESCCCTTCT-THHH---HH--TTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGG
T ss_pred             EEEEEEEEeCCCchhhhh-hhHH---Hh--ccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccc
Confidence            346789999999743211 1111   11  134788999998655332   12222221   112235688999996431


Q ss_pred             ----hhHHHHHHHHhCCCeE
Q 011624          338 ----GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV~  353 (481)
                          ...+...+...+.++.
T Consensus       146 ~~~~~~~~~~~~~~~~~~~~  165 (193)
T 2oil_A          146 REVPTEEARMFAENNGLLFL  165 (193)
T ss_dssp             CCSCHHHHHHHHHHTTCEEE
T ss_pred             cccCHHHHHHHHHHcCCEEE
Confidence                2334555566677663

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=97.29  E-value=0.0014  Score=58.06  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=18.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..-|+++|.+||||||++..|.
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~   29 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYV   29 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHH
Confidence            4567888999999999998775

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.29  E-value=0.0002  Score=64.75  Aligned_cols=37  Identities=32%  Similarity=0.517  Sum_probs=33.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .+|++.|++||||||++..|+..|...|+++.+++.|
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~~~   38 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINYG   38 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEEECC
Confidence            4789999999999999999999999889999888644

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=97.29  E-value=0.00043  Score=62.97  Aligned_cols=65  Identities=20%  Similarity=0.284  Sum_probs=36.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH------HHHHHhhhcCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA------ALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~------~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      .+.+.|+||||..... .....   ...  ..+.+++|+|+....+..      ..+..+...-...-+|+||+|..
T Consensus        74 ~~~l~l~Dt~G~~~~~-~~~~~---~~~--~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~  144 (192)
T 2il1_A           74 KIRLQIWDTAGQERFN-SITSA---YYR--SAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCE  144 (192)
T ss_dssp             EEEEEEEEECCSGGGH-HHHHH---HHH--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGG
T ss_pred             EEEEEEEeCCCcHHHH-HHHHH---Hhc--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccc
Confidence            4678999999964321 11111   111  247889999986553322      22222222122356899999964

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=97.28  E-value=0.00025  Score=73.84  Aligned_cols=116  Identities=19%  Similarity=0.270  Sum_probs=53.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      .|+++|.+||||||+...|+      |.+..++.-   .|+.     +.    +......                 .+.
T Consensus         5 ~V~ivG~~nvGKStL~n~l~------~~~~~~v~~---~~g~-----T~----d~~~~~~-----------------~~~   49 (436)
T 2hjg_A            5 VVAIVGRPNVGKSTIFNRIA------GERISIVED---TPGV-----TR----DRIYSSA-----------------EWL   49 (436)
T ss_dssp             EEEEECSTTSSHHHHHHHHE------EEECC-----------------------CEEEEC-----------------TTC
T ss_pred             EEEEECCCCCCHHHHHHHHh------CCCceeecC---CCCC-----cc----ceEEEEE-----------------EEC
Confidence            68899999999999998885      333221110   0110     00    0000000                 124


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhh--hccCCceEEEEEeCcchHH--HHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVK--RVLNPTEVLLVVDAMTGQE--AAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~--~~~~p~~vvLVvda~~~~~--~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      +..+.|+||||....+..+..++....  ..-.++.+++|+|+..+.+  -......+...-...-+++||+|..
T Consensus        50 ~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~~~~pvilv~NK~D~~  124 (436)
T 2hjg_A           50 NYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKPVVLAVNKLDNT  124 (436)
T ss_dssp             SSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHTTCCSCEEEEEECCCC-
T ss_pred             CceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccCc
Confidence            567999999997532211222222111  1123578899999854421  1122222222222456889999964

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=97.27  E-value=0.00076  Score=61.37  Aligned_cols=83  Identities=14%  Similarity=0.041  Sum_probs=43.8

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhh---h---cCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFN---I---EIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~---~---~~~i~GvIlnKvD~~  335 (481)
                      .+.+.|+||||...    .......  .....+.+++|+|++...+.   ......+.   .   .-...-+|+||+|..
T Consensus        72 ~~~~~l~Dt~G~~~----~~~~~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~  145 (208)
T 2yc2_C           72 SVELFLLDTAGSDL----YKEQISQ--YWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLP  145 (208)
T ss_dssp             EEEEEEEETTTTHH----HHHHHST--TCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC---
T ss_pred             EEEEEEEECCCcHH----HHHHHHH--HHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccc
Confidence            56789999999732    1111111  12235788999999655332   22222221   1   122356899999964


Q ss_pred             C---c--hhHHHHHHHHhCCCeE
Q 011624          336 S---R--GGAALSVKEVSGKPIK  353 (481)
Q Consensus       336 ~---~--~g~~~~~~~~~glPV~  353 (481)
                      .   .  ...+...+...+.++.
T Consensus       146 ~~~~~v~~~~~~~~~~~~~~~~~  168 (208)
T 2yc2_C          146 PQRHQVRLDMAQDWATTNTLDFF  168 (208)
T ss_dssp             ----CCCHHHHHHHHHHTTCEEE
T ss_pred             hhhccCCHHHHHHHHHHcCCEEE
Confidence            3   1  2344566667776663

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.26  E-value=0.0025  Score=58.52  Aligned_cols=38  Identities=32%  Similarity=0.618  Sum_probs=31.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      .+.+|+++|++|+||||++..|+..+   |  ..++++|.+..
T Consensus        17 ~~~~I~l~G~~GsGKSTla~~L~~~l---g--~~~i~~d~~~~   54 (202)
T 3t61_A           17 FPGSIVVMGVSGSGKSSVGEAIAEAC---G--YPFIEGDALHP   54 (202)
T ss_dssp             CSSCEEEECSTTSCHHHHHHHHHHHH---T--CCEEEGGGGCC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh---C--CEEEeCCcCcc
Confidence            36689999999999999999998776   4  35678887753

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.26  E-value=0.00068  Score=62.96  Aligned_cols=43  Identities=33%  Similarity=0.449  Sum_probs=37.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .++.+++++|++|+||||++..|+..+...|.++..|..|.|-
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~~~~~g~~~g~v~~d~~~   62 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAALSAQGLPAEVVPMDGFH   62 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHHHHHTTCCEEEEESGGGB
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCceEEEecCCCc
Confidence            3568999999999999999999999888668788989888764

>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=97.25  E-value=0.00024  Score=64.16  Aligned_cols=42  Identities=45%  Similarity=0.709  Sum_probs=36.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++.+|+++|++|+||||++..|+..|...|..+..+|.|..+
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~~~~~   45 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNIR   45 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECChHHH
Confidence            467899999999999999999999988789988888877543

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=97.24  E-value=0.001  Score=59.40  Aligned_cols=82  Identities=13%  Similarity=0.094  Sum_probs=39.6

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhhh---cCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFNI---EIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~~---~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||....     ..+. .......+.+++|+|+....+..   .....+..   .-...-+|.||+|.... 
T Consensus        56 ~~~~~l~Dt~G~~~~-----~~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~  129 (183)
T 2fu5_C           56 RIKLQIWDTAGQERF-----RTIT-TAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKR  129 (183)
T ss_dssp             EEEEEEEEC--------------C-CTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCC
T ss_pred             EEEEEEEcCCCChhh-----hhhH-HHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccC
Confidence            467899999996321     1110 01112357889999996553322   11222211   11234588999996431 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+..++...+.|+
T Consensus       130 ~v~~~~~~~~~~~~~~~~  147 (183)
T 2fu5_C          130 QVSKERGEKLALDYGIKF  147 (183)
T ss_dssp             CSCHHHHHHHHHHHTCEE
T ss_pred             cCCHHHHHHHHHHcCCeE
Confidence               334456666777766

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=97.24  E-value=0.00068  Score=60.07  Aligned_cols=67  Identities=18%  Similarity=0.207  Sum_probs=37.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .+..+.|+||||...... ..     .......+.+++|+|+...  ......+......-...-+|+||+|...
T Consensus        53 ~~~~~~l~Dt~G~~~~~~-~~-----~~~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~~~~~p~ilv~nK~Dl~~  121 (178)
T 2lkc_A           53 NDKKITFLDTPGHEAFTT-MR-----ARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVPIIVAINKMDKPE  121 (178)
T ss_dssp             TTEEEEESCCCSSSSSSC-SC-----CSSCCCCCEEEEEEETTCCCCHHHHHHHHHHGGGSCCEEEEEETTTSSC
T ss_pred             CCceEEEEECCCCHHHHH-HH-----HHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHhCCCCEEEEEECccCCc
Confidence            345688999999643211 00     0112234778999997542  3333344433322223568999999754

>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=97.23  E-value=0.0006  Score=61.39  Aligned_cols=83  Identities=16%  Similarity=0.181  Sum_probs=45.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhhh----cCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFNI----EIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~~----~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+.|+||||...... ....   ..  ...+.+++|+|+......   ......+..    .-...-+|+||+|...
T Consensus        62 ~~~~~~i~Dt~G~~~~~~-~~~~---~~--~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~  135 (195)
T 1x3s_A           62 NKAKLAIWDTAGQERFRT-LTPS---YY--RGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN  135 (195)
T ss_dssp             EEEEEEEEEECSSGGGCC-SHHH---HH--TTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS
T ss_pred             eEEEEEEEeCCCchhhhh-hhHH---Hh--ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcc
Confidence            346789999999643211 1111   11  134788999999655332   222222221    1123458899999743


Q ss_pred             c---hhHHHHHHHHhCCCe
Q 011624          337 R---GGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ~---~g~~~~~~~~~glPV  352 (481)
                      .   ...+...+...+.++
T Consensus       136 ~~~~~~~~~~~~~~~~~~~  154 (195)
T 1x3s_A          136 REVDRNEGLKFARKHSMLF  154 (195)
T ss_dssp             CCSCHHHHHHHHHHTTCEE
T ss_pred             cccCHHHHHHHHHHcCCEE
Confidence            2   233455566666665

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=97.23  E-value=0.00074  Score=60.67  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|+++|.+||||||++..|.
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~   44 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALF   44 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            457788999999999998774

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=97.23  E-value=0.00087  Score=70.48  Aligned_cols=70  Identities=20%  Similarity=0.272  Sum_probs=32.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHH--Hhhh-hccCCceEEEEEeCcch--HHHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDEL--KDVK-RVLNPTEVLLVVDAMTG--QEAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el--~~i~-~~~~p~~vvLVvda~~~--~~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .++.+.|+||||..... .....+  .... .....+.+++|+|+..+  ........... . ...-+|+||+|...
T Consensus       270 ~g~~v~liDT~G~~~~~-~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~-~-~piivV~NK~Dl~~  344 (462)
T 3geh_A          270 GGIPVQVLDTAGIRETS-DQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQEIYEQVK-H-RPLILVMNKIDLVE  344 (462)
T ss_dssp             TTEEEEECC---------------------CCCCSCSEEEEEEETTTCSCHHHHHHHHHHT-T-SCEEEEEECTTSSC
T ss_pred             CCEEEEEEECCccccch-hHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHHHHHHHhcc-C-CcEEEEEECCCCCc
Confidence            46779999999974321 111111  1111 22345889999998543  22222233332 2 24558899999654

>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=97.22  E-value=0.00022  Score=66.44  Aligned_cols=42  Identities=31%  Similarity=0.442  Sum_probs=37.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~r  223 (481)
                      ++.+|++.|++|+||||++..|+..|. ..|.++.+++.|.++
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~d~~r   66 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIR   66 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECChHHh
Confidence            467999999999999999999999998 789999999877654

>1dul_A Signal recognition particle protein (fifty-four homolog); protein-RNA complex, double helix, tetraloop, internal loop, SRP, ribonucleoprotein; HET: CCC; 1.80A {Escherichia coli} SCOP: a.36.1.1 PDB: 2xkv_C

Probab=97.22  E-value=3.3e-05  Score=59.48  Aligned_cols=33  Identities=36%  Similarity=0.268  Sum_probs=30.1

Q ss_pred             hhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          449 AEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       449 ~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      ++..|+++++||+|||++|+.+|.|+++||++|
T Consensus         8 ~e~~lkr~~aII~SMT~~Er~nP~ii~~SR~~R   40 (69)
T 1dul_A            8 EQKVLVRMEAIINSMTMKERAKPEIIKGSRKRR   40 (69)
T ss_dssp             HCCHHHHHHHHHHTSCHHHHHCGGGCCHHHHHH
T ss_pred             hHHHHHHHHHHHHcCCHHHHhCccccCHHHHHH
Confidence            456789999999999999999999999998876

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=97.21  E-value=0.0013  Score=78.73  Aligned_cols=90  Identities=22%  Similarity=0.335  Sum_probs=60.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCC--CCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAG--TEVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~--~~~~~~~~l~~~l~  259 (481)
                      +.++|-+.|+.|+||||++...++...++|..+++||+.-.-    ++  .|+...|+++-..-  .+....+.+.-+-.
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~~~~g~~~~~i~~e~~~----~~--~~~~~~Gv~~~~l~~~~p~~~e~~l~~~~~ 1503 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHAL----DP--IYARKLGVDIDNLLCSQPDTGEQALEICDA 1503 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCC----CH--HHHHHTTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEecCCCC----CH--HHHHHcCCCHHHeEEeCCCcHHHHHHHHHH
Confidence            457999999999999999999999988999999999997321    12  23555666543221  11122333322222


Q ss_pred             HHHcCCCcEEEEcCCCCc
Q 011624          260 EAKKKNVDVVIVDTAGRL  277 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~  277 (481)
                      .+++...|+|+||....+
T Consensus      1504 ~~~s~~~~~vvvDsv~al 1521 (1706)
T 3cmw_A         1504 LARSGAVDVIVVDSVAAL 1521 (1706)
T ss_dssp             HHHHTCCSEEEESCSTTC
T ss_pred             HHHcCCCCEEEEccHHhC
Confidence            334578999999997554

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=97.21  E-value=0.0015  Score=68.02  Aligned_cols=114  Identities=22%  Similarity=0.229  Sum_probs=56.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      .|+++|.+||||||+...|.      |.+..+++ |  .|+.     +      ......               .+.+.
T Consensus         3 ~v~ivG~pnvGKStL~nrl~------~~~~~~v~-~--~~g~-----T------~d~~~~---------------~~~~~   47 (439)
T 1mky_A            3 TVLIVGRPNVGKSTLFNKLV------KKKKAIVE-D--EEGV-----T------RDPVQD---------------TVEWY   47 (439)
T ss_dssp             EEEEECCTTSSHHHHHHHHH------C----------------------------CCSEE---------------EEEET
T ss_pred             EEEEECCCCCCHHHHHHHHh------CCCCceec-C--CCCC-----c------cceeeE---------------EEEEC
Confidence            57899999999999998886      33332211 1  0110     0      000000               00124


Q ss_pred             CCcEEEEcCCCCccc-----cHHHHHHHHhhhhccCCceEEEEEeCcchHHH--HHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQI-----DKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA--AALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~-----d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~--~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      +..+.|+||||....     ...+.......  .-..+.+++|+|+..+...  ..........-...-+|+||+|..
T Consensus        48 ~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~--~~~ad~il~V~D~~~~~~~~d~~i~~~l~~~~~p~ilv~NK~D~~  123 (439)
T 1mky_A           48 GKTFKLVDTCGVFDNPQDIISQKMKEVTLNM--IREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENL  123 (439)
T ss_dssp             TEEEEEEECTTTTSSGGGCCCHHHHHHHHHH--HTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCCEEEEEESCCSH
T ss_pred             CeEEEEEECCCccccccchHHHHHHHHHHHH--HHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEeCCCCc
Confidence            556899999997532     11222221111  2245889999998543111  111121211122345889999974

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=97.21  E-value=0.0013  Score=78.65  Aligned_cols=102  Identities=21%  Similarity=0.373  Sum_probs=65.0

Q ss_pred             HHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          164 ELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       164 ~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      .|..+++ ++..       ++.++.+.|++|+||||++..++...+++|.+|++++++--...    +  ++...|++.-
T Consensus       370 ~LD~lLg~GGl~-------~G~lilI~G~pGsGKTtLaLq~a~~~~~~G~~vlyis~E~s~~~----~--~a~~lGvd~~  436 (1706)
T 3cmw_A          370 SLDIALGAGGLP-------MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDP----I--YARKLGVDID  436 (1706)
T ss_dssp             HHHHHTSSSSEE-------TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCH----H--HHHHTTCCGG
T ss_pred             HHHHHhccCCcC-------CCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEccCchHH----H--HHHHcCCCHH
Confidence            4555565 4332       46799999999999999999999999999999999999864322    1  1333444321


Q ss_pred             cCC-CCCCHHHHHHHHHHH-HHcCCCcEEEEcCCCCcc
Q 011624          243 TAG-TEVKPSQIAKQGLEE-AKKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       243 ~~~-~~~~~~~~l~~~l~~-~~~~~~D~VIIDt~G~~~  278 (481)
                      ... ...+..+.+.+.+.. .+..+.++||||....+.
T Consensus       437 ~L~i~~~~~~e~~l~~l~~lv~~~~~~lVVIDSL~al~  474 (1706)
T 3cmw_A          437 NLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALT  474 (1706)
T ss_dssp             GCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCSTTCC
T ss_pred             HeEEcCCCCHHHHHHHHHHHHHhcCCCEEEECCHHHhh
Confidence            110 011122323233332 224679999999976553

>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=97.21  E-value=0.00022  Score=64.44  Aligned_cols=38  Identities=32%  Similarity=0.486  Sum_probs=32.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      +.+|+++|++||||||++..|+..|..+|.+..+++.|
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~i~~~   40 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFG   40 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEEHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCcceEEEehH
Confidence            46899999999999999999999998888655556644

>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=97.20  E-value=0.00079  Score=62.16  Aligned_cols=82  Identities=18%  Similarity=0.157  Sum_probs=44.8

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||.... .   ......  ....+.+++|+|.+...+.   .   ..+..+...-...-+|.||+|.... 
T Consensus        74 ~~~l~l~Dt~G~~~~-~---~~~~~~--~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~  147 (201)
T 2ew1_A           74 KVKLQIWDTAGQERF-R---SITQSY--YRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERR  147 (201)
T ss_dssp             EEEEEEEEECCSGGG-H---HHHGGG--STTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC
T ss_pred             EEEEEEEECCCcHHH-H---HHHHHH--HhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcccc
Confidence            457899999996421 1   111111  2245788999998655332   1   2222222112234578999996421 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.|+
T Consensus       148 ~v~~~~~~~~~~~~~~~~  165 (201)
T 2ew1_A          148 EVSQQRAEEFSEAQDMYY  165 (201)
T ss_dssp             SSCHHHHHHHHHHHTCCE
T ss_pred             ccCHHHHHHHHHHcCCEE
Confidence               233445556667776

>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=97.20  E-value=0.0019  Score=58.71  Aligned_cols=83  Identities=19%  Similarity=0.092  Sum_probs=46.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH------HHHHHhhh--cCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA------ALVTTFNI--EIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~------~~~~~f~~--~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||.... ......   ...  ..+.+++|+|.....+..      ..+..+..  ..+ .-+|+||+|...
T Consensus        61 ~~~~~l~Dt~G~~~~-~~~~~~---~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl~~  133 (206)
T 2bov_A           61 EVQIDILDTAGQEDY-AAIRDN---YFR--SGEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKSDLED  133 (206)
T ss_dssp             EEEEEEEECCCTTCC-HHHHHH---HHH--HCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCC-EEEEEECTTCGG
T ss_pred             EEEEEEEcCCChhhh-HHHHHH---HHh--hCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEeccCccc
Confidence            457899999997532 222211   111  247789999986543221      12222221  233 458999999643


Q ss_pred             c----hhHHHHHHHHhCCCeEE
Q 011624          337 R----GGAALSVKEVSGKPIKL  354 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV~~  354 (481)
                      .    ...+...+...+.|+..
T Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~  155 (206)
T 2bov_A          134 KRQVSVEEAKNRAEQWNVNYVE  155 (206)
T ss_dssp             GCCSCHHHHHHHHHHHTCEEEE
T ss_pred             cccccHHHHHHHHHHhCCeEEE
Confidence            2    23445566667777633

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=97.20  E-value=0.00096  Score=61.08  Aligned_cols=82  Identities=20%  Similarity=0.073  Sum_probs=43.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHH---HHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALV---TTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~---~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||...... ....   .  ....+.+++|+|.....+..   ...   ......-...-+|+||+|.... 
T Consensus        73 ~~~l~l~Dt~G~~~~~~-~~~~---~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  146 (200)
T 2o52_A           73 TVKLQIWDTAGQERFRS-VTRS---Y--YRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPER  146 (200)
T ss_dssp             EEEEEEECCTTHHHHSC-CCHH---H--HTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGC
T ss_pred             eeEEEEEcCCCcHhHHH-HHHH---H--hccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccc
Confidence            36789999999532110 0000   1  11357889999986553321   111   2221112235588999996321 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.++
T Consensus       147 ~v~~~~~~~~~~~~~~~~  164 (200)
T 2o52_A          147 EVTFLEASRFAQENELMF  164 (200)
T ss_dssp             CSCHHHHHHHHHHTTCEE
T ss_pred             ccCHHHHHHHHHHcCCEE
Confidence               233455556667665

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=97.20  E-value=0.00067  Score=67.98  Aligned_cols=43  Identities=28%  Similarity=0.380  Sum_probs=36.9

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKK--QGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~--~G~kVlLId~D~~r  223 (481)
                      .+|.++.++|++||||||++..|+..+..  .+.+|.++..|.|-
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~f~  134 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGFL  134 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeecccc
Confidence            46889999999999999999999887764  35689999999874

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.20  E-value=0.00058  Score=73.78  Aligned_cols=110  Identities=27%  Similarity=0.324  Sum_probs=62.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCC--CCHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTE--VKPSQIAKQGLEE  260 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~--~~~~~~l~~~l~~  260 (481)
                      ..+++++|++|+||||++..++..+...|.+|++++ .+.+..  +.+   .+..+.+.......  ..+ +....  ..
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~A-pT~~Aa--~~L---~e~~~~~a~Tih~ll~~~~-~~~~~--~~  274 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCA-PTGKAA--RRL---GEVTGRTASTVHRLLGYGP-QGFRH--NH  274 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE-SSHHHH--HHH---HHHHTSCEEEHHHHTTEET-TEESC--SS
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEec-CcHHHH--HHh---HhhhcccHHHHHHHHcCCc-chhhh--hh
Confidence            458899999999999999999999999999998654 343322  233   22222222111000  000 00000  00


Q ss_pred             HHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeC
Q 011624          261 AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       261 ~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      .....+|++|||-+++++  ...+..+.....  ....+++|-|.
T Consensus       275 ~~~~~~dvlIIDEasml~--~~~~~~Ll~~~~--~~~~lilvGD~  315 (574)
T 3e1s_A          275 LEPAPYDLLIVDEVSMMG--DALMLSLLAAVP--PGARVLLVGDT  315 (574)
T ss_dssp             SSCCSCSEEEECCGGGCC--HHHHHHHHTTSC--TTCEEEEEECT
T ss_pred             cccccCCEEEEcCccCCC--HHHHHHHHHhCc--CCCEEEEEecc
Confidence            011368999999998864  445555433222  23457788775

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=97.20  E-value=0.0012  Score=68.61  Aligned_cols=67  Identities=16%  Similarity=0.243  Sum_probs=38.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---------HHHHHHHHhh-hcCCeeEEEEcCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---------EAAALVTTFN-IEIGITGAILTKLD  333 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---------~~~~~~~~f~-~~~~i~GvIlnKvD  333 (481)
                      .++.+.|+||||...    ....+..  .....+.+++|+|+..+.         ...+.+.... ..+...-+++||+|
T Consensus        82 ~~~~~~iiDtpG~~~----f~~~~~~--~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~D  155 (435)
T 1jny_A           82 KKYFFTIIDAPGHRD----FVKNMIT--GASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMD  155 (435)
T ss_dssp             SSCEEEECCCSSSTT----HHHHHHH--TSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGG
T ss_pred             CCeEEEEEECCCcHH----HHHHHHh--hhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEEccc
Confidence            567899999999754    2233322  223468899999996541         1111111111 12222457899999


Q ss_pred             CCC
Q 011624          334 GDS  336 (481)
Q Consensus       334 ~~~  336 (481)
                      ...
T Consensus       156 l~~  158 (435)
T 1jny_A          156 LTE  158 (435)
T ss_dssp             GSS
T ss_pred             CCC
Confidence            654

>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=97.19  E-value=0.0017  Score=56.36  Aligned_cols=84  Identities=23%  Similarity=0.188  Sum_probs=45.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH---HHHH---HHHhhh-cCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE---AAAL---VTTFNI-EIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~---~~~~---~~~f~~-~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+.|+||||.... ......   ...  ..+.+++|+|.....+   ....   +..+.. .-...-+|+||+|....
T Consensus        50 ~~~~~l~D~~G~~~~-~~~~~~---~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  123 (167)
T 1kao_A           50 PSVLEILDTAGTEQF-ASMRDL---YIK--NGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESE  123 (167)
T ss_dssp             EEEEEEEECCCTTCC-HHHHHH---HHH--HCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGG
T ss_pred             EEEEEEEECCCchhh-HHHHHH---Hhc--cCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCccccc
Confidence            456889999996432 222221   111  2377899999865432   2211   222211 11234589999995321


Q ss_pred             ----hhHHHHHHHHhCCCeEE
Q 011624          338 ----GGAALSVKEVSGKPIKL  354 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV~~  354 (481)
                          .......+...+.|+..
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~  144 (167)
T 1kao_A          124 REVSSSEGRALAEEWGCPFME  144 (167)
T ss_dssp             CCSCHHHHHHHHHHHTSCEEE
T ss_pred             ccCCHHHHHHHHHHhCCCEEE
Confidence                23345566667877743

>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=97.18  E-value=0.0015  Score=58.25  Aligned_cols=83  Identities=20%  Similarity=0.115  Sum_probs=44.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHH---HHHhhhc-CCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AAL---VTTFNIE-IGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~---~~~f~~~-~~i~GvIlnKvD~~~~  337 (481)
                      .+.+.|+||||...... ....   ...  ..+.+++|+|.....+.   ...   +..+... -...-+|+||+|....
T Consensus        51 ~~~~~i~Dt~G~~~~~~-~~~~---~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~  124 (189)
T 4dsu_A           51 TCLLDILDTAGQEEYSA-MRDQ---YMR--TGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSR  124 (189)
T ss_dssp             EEEEEEEECCCC---CT-THHH---HHH--HCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSC
T ss_pred             EEEEEEEECCCcHHHHH-HHHH---HHh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCccc
Confidence            35577899999643221 1111   111  24778999998654322   111   2222111 1234588999996432


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+..++...+.|+.
T Consensus       125 ~~~~~~~~~~~~~~~~~~~  143 (189)
T 4dsu_A          125 TVDTKQAQDLARSYGIPFI  143 (189)
T ss_dssp             SSCHHHHHHHHHHHTCCEE
T ss_pred             ccCHHHHHHHHHHcCCeEE
Confidence               3445667777888873

>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=97.17  E-value=0.00065  Score=67.01  Aligned_cols=43  Identities=26%  Similarity=0.311  Sum_probs=35.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcC--Ce-EEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQG--KS-CMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G--~k-VlLId~D~~r  223 (481)
                      .+|.+|+++|++||||||++..|+..|...|  .+ +.+|..|.|-
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f~   74 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFY   74 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGB
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEecccccc
Confidence            4678999999999999999999999988655  44 4454999863

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=97.16  E-value=0.00079  Score=60.90  Aligned_cols=23  Identities=26%  Similarity=0.497  Sum_probs=19.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .+.-|+++|.+||||||++..|.
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~   38 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVK   38 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHh
Confidence            34678889999999999998874

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=97.15  E-value=0.0011  Score=72.04  Aligned_cols=80  Identities=24%  Similarity=0.318  Sum_probs=45.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCCCCCC-chhH
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKLDGDS-RGGA  340 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKvD~~~-~~g~  340 (481)
                      ++.+.||||||...    ...++...+..  .+.+++|+|+..+   ++..........+++ .-+++||+|... ....
T Consensus        70 ~~~l~liDTPGh~d----F~~ev~~~l~~--aD~aILVVDa~~gv~~qt~~~~~~~~~~~ip-iIvViNKiDl~~a~~~~  142 (599)
T 3cb4_D           70 TYQLNFIDTPGHVD----FSYEVSRSLAA--CEGALLVVDAGQGVEAQTLANCYTAMEMDLE-VVPVLNKIDLPAADPER  142 (599)
T ss_dssp             EEEEEEEECCCCGG----GHHHHHHHHHH--CSEEEEEEETTTCCCTHHHHHHHHHHHTTCE-EEEEEECTTSTTCCHHH
T ss_pred             eEEEEEEECCCchH----HHHHHHHHHHH--CCEEEEEEECCCCCCHHHHHHHHHHHHCCCC-EEEeeeccCcccccHHH
Confidence            47788999999854    33333333333  3889999999554   332222122222333 458899999643 2222


Q ss_pred             -HHHHHHHhCCC
Q 011624          341 -ALSVKEVSGKP  351 (481)
Q Consensus       341 -~~~~~~~~glP  351 (481)
                       ...+....+.+
T Consensus       143 v~~ei~~~lg~~  154 (599)
T 3cb4_D          143 VAEEIEDIVGID  154 (599)
T ss_dssp             HHHHHHHHTCCC
T ss_pred             HHHHHHHHhCCC
Confidence             34455556654

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=97.15  E-value=0.0029  Score=66.17  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=19.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .+.-++++|.+|+||||+...|.
T Consensus       194 ~~~ki~ivG~~~vGKSslin~l~  216 (456)
T 4dcu_A          194 EVIQFCLIGRPNVGKSSLVNAML  216 (456)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHH
T ss_pred             ccceeEEecCCCCCHHHHHHHHh
Confidence            45678889999999999998875

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=97.15  E-value=0.0022  Score=63.86  Aligned_cols=172  Identities=16%  Similarity=0.170  Sum_probs=83.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHH--HHHhhh---hcCCCeecCCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQ--LVILGE---QVGVPVYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidq--l~~~~~---~~gv~v~~~~~~~~~~~~l~~~l  258 (481)
                      .+++++|++|+||||+...|+...  .|+++++|..|.-.... +.  +.....   ...-.|+......+....+...+
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~~--~~~~~aVi~~d~G~i~i-dg~~l~~~~~~~~el~~gCicc~~~~~~~~~l~~l~   81 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNEQ--HGYKIAVIENEFGEVSV-DDQLIGDRATQIKTLTNGCICCSRSNELEDALLDLL   81 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHSC--CCCCEEEECSSCCSCCE-EEEEECTTSCEEEEETTSCEEECTTSCHHHHHHHHH
T ss_pred             cEEEEEecCCCCHHHHHHHHHhhc--CCCcEEEEEecCcccCc-cHHHHhCCCCCEEEECCCceEEcccHHHHHHHHHHH
Confidence            588999999999999998887543  68999999888532110 00  000000   00001111111122222233332


Q ss_pred             HHHHcC--CCcEEEEcCCCCccccHHHHHHH---HhhhhccCCceEEEEEeCcchHHHHHHH-HHhhhcCCeeEEEEcCC
Q 011624          259 EEAKKK--NVDVVIVDTAGRLQIDKAMMDEL---KDVKRVLNPTEVLLVVDAMTGQEAAALV-TTFNIEIGITGAILTKL  332 (481)
Q Consensus       259 ~~~~~~--~~D~VIIDt~G~~~~d~~~~~el---~~i~~~~~p~~vvLVvda~~~~~~~~~~-~~f~~~~~i~GvIlnKv  332 (481)
                      ...+..  .+|++++|+.+..... .+...+   ........-+.++-++|+.......... ..........-+|+||.
T Consensus        82 ~~~q~~~~~~~~~v~E~~~l~~p~-~~~~~~~~~~~~~~~~~l~~~l~~vd~~~~~~~~~~ls~g~~Q~~~ad~ill~k~  160 (318)
T 1nij_A           82 DNLDKGNIQFDRLVIECTGMADPG-PIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLTKT  160 (318)
T ss_dssp             HHHHHTSCCCSEEEEEEETTCCHH-HHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHHTCSEEEEECT
T ss_pred             hHHhcCCCCCCEEEEeCCCCCCHH-HHHHHHhcCccccCeEEECCEEEEEEHHHHHHHHhhchHHHHHHHhCCEEEEECc
Confidence            111223  3599999998865321 111111   1111111124566677874332211110 11111234556788999


Q ss_pred             CCCCchhHHHHHHHH--hCCCeEEeecCC
Q 011624          333 DGDSRGGAALSVKEV--SGKPIKLVGRGE  359 (481)
Q Consensus       333 D~~~~~g~~~~~~~~--~glPV~~ig~g~  359 (481)
                      |.......+......  .+.+|.++..++
T Consensus       161 dl~de~~~l~~~l~~l~~~~~ii~~sh~~  189 (318)
T 1nij_A          161 DVAGEAEKLHERLARINARAPVYTVTHGD  189 (318)
T ss_dssp             TTCSCTHHHHHHHHHHCSSSCEEECCSSC
T ss_pred             ccCCHHHHHHHHHHHhCCCCeEEEecccC
Confidence            965332344444433  356776666654

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=97.14  E-value=0.0073  Score=67.05  Aligned_cols=74  Identities=18%  Similarity=0.210  Sum_probs=42.6

Q ss_pred             CCcEEEEcCCCCcccc--------HHHHHHH-HhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCC
Q 011624          265 NVDVVIVDTAGRLQID--------KAMMDEL-KDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKL  332 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d--------~~~~~el-~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKv  332 (481)
                      ..+++||||||.....        .....++ ..... -..+-+++|+|+..+   ++....+....+.-...-+|+||+
T Consensus       149 ~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~-~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~~g~pvIlVlNKi  227 (772)
T 3zvr_A          149 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVT-KENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKL  227 (772)
T ss_dssp             CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHT-STTEEEEEEEETTSCSSSCHHHHHHHHHCTTCSSEEEEEECT
T ss_pred             CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHh-cCCcEEEEEEcCCCCcchhHHHHHHHHHHhcCCCEEEEEeCc
Confidence            3578999999986521        1122222 11221 234677889998542   343355555554333456899999


Q ss_pred             CCCCchh
Q 011624          333 DGDSRGG  339 (481)
Q Consensus       333 D~~~~~g  339 (481)
                      |......
T Consensus       228 Dlv~~~~  234 (772)
T 3zvr_A          228 DLMDEGT  234 (772)
T ss_dssp             TSSCTTC
T ss_pred             ccCCcch
Confidence            9765443

>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=97.14  E-value=0.0031  Score=56.16  Aligned_cols=85  Identities=14%  Similarity=0.094  Sum_probs=46.4

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HH---HHHHhh--hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AA---LVTTFN--IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~---~~~~f~--~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||...... ....   ...  ..+.+++|+|.....+.   ..   .+..+.  ...+ .-+|.||+|...
T Consensus        65 ~~~l~i~Dt~G~~~~~~-~~~~---~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl~~  137 (183)
T 3kkq_A           65 WAILDVLDTAGQEEFSA-MREQ---YMR--TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP-MILVANKVDLMH  137 (183)
T ss_dssp             EEEEEEEECCSCGGGCS-SHHH---HHH--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCC-EEEEEECTTCST
T ss_pred             EEEEEEEECCCchhhHH-HHHH---HHh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc-EEEEEECCCchh
Confidence            34466799999643211 1111   111  24788999998655322   11   122211  1222 458899999632


Q ss_pred             ----chhHHHHHHHHhCCCeEEee
Q 011624          337 ----RGGAALSVKEVSGKPIKLVG  356 (481)
Q Consensus       337 ----~~g~~~~~~~~~glPV~~ig  356 (481)
                          ....+..++...+.|+..+.
T Consensus       138 ~~~v~~~~~~~~~~~~~~~~~~~S  161 (183)
T 3kkq_A          138 LRKVTRDQGKEMATKYNIPYIETS  161 (183)
T ss_dssp             TCCSCHHHHHHHHHHHTCCEEEEB
T ss_pred             ccCcCHHHHHHHHHHhCCeEEEec
Confidence                23445667777888874443

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=97.14  E-value=0.0014  Score=71.02  Aligned_cols=79  Identities=22%  Similarity=0.286  Sum_probs=44.0

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhhcCCeeEEEEcCCCCCC-chhH
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNIEIGITGAILTKLDGDS-RGGA  340 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~~~~i~GvIlnKvD~~~-~~g~  340 (481)
                      .+.+.||||||...    ...++...+.  ..+.+++|+|+..+   +...........+++ .-+++||+|... ....
T Consensus        72 ~~~inliDTPGh~d----F~~ev~r~l~--~aD~aILVVDa~~gv~~qt~~~~~~a~~~~ip-iIvviNKiDl~~a~~~~  144 (600)
T 2ywe_A           72 TYKLHLIDTPGHVD----FSYEVSRALA--ACEGALLLIDASQGIEAQTVANFWKAVEQDLV-IIPVINKIDLPSADVDR  144 (600)
T ss_dssp             EEEEEEECCCCSGG----GHHHHHHHHH--TCSEEEEEEETTTBCCHHHHHHHHHHHHTTCE-EEEEEECTTSTTCCHHH
T ss_pred             eEEEEEEECCCcHh----HHHHHHHHHH--hCCEEEEEEECCCCccHHHHHHHHHHHHCCCC-EEEEEeccCccccCHHH
Confidence            46788999999864    3334433333  34889999999654   222111111222333 457899999643 2222


Q ss_pred             H-HHHHHHhCC
Q 011624          341 A-LSVKEVSGK  350 (481)
Q Consensus       341 ~-~~~~~~~gl  350 (481)
                      . ..+....++
T Consensus       145 v~~el~~~lg~  155 (600)
T 2ywe_A          145 VKKQIEEVLGL  155 (600)
T ss_dssp             HHHHHHHTSCC
T ss_pred             HHHHHHHhhCC
Confidence            2 334444454

>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=97.13  E-value=0.0011  Score=59.36  Aligned_cols=82  Identities=17%  Similarity=0.042  Sum_probs=44.5

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH------HHHHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA------ALVTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~------~~~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||.... .   ......  ....+.+++|+|+....+..      ..+..+...-...-+|+||+|.... 
T Consensus        58 ~~~~~l~Dt~G~~~~-~---~~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  131 (186)
T 2bme_A           58 YVKLQIWDTAGQERF-R---SVTRSY--YRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADR  131 (186)
T ss_dssp             EEEEEEEEECCSGGG-H---HHHHTT--STTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC
T ss_pred             EEEEEEEeCCCcHHH-H---HHHHHH--HhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccccccc
Confidence            357899999996431 1   111111  22357889999986553321      1122222122235688999996421 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.|+
T Consensus       132 ~~~~~~~~~~~~~~~~~~  149 (186)
T 2bme_A          132 EVTFLEASRFAQENELMF  149 (186)
T ss_dssp             CSCHHHHHHHHHHTTCEE
T ss_pred             ccCHHHHHHHHHHcCCEE
Confidence               233445555666665

>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=97.13  E-value=0.0016  Score=56.81  Aligned_cols=68  Identities=16%  Similarity=0.205  Sum_probs=38.4

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhhh----cCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFNI----EIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~~----~~~i~GvIlnKvD~~~  336 (481)
                      .++.+.|+||||.... ......   .  ....+.+++|+|.....+.   ......+..    .-...-+|.||+|...
T Consensus        42 ~~~~~~i~Dt~G~~~~-~~~~~~---~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  115 (164)
T 1r8s_A           42 KNISFTVWDVGGQDKI-RPLWRH---Y--FQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN  115 (164)
T ss_dssp             SSCEEEEEECCCCGGG-HHHHHH---H--TTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             CCEEEEEEEcCCChhh-HHHHHH---H--hccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcC
Confidence            4577999999997432 111111   1  1245888999998654322   222222211    1223568899999754


Q ss_pred             c
Q 011624          337 R  337 (481)
Q Consensus       337 ~  337 (481)
                      .
T Consensus       116 ~  116 (164)
T 1r8s_A          116 A  116 (164)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=97.13  E-value=0.0018  Score=58.25  Aligned_cols=110  Identities=16%  Similarity=0.175  Sum_probs=57.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +..-|+++|.+||||||+...|..     +..+.   ..+              ..+......                 
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~-----~~~~~---~~~--------------t~~~~~~~~-----------------   55 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSM-----NEVVH---TSP--------------TIGSNVEEI-----------------   55 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHT-----TSCEE---EEC--------------CSCSSCEEE-----------------
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc-----CCCCc---CcC--------------CCccceEEE-----------------
Confidence            346788899999999999988751     22111   001              011111100                 


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---HHHHHHHHhhh----cCCeeEEEEcCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---EAAALVTTFNI----EIGITGAILTKLDG  334 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---~~~~~~~~f~~----~~~i~GvIlnKvD~  334 (481)
                      ...++.+.|+||||...... ....   .  ....+.+++|+|++...   ........+..    .-...-+|+||+|.
T Consensus        56 ~~~~~~~~i~Dt~G~~~~~~-~~~~---~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  129 (187)
T 1zj6_A           56 VINNTRFLMWDIGGQESLRS-SWNT---Y--YTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV  129 (187)
T ss_dssp             EETTEEEEEEECCC----CG-GGHH---H--HTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTS
T ss_pred             EECCEEEEEEECCCCHhHHH-HHHH---H--hcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCC
Confidence            01357799999999743211 1111   1  12358889999986542   22222222211    12235688999997


Q ss_pred             CC
Q 011624          335 DS  336 (481)
Q Consensus       335 ~~  336 (481)
                      ..
T Consensus       130 ~~  131 (187)
T 1zj6_A          130 KE  131 (187)
T ss_dssp             TT
T ss_pred             cC
Confidence            54

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.13  E-value=0.0011  Score=80.23  Aligned_cols=89  Identities=20%  Similarity=0.356  Sum_probs=58.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecC--CCCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTA--GTEVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~--~~~~~~~~~l~~~l~  259 (481)
                      ++.++.+.|++|+||||++..+|...+++|.+|++++++--..    ++  ++...|++.-..  ....+..+ +.+.+.
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a~~G~~vlyis~E~s~~----~~--~a~~lGvd~~~L~I~~~~~~e~-il~~~~  454 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALD----PI--YARKLGVDIDNLLCSQPDTGEQ-ALEICD  454 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCC----HH--HHHHTTCCTTTCEEECCSSHHH-HHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEcCCCHH----HH--HHHHcCCCHHHeEEeCCCCHHH-HHHHHH
Confidence            4679999999999999999999999999999999999985332    11  133344432110  01122233 333333


Q ss_pred             HH-HcCCCcEEEEcCCCCc
Q 011624          260 EA-KKKNVDVVIVDTAGRL  277 (481)
Q Consensus       260 ~~-~~~~~D~VIIDt~G~~  277 (481)
                      .+ +..++++||||....+
T Consensus       455 ~lv~~~~~~lIVIDSL~al  473 (2050)
T 3cmu_A          455 ALARSGAVDVIVVDSVAAL  473 (2050)
T ss_dssp             HHHHHTCCSEEEESCGGGC
T ss_pred             HHHHhcCCcEEEECCHHHh
Confidence            32 2467999999997554

>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=97.13  E-value=0.00064  Score=67.43  Aligned_cols=40  Identities=28%  Similarity=0.370  Sum_probs=35.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +..+++.|++|+||||++..++..+...|.++..++++.+
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~   76 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDF   76 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHH
Confidence            4568899999999999999999999888999999987654

>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=97.12  E-value=0.00062  Score=61.64  Aligned_cols=83  Identities=17%  Similarity=0.164  Sum_probs=45.5

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.+.|+||||.... ......   ..  ...+.+++|+|.....+.   .   ..+..+...-...-+|.||+|....
T Consensus        70 ~~~~~~i~Dt~G~~~~-~~~~~~---~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~  143 (191)
T 3dz8_A           70 KRVKLQIWDTAGQERY-RTITTA---YY--RGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEE  143 (191)
T ss_dssp             TTEEEEEECHHHHHHC-HHHHHH---HH--TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             EEEEEEEEeCCChHHH-HHHHHH---HH--ccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccc
Confidence            4567899999985321 111111   12  234788999998654322   1   2222222122235588999996322


Q ss_pred             ----hhHHHHHHHHhCCCe
Q 011624          338 ----GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV  352 (481)
                          ...+..++...+.|+
T Consensus       144 ~~~~~~~~~~~~~~~~~~~  162 (191)
T 3dz8_A          144 RVVPTEKGQLLAEQLGFDF  162 (191)
T ss_dssp             CCSCHHHHHHHHHHHTCEE
T ss_pred             cccCHHHHHHHHHHcCCeE
Confidence                233455666778776

>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=97.12  E-value=0.00033  Score=67.21  Aligned_cols=43  Identities=26%  Similarity=0.461  Sum_probs=35.6

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHH-----cCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKK-----QGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~-----~G~kVlLId~D~~r  223 (481)
                      .+|.+|+++|++||||||++..|+..|..     .|++|.++++|-|-
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~   67 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFY   67 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGB
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCccc
Confidence            35789999999999999999999887653     36789999999763

>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=97.10  E-value=0.0011  Score=59.72  Aligned_cols=83  Identities=19%  Similarity=0.153  Sum_probs=45.0

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---H---HHHHHhh--hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---A---ALVTTFN--IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~---~~~~~f~--~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||...........   ..  ...+.+++|+|++...+.   .   ..+..+.  ... ..-+|+||+|...
T Consensus        68 ~~~~~l~Dt~G~~~~~~~~~~~---~~--~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-piilv~nK~Dl~~  141 (189)
T 1z06_A           68 RIKIQLWDTAGQERFRKSMVQH---YY--RNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDI-PRILVGNKCDLRS  141 (189)
T ss_dssp             EEEEEEEECCCSHHHHTTTHHH---HH--TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCC-CEEEEEECTTCGG
T ss_pred             EEEEEEEECCCchhhhhhhhHH---Hh--cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC-CEEEEEECccccc
Confidence            4678999999963211011111   11  235788999998654322   1   1222221  122 3458899999643


Q ss_pred             c----hhHHHHHHHHhCCCeE
Q 011624          337 R----GGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV~  353 (481)
                      .    ...+..++...+.++.
T Consensus       142 ~~~v~~~~~~~~~~~~~~~~~  162 (189)
T 1z06_A          142 AIQVPTDLAQKFADTHSMPLF  162 (189)
T ss_dssp             GCCSCHHHHHHHHHHTTCCEE
T ss_pred             cceeCHHHHHHHHHHcCCEEE
Confidence            2    2334556666777763

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=97.08  E-value=0.00072  Score=60.66  Aligned_cols=110  Identities=16%  Similarity=0.177  Sum_probs=58.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +..-|+++|.+||||||+...|..      .+..     .+           ....|......                 
T Consensus        20 ~~~~i~v~G~~~~GKSsli~~l~~------~~~~-----~~-----------~~t~~~~~~~~-----------------   60 (181)
T 2h17_A           20 QEHKVIIVGLDNAGKTTILYQFSM------NEVV-----HT-----------SPTIGSNVEEI-----------------   60 (181)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHT------TSCE-----EE-----------ECCSSSSCEEE-----------------
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhc------CCCC-----cc-----------CCcCceeeEEE-----------------
Confidence            446788899999999999988752      1111     00           00111111100                 


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---HHHHHHHHhhh----cCCeeEEEEcCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---EAAALVTTFNI----EIGITGAILTKLDG  334 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---~~~~~~~~f~~----~~~i~GvIlnKvD~  334 (481)
                      ...++.+.|+||||...... .   ....  ....+.+++|+|+....   ........+..    .-...-+|+||+|.
T Consensus        61 ~~~~~~~~i~Dt~G~~~~~~-~---~~~~--~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  134 (181)
T 2h17_A           61 VINNTRFLMWDIGGQESLRS-S---WNTY--YTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDV  134 (181)
T ss_dssp             EETTEEEEEEEESSSGGGTC-G---GGGG--GTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             EECCEEEEEEECCCCHhHHH-H---HHHH--hccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCc
Confidence            11357799999999743211 1   0111  12357889999986542   22222222211    12235588999997


Q ss_pred             CC
Q 011624          335 DS  336 (481)
Q Consensus       335 ~~  336 (481)
                      ..
T Consensus       135 ~~  136 (181)
T 2h17_A          135 KE  136 (181)
T ss_dssp             TT
T ss_pred             cc
Confidence            44

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=97.07  E-value=0.0026  Score=61.62  Aligned_cols=21  Identities=29%  Similarity=0.525  Sum_probs=18.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|+++|.+|+||||+...|.
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~   29 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLF   29 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            458889999999999998874

>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=97.07  E-value=0.0021  Score=57.80  Aligned_cols=110  Identities=20%  Similarity=0.209  Sum_probs=59.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +..-|+++|.+||||||+...|.      +....     .+.|           ..|......                 
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~------~~~~~-----~~~~-----------t~g~~~~~~-----------------   55 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLA------SEDIS-----HITP-----------TQGFNIKSV-----------------   55 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHC------CSCCE-----EEEE-----------ETTEEEEEE-----------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHh------cCCCC-----cccC-----------cCCeEEEEE-----------------
Confidence            35678889999999999998774      21111     1111           111111100                 


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhhh----cCCeeEEEEcCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFNI----EIGITGAILTKLDG  334 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~~----~~~i~GvIlnKvD~  334 (481)
                      ...++.+.++||||..... ....   ...  ...+.+++|+|++...+..   .....+..    .-...-+|.||+|.
T Consensus        56 ~~~~~~l~i~Dt~G~~~~~-~~~~---~~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl  129 (181)
T 1fzq_A           56 QSQGFKLNVWDIGGQRKIR-PYWR---SYF--ENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDL  129 (181)
T ss_dssp             EETTEEEEEEECSSCGGGH-HHHH---HHH--TTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTS
T ss_pred             EECCEEEEEEECCCCHHHH-HHHH---HHh--CCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCc
Confidence            0135678999999974321 1111   111  2358889999986543222   22222211    11234588999997


Q ss_pred             CC
Q 011624          335 DS  336 (481)
Q Consensus       335 ~~  336 (481)
                      ..
T Consensus       130 ~~  131 (181)
T 1fzq_A          130 LT  131 (181)
T ss_dssp             TT
T ss_pred             cc
Confidence            54

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=97.06  E-value=0.00054  Score=62.52  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=18.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..-|+++|.+||||||+...|.
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~   29 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYV   29 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEEECcCCCCHHHHHHHHH
Confidence            4567889999999999998775

>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=97.06  E-value=0.0022  Score=56.64  Aligned_cols=21  Identities=29%  Similarity=0.510  Sum_probs=18.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|+++|.+|+||||+...|.
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~   28 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYV   28 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            457888999999999998875

>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=97.05  E-value=0.00076  Score=62.29  Aligned_cols=84  Identities=19%  Similarity=0.124  Sum_probs=46.8

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH---HHHhhh----cCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL---VTTFNI----EIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~---~~~f~~----~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+.|+||||...    .........  ...+.+++|+|+.........   +..+..    .-...-+|+||+|....
T Consensus        83 ~~~l~l~Dt~G~~~----~~~~~~~~~--~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~  156 (217)
T 2f7s_A           83 KVHLQLWDTAGQER----FRSLTTAFF--RDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQ  156 (217)
T ss_dssp             EEEEEEEEEESHHH----HHHHHHHHH--TTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGG
T ss_pred             eEEEEEEECCCcHh----HHhHHHHHh--cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccc
Confidence            56789999999532    111111112  234788999999665443222   222221    11234588999996431


Q ss_pred             ----hhHHHHHHHHhCCCeEE
Q 011624          338 ----GGAALSVKEVSGKPIKL  354 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV~~  354 (481)
                          ...+..++...++|+..
T Consensus       157 ~~v~~~~~~~~~~~~~~~~~~  177 (217)
T 2f7s_A          157 REVNERQARELADKYGIPYFE  177 (217)
T ss_dssp             CCSCHHHHHHHHHHTTCCEEE
T ss_pred             cccCHHHHHHHHHHCCCcEEE
Confidence                23445566667777643

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=97.04  E-value=0.0044  Score=55.35  Aligned_cols=20  Identities=40%  Similarity=0.642  Sum_probs=17.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+||||||+...|.
T Consensus         3 ki~v~G~~~~GKSsli~~l~   22 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLT   22 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            36788999999999998875

>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=97.03  E-value=0.005  Score=55.48  Aligned_cols=81  Identities=21%  Similarity=0.161  Sum_probs=44.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH------HHHHHHhh---hcCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA------AALVTTFN---IEIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~------~~~~~~f~---~~~~i~GvIlnKvD~~  335 (481)
                      .+.+.|+||||.... ......   ...  ..+.+++|+|.......      ...+..+.   ...+ .-+|+||+|..
T Consensus        55 ~~~~~l~Dt~G~~~~-~~~~~~---~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~p-iilv~nK~Dl~  127 (199)
T 2gf0_A           55 VCTLQITDTTGSHQF-PAMQRL---SIS--KGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIP-VMLVGNKCDET  127 (199)
T ss_dssp             EEEEEEEECCGGGSC-HHHHHH---HHH--HCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSC-EEEEEECTTCS
T ss_pred             EEEEEEEeCCChHHh-HHHHHH---hhc--cCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccCC
Confidence            467899999996432 222111   111  23788999998654321      22222222   2333 45899999964


Q ss_pred             Cc---hhHHHHHHHHhCCCe
Q 011624          336 SR---GGAALSVKEVSGKPI  352 (481)
Q Consensus       336 ~~---~g~~~~~~~~~glPV  352 (481)
                      ..   ...+...+...+.++
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~  147 (199)
T 2gf0_A          128 QREVDTREAQAVAQEWKCAF  147 (199)
T ss_dssp             SCSSCHHHHHHHHHHHTCEE
T ss_pred             ccccCHHHHHHHHHHhCCeE
Confidence            32   233345556667665

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=97.02  E-value=0.0059  Score=65.10  Aligned_cols=93  Identities=11%  Similarity=0.097  Sum_probs=49.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhhhcCCeeEEEEcCCCCCCch--
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFNIEIGITGAILTKLDGDSRG--  338 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~~~~~i~GvIlnKvD~~~~~--  338 (481)
                      .++.+.|+||||.-.... ....   ..  ..++.+++|+|++...+.   ...+..+....+ .-+|.||+|.....  
T Consensus        96 ~~~~~~i~Dt~G~e~~~~-~~~~---~l--~~~d~ii~V~D~s~~~~~~~~~~~l~~~~~~~p-vilV~NK~Dl~~~~~v  168 (535)
T 3dpu_A           96 KECLFHFWDFGGQEIMHA-SHQF---FM--TRSSVYMLLLDSRTDSNKHYWLRHIEKYGGKSP-VIVVMNKIDENPSYNI  168 (535)
T ss_dssp             TTCEEEEECCCSCCTTTT-TCHH---HH--HSSEEEEEEECGGGGGGHHHHHHHHHHHSSSCC-EEEEECCTTTCTTCCC
T ss_pred             ceEEEEEEECCcHHHHHH-HHHH---Hc--cCCcEEEEEEeCCCchhHHHHHHHHHHhCCCCC-EEEEEECCCccccccc
Confidence            367899999999532211 1111   11  125788999999655433   333444443344 45899999964322  


Q ss_pred             --hHHHHHHHHhCCCeEEee--cCCCCCC
Q 011624          339 --GAALSVKEVSGKPIKLVG--RGERMED  363 (481)
Q Consensus       339 --g~~~~~~~~~glPV~~ig--~g~~v~d  363 (481)
                        ..+.......+.|+..+.  .+.++++
T Consensus       169 ~~~~~~~~~~~~~~~~~~vSA~~g~gi~e  197 (535)
T 3dpu_A          169 EQKKINERFPAIENRFHRISCKNGDGVES  197 (535)
T ss_dssp             CHHHHHHHCGGGTTCEEECCC-----CTT
T ss_pred             CHHHHHHHHHhcCCceEEEecCcccCHHH
Confidence              223344445677775443  3344444

>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=97.02  E-value=0.0018  Score=57.32  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=18.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..-|+++|.+||||||+...|.
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~   30 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFI   30 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4567888999999999998876

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=97.02  E-value=0.00078  Score=59.18  Aligned_cols=67  Identities=18%  Similarity=0.141  Sum_probs=37.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhh----cCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNI----EIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~----~~~i~GvIlnKvD~~~~  337 (481)
                      ++.+.|+||||...... .   ....  ....+.+++|+|+...   .........+..    .-...-+|+||+|....
T Consensus        50 ~~~~~~~Dt~G~~~~~~-~---~~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  123 (171)
T 1upt_A           50 NLKFQVWDLGGLTSIRP-Y---WRCY--YSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA  123 (171)
T ss_dssp             TEEEEEEEECCCGGGGG-G---GGGG--CTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             CEEEEEEECCCChhhhH-H---HHHH--hccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCC
Confidence            56789999999743111 1   1111  1245888999998544   222222222211    12235688999997543

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=97.01  E-value=0.0016  Score=67.68  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=19.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .+.-++++|.+||||||+...|.
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~  196 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAML  196 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHh
Confidence            45678889999999999998875

>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=97.01  E-value=0.0022  Score=64.14  Aligned_cols=94  Identities=20%  Similarity=0.263  Sum_probs=55.2

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHc---CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQ---GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQG  257 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~---G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~  257 (481)
                      ..+..++++|++|+||||++..++..+...   +..+..+++..... ..+.+.......+.+.-.  ......+.....
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~-~~~~~~~i~~~l~~~~~~--~~~~~~~~~~~l  119 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDT-PYRVLADLLESLDVKVPF--TGLSIAELYRRL  119 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCS-HHHHHHHHTTTTSCCCCS--SSCCHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCC-HHHHHHHHHHHhCCCCCC--CCCCHHHHHHHH
Confidence            346688999999999999999999888765   78888888754321 111222223333333211  122233434333


Q ss_pred             HHHHHcC-CCcEEEEcCCCCc
Q 011624          258 LEEAKKK-NVDVVIVDTAGRL  277 (481)
Q Consensus       258 l~~~~~~-~~D~VIIDt~G~~  277 (481)
                      ...+... ...++|||-+..+
T Consensus       120 ~~~l~~~~~~~vlilDE~~~l  140 (386)
T 2qby_A          120 VKAVRDYGSQVVIVLDEIDAF  140 (386)
T ss_dssp             HHHHHTCCSCEEEEEETHHHH
T ss_pred             HHHHhccCCeEEEEEcChhhh
Confidence            3333322 2568999976544

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=97.00  E-value=0.0018  Score=59.34  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=18.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +.-|+++|.+||||||+...|.
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~   46 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLK   46 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHh
Confidence            4567889999999999998874

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.00  E-value=0.0025  Score=60.19  Aligned_cols=39  Identities=33%  Similarity=0.482  Sum_probs=30.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+|+||++.|++||||||.+..|+..|   |.. .+-..|.+|
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~---g~~-hIstGdllR   65 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF---HFN-HLSSGDLLR   65 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH---CCE-EECHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH---CCc-eEcHHHHHH
Confidence            468999999999999999999999766   443 334456665

>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=97.00  E-value=0.0046  Score=62.07  Aligned_cols=40  Identities=28%  Similarity=0.220  Sum_probs=34.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc--------CCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ--------GKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~--------G~kVlLId~D~  221 (481)
                      .+..++++|++|+||||++..++..+...        +..+..+++..
T Consensus        44 ~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~   91 (384)
T 2qby_B           44 VKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCRE   91 (384)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECcc
Confidence            45689999999999999999999988765        78888888654

>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=96.99  E-value=0.0022  Score=55.86  Aligned_cols=82  Identities=16%  Similarity=0.101  Sum_probs=43.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH---HHH---HHHHhh--hcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE---AAA---LVTTFN--IEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~---~~~---~~~~f~--~~~~i~GvIlnKvD~~  335 (481)
                      ..+.+.|+||||...... ....   ...  ..+.+++|+|.....+   ...   .+..+.  ...+ .-+|+||+|..
T Consensus        49 ~~~~~~l~D~~G~~~~~~-~~~~---~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl~  121 (167)
T 1c1y_A           49 QQCMLEILDTAGTEQFTA-MRDL---YMK--NGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVP-MILVGNKCDLE  121 (167)
T ss_dssp             CEEEEEEEEECSSCSSTT-HHHH---HHH--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCC-EEEEEECTTCG
T ss_pred             EEEEEEEEECCChHHHHH-HHHH---Hhc--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCc-EEEEEECcccc
Confidence            346789999999653221 1111   111  2377899999865432   111   222221  1233 45899999964


Q ss_pred             Cc----hhHHHHHHHHh-CCCe
Q 011624          336 SR----GGAALSVKEVS-GKPI  352 (481)
Q Consensus       336 ~~----~g~~~~~~~~~-glPV  352 (481)
                      ..    ...+...+... +.|+
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~  143 (167)
T 1c1y_A          122 DERVVGKEQGQNLARQWCNCAF  143 (167)
T ss_dssp             GGCCSCHHHHHHHHHHTTSCEE
T ss_pred             ccccCCHHHHHHHHHHccCCcE
Confidence            32    23344445544 5555

>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=96.99  E-value=0.0021  Score=56.11  Aligned_cols=82  Identities=7%  Similarity=-0.083  Sum_probs=38.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhh-----hcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFN-----IEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~-----~~~~i~GvIlnKvD~~  335 (481)
                      ..+.+.++||||..... .....   ..  ...+.+++|.|.....+..   .....+.     ... ..-+|.||+|..
T Consensus        47 ~~~~~~i~D~~g~~~~~-~~~~~---~~--~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-p~ilv~nK~Dl~  119 (166)
T 3q72_A           47 EEASLMVYDIWEQDGGR-WLPGH---CM--AMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDV-PIILVGNKSDLV  119 (166)
T ss_dssp             EEEEEEEEECC---------------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CC-CEEEEEECTTCC
T ss_pred             EEEEEEEEECCCCccch-hhhhh---hh--hhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-CEEEEEeccccc
Confidence            34678899999864321 11111   11  2347788999986543322   1112211     122 345889999964


Q ss_pred             Cc----hhHHHHHHHHhCCCe
Q 011624          336 SR----GGAALSVKEVSGKPI  352 (481)
Q Consensus       336 ~~----~g~~~~~~~~~glPV  352 (481)
                      ..    ...........+.|+
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~  140 (166)
T 3q72_A          120 RSREVSVDEGRACAVVFDCKF  140 (166)
T ss_dssp             SSCCSCHHHHHHHHHHTTCEE
T ss_pred             cccccCHHHHHHHHHHhCCcE
Confidence            22    223345555667666

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=96.98  E-value=0.0051  Score=62.54  Aligned_cols=21  Identities=29%  Similarity=0.395  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .+++++|.+|+||||+...|+
T Consensus       180 ~~V~lvG~~naGKSTLln~L~  200 (364)
T 2qtf_A          180 PSIGIVGYTNSGKTSLFNSLT  200 (364)
T ss_dssp             CEEEEECBTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            468899999999999998886

>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=96.98  E-value=0.0022  Score=58.91  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=18.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..-|+++|.+||||||++..|.
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~   28 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLL   28 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            3467888999999999998875

>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=96.98  E-value=0.0007  Score=61.21  Aligned_cols=66  Identities=15%  Similarity=0.107  Sum_probs=36.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhh-----hcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFN-----IEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~-----~~~~i~GvIlnKvD~~  335 (481)
                      .++.+.|+||||....    ........  ...+.+++|+|++...+.   ...+..+.     ... ..-+|+||+|..
T Consensus        65 ~~~~~~l~Dt~G~~~~----~~~~~~~~--~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~-piilv~NK~Dl~  137 (188)
T 1zd9_A           65 GNVTIKLWDIGGQPRF----RSMWERYC--RGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGI-PVLVLGNKRDLP  137 (188)
T ss_dssp             TTEEEEEEEECCSHHH----HTTHHHHH--TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTC-CEEEEEECTTST
T ss_pred             CCEEEEEEECCCCHhH----HHHHHHHH--ccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCC-CEEEEEECCCCc
Confidence            4678999999996421    11111111  235788999998654322   22222221     122 345889999975


Q ss_pred             C
Q 011624          336 S  336 (481)
Q Consensus       336 ~  336 (481)
                      .
T Consensus       138 ~  138 (188)
T 1zd9_A          138 G  138 (188)
T ss_dssp             T
T ss_pred             c
Confidence            4

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=96.96  E-value=0.0008  Score=60.02  Aligned_cols=110  Identities=24%  Similarity=0.284  Sum_probs=57.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ++.-|+++|.+||||||+...|.      +.+..     .+.|           ..+......                 
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~------~~~~~-----~~~~-----------t~~~~~~~~-----------------   57 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQ------IGEVV-----TTKP-----------TIGFNVETL-----------------   57 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTC------CSEEE-----EECS-----------STTCCEEEE-----------------
T ss_pred             CccEEEEECCCCCCHHHHHHHHh------cCCcC-----ccCC-----------cCccceEEE-----------------
Confidence            45678889999999999997764      22221     1111           111111100                 


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---HHHHHHHHhhh----cCCeeEEEEcCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---EAAALVTTFNI----EIGITGAILTKLDG  334 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---~~~~~~~~f~~----~~~i~GvIlnKvD~  334 (481)
                      ...++.+.++||||....... .   ..  .....+.+++|+|+....   ........+..    .-...-+|+||+|.
T Consensus        58 ~~~~~~~~i~Dt~G~~~~~~~-~---~~--~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  131 (183)
T 1moz_A           58 SYKNLKLNVWDLGGQTSIRPY-W---RC--YYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQ  131 (183)
T ss_dssp             EETTEEEEEEEEC----CCTT-G---GG--TTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTS
T ss_pred             EECCEEEEEEECCCCHhHHHH-H---HH--HhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCC
Confidence            113467899999997432110 0   01  112347889999985442   22232333221    12245688999996


Q ss_pred             CC
Q 011624          335 DS  336 (481)
Q Consensus       335 ~~  336 (481)
                      ..
T Consensus       132 ~~  133 (183)
T 1moz_A          132 PG  133 (183)
T ss_dssp             TT
T ss_pred             CC
Confidence            54

>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=96.96  E-value=0.019  Score=54.32  Aligned_cols=35  Identities=29%  Similarity=0.395  Sum_probs=30.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      ++.+|++.|++|+||||++..|+..|.. |..|...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~-~~~~~~~   59 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK-DYDVIMT   59 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT-TSCEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc-CCCceee
Confidence            5789999999999999999999999988 8888643

>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=96.95  E-value=0.0025  Score=57.92  Aligned_cols=67  Identities=18%  Similarity=0.173  Sum_probs=34.7

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhhh----cCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFNI----EIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~~----~~~i~GvIlnKvD~~~  336 (481)
                      .++.+.|+||||...... ....   ..  ...+.+++|+|+....+.   ...+..+..    .-...-+|+||+|...
T Consensus        71 ~~~~~~i~Dt~G~~~~~~-~~~~---~~--~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  144 (192)
T 2b6h_A           71 KNICFTVWDVGGQDKIRP-LWRH---YF--QNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPN  144 (192)
T ss_dssp             TTEEEEEEECC-----CT-THHH---HH--HTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             CCEEEEEEECCCCHhHHH-HHHH---Hh--ccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCC
Confidence            457799999999743211 1111   11  134788999999655322   222222211    1223568899999754

>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=96.95  E-value=0.00086  Score=61.84  Aligned_cols=37  Identities=35%  Similarity=0.495  Sum_probs=32.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      +|.+|+++|.+||||||++..|+..|...|..|..+.
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l~~~~~~v~~~~   44 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   44 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEee
Confidence            4679999999999999999999999998899885443

>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=96.94  E-value=0.017  Score=54.66  Aligned_cols=73  Identities=21%  Similarity=0.248  Sum_probs=45.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++-+++.|++|+||||++..+|..+   +..+..+++..+...+                    .......+...+..+
T Consensus        38 ~~~~vll~G~~GtGKT~la~~la~~~---~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~a   94 (262)
T 2qz4_A           38 VPKGALLLGPPGCGKTLLAKAVATEA---QVPFLAMAGAEFVEVI--------------------GGLGAARVRSLFKEA   94 (262)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHH---TCCEEEEETTTTSSSS--------------------TTHHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh---CCCEEEechHHHHhhc--------------------cChhHHHHHHHHHHH
Confidence            45678899999999999999998765   5666766665432110                    001122334455555


Q ss_pred             HcCCCcEEEEcCCCCc
Q 011624          262 KKKNVDVVIVDTAGRL  277 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~  277 (481)
                      ......+++||-...+
T Consensus        95 ~~~~~~vl~iDeid~l  110 (262)
T 2qz4_A           95 RARAPCIVYIDEIDAV  110 (262)
T ss_dssp             HHTCSEEEEEECC---
T ss_pred             HhcCCeEEEEeCcchh
Confidence            4455789999987654

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.93  E-value=0.0053  Score=61.34  Aligned_cols=94  Identities=21%  Similarity=0.296  Sum_probs=55.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc------CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ------GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAK  255 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~------G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~  255 (481)
                      .+..++++|++|+||||++..++..+...      +..+..+++....... +-+.......+.+.-.  ......+...
T Consensus        43 ~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~-~~~~~l~~~l~~~~~~--~~~~~~~~~~  119 (387)
T 2v1u_A           43 KPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPY-RVASAIAEAVGVRVPF--TGLSVGEVYE  119 (387)
T ss_dssp             CCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHH-HHHHHHHHHHSCCCCS--SCCCHHHHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHH-HHHHHHHHHhCCCCCC--CCCCHHHHHH
Confidence            45688999999999999999999888664      6777778876554211 1111122222332211  1223344444


Q ss_pred             HHHHHHHc-CCCcEEEEcCCCCcc
Q 011624          256 QGLEEAKK-KNVDVVIVDTAGRLQ  278 (481)
Q Consensus       256 ~~l~~~~~-~~~D~VIIDt~G~~~  278 (481)
                      .....+.. +...+++||-...+.
T Consensus       120 ~l~~~l~~~~~~~vlilDEi~~l~  143 (387)
T 2v1u_A          120 RLVKRLSRLRGIYIIVLDEIDFLP  143 (387)
T ss_dssp             HHHHHHTTSCSEEEEEEETTTHHH
T ss_pred             HHHHHHhccCCeEEEEEccHhhhc
Confidence            44444322 224589999887654

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.92  E-value=0.0072  Score=58.94  Aligned_cols=42  Identities=26%  Similarity=0.315  Sum_probs=36.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      ...+++.|++|+||||++..|+..+...+..+..+++..+..
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~   88 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYME   88 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCS
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccc
Confidence            357899999999999999999999887777888888887653

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=96.91  E-value=0.0013  Score=70.74  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ...|+++|.+|+||||++..|.
T Consensus        65 ~~~V~vvG~~n~GKSTLIN~Ll   86 (550)
T 2qpt_A           65 KPMVLVAGQYSTGKTSFIQYLL   86 (550)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHh
Confidence            4578889999999999998886

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.91  E-value=0.00049  Score=61.52  Aligned_cols=37  Identities=27%  Similarity=0.389  Sum_probs=28.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      |.+|+++|++||||||++..|+..    .....+++.|.+|
T Consensus         2 ~~~I~i~G~~GsGKST~a~~L~~~----~~~~~~i~~d~~r   38 (181)
T 1ly1_A            2 KKIILTIGCPGSGKSTWAREFIAK----NPGFYNINRDDYR   38 (181)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH----STTEEEECHHHHH
T ss_pred             CeEEEEecCCCCCHHHHHHHHHhh----cCCcEEecHHHHH
Confidence            578999999999999999988762    2345667777554

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=96.91  E-value=0.00089  Score=62.42  Aligned_cols=82  Identities=15%  Similarity=0.091  Sum_probs=42.2

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---HHHHhh---hcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---LVTTFN---IEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~~~~f~---~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.|+||||...... +.   ...  ....+.+++|+|.....+...   ....+.   ..-...-+|+||+|.... 
T Consensus        61 ~~~~~i~Dt~G~~~~~~-~~---~~~--~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~  134 (223)
T 3cpj_B           61 RIKAQIWDTAGQERYRA-IT---SAY--YRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLR  134 (223)
T ss_dssp             EEEEEEECCTTTTTTTC-CC---GGG--TTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGC
T ss_pred             EEEEEEEECCCccchhh-hH---HHH--hccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccc
Confidence            36789999999643110 00   001  123477899999865533221   122221   111234578999996421 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.|+
T Consensus       135 ~v~~~~~~~~~~~~~~~~  152 (223)
T 3cpj_B          135 AVPTEESKTFAQENQLLF  152 (223)
T ss_dssp             CSCHHHHHHHHHHTTCEE
T ss_pred             ccCHHHHHHHHHHcCCEE
Confidence               233455556666665

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=96.90  E-value=0.0011  Score=59.39  Aligned_cols=22  Identities=27%  Similarity=0.442  Sum_probs=19.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +..++++|.+||||||+...|+
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~   25 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALA   25 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4568899999999999998875

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.90  E-value=0.034  Score=54.02  Aligned_cols=38  Identities=32%  Similarity=0.412  Sum_probs=30.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCC----eEEEEec
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGK----SCMLVAG  219 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~----kVlLId~  219 (481)
                      .+.-+++.|++|+|||+++..+|..+...+.    .+..+++
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~  107 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTR  107 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcH
Confidence            3457899999999999999999999987654    5555553

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=96.89  E-value=0.0011  Score=59.75  Aligned_cols=66  Identities=12%  Similarity=0.157  Sum_probs=37.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHhh-------hcCCeeEEEEcCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTFN-------IEIGITGAILTKLD  333 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f~-------~~~~i~GvIlnKvD  333 (481)
                      .++.+.|+||||...... ..   ...  ....+.+++|+|+....+..   .....+.       ... ..-+|+||+|
T Consensus        65 ~~~~~~l~Dt~G~~~~~~-~~---~~~--~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~-piilv~nK~D  137 (190)
T 2h57_A           65 SSLSFTVFDMSGQGRYRN-LW---EHY--YKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRI-PILFFANKMD  137 (190)
T ss_dssp             SSCEEEEEEECCSTTTGG-GG---GGG--GGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCC-CEEEEEECTT
T ss_pred             CCEEEEEEECCCCHHHHH-HH---HHH--HhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCC-eEEEEEeCcC
Confidence            357899999999643211 11   111  12348889999996653322   2222221       122 3458899999


Q ss_pred             CCC
Q 011624          334 GDS  336 (481)
Q Consensus       334 ~~~  336 (481)
                      ...
T Consensus       138 l~~  140 (190)
T 2h57_A          138 LRD  140 (190)
T ss_dssp             STT
T ss_pred             ccc
Confidence            754

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=96.89  E-value=0.00084  Score=62.36  Aligned_cols=82  Identities=12%  Similarity=0.097  Sum_probs=43.7

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH------HHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA------ALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~------~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.+.|+||||...... +...   .  ....+.+++|+|.....+..      ..+..+....+ .-+|+||+|....
T Consensus        62 ~~~~~~i~Dt~G~~~~~~-~~~~---~--~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p-~ilv~nK~Dl~~~  134 (221)
T 3gj0_A           62 GPIKFNVWDTAGQEKFGG-LRDG---Y--YIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIP-IVLCGNKVDIKDR  134 (221)
T ss_dssp             EEEEEEEEEECSGGGTSC-CCHH---H--HTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTTCC-EEEEEECTTSSSC
T ss_pred             EEEEEEEEeCCChHHHhH-HHHH---H--HhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC-EEEEEECCccccc
Confidence            356789999999642211 1111   1  11347889999986553321      12222222333 4588999996432


Q ss_pred             --hhHHHHHHHHhCCCe
Q 011624          338 --GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 --~g~~~~~~~~~glPV  352 (481)
                        .......+...+.++
T Consensus       135 ~~~~~~~~~~~~~~~~~  151 (221)
T 3gj0_A          135 KVKAKSIVFHRKKNLQY  151 (221)
T ss_dssp             SSCGGGCCHHHHHTCEE
T ss_pred             cccHHHHHHHHHcCCEE
Confidence              222334455556665

>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=96.89  E-value=0.00043  Score=62.07  Aligned_cols=37  Identities=22%  Similarity=0.299  Sum_probs=29.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      |.+|+++|++||||||++..|+..|   |.....++.|.+
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l---~~~~~~~~~D~~   39 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL---PEPWLAFGVDSL   39 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS---SSCEEEEEHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc---CCCeEEeccchH
Confidence            5689999999999999999988665   445555667754

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=96.88  E-value=0.0028  Score=56.76  Aligned_cols=110  Identities=21%  Similarity=0.299  Sum_probs=59.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +..-|++.|.+||||||+...|.      +.+.     ..+.|.           .+......                 
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~------~~~~-----~~~~~t-----------~~~~~~~~-----------------   57 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFN------GEDV-----DTISPT-----------LGFNIKTL-----------------   57 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHT------TCCC-----SSCCCC-----------SSEEEEEE-----------------
T ss_pred             CeeEEEEECCCCCCHHHHHHHHh------cCCC-----Cccccc-----------CccceEEE-----------------
Confidence            45678889999999999998775      2110     111111           11111100                 


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhhh----cCCeeEEEEcCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFNI----EIGITGAILTKLDG  334 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~~----~~~i~GvIlnKvD~  334 (481)
                      ...++.+.|+||||....    ......  .....+.+++|+|++...+.   ......+..    .-...-+|+||+|.
T Consensus        58 ~~~~~~~~~~Dt~G~~~~----~~~~~~--~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl  131 (186)
T 1ksh_A           58 EHRGFKLNIWDVGGQKSL----RSYWRN--YFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDL  131 (186)
T ss_dssp             EETTEEEEEEEECCSHHH----HTTGGG--GCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTS
T ss_pred             EECCEEEEEEECCCCHhH----HHHHHH--HhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccC
Confidence            013567899999997321    111111  12245788999998654322   222222211    12345689999997


Q ss_pred             CC
Q 011624          335 DS  336 (481)
Q Consensus       335 ~~  336 (481)
                      ..
T Consensus       132 ~~  133 (186)
T 1ksh_A          132 PG  133 (186)
T ss_dssp             TT
T ss_pred             CC
Confidence            54

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=96.87  E-value=0.0018  Score=66.61  Aligned_cols=66  Identities=17%  Similarity=0.154  Sum_probs=36.8

Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhh-hcCCeeEEEEcCCCCCCc
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFN-IEIGITGAILTKLDGDSR  337 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~-~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.|+||||...    ....+....  ...+.+++|+|+..+   ....+.+.... ......-+++||+|....
T Consensus        75 ~~~~iiDtPGh~~----~~~~~~~~~--~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~  144 (403)
T 3sjy_A           75 RRISFIDAPGHEV----LMATMLSGA--ALMDGAILVVAANEPFPQPQTREHFVALGIIGVKNLIIVQNKVDVVSK  144 (403)
T ss_dssp             EEEEEEECCCCGG----GHHHHHHHH--TTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCH
T ss_pred             ceEEEEECCCcHH----HHHHHHHHH--hhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCCEEEEEECccccch
Confidence            5789999999643    222222222  235889999999543   12222221111 122234578999997543

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=96.87  E-value=0.0014  Score=62.76  Aligned_cols=43  Identities=21%  Similarity=0.377  Sum_probs=33.7

Q ss_pred             cCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          179 AKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       179 ~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ...++.+|++.|++|+||||.+..|+.+|...|.++.+..-.|
T Consensus        23 ~~~~~~~i~~eG~~GsGKsT~~~~l~~~l~~~~~~~~~~~rep   65 (236)
T 3lv8_A           23 NAMNAKFIVIEGLEGAGKSTAIQVVVETLQQNGIDHITRTREP   65 (236)
T ss_dssp             ---CCCEEEEEESTTSCHHHHHHHHHHHHHHTTCCCEEEEESS
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCeeeeecCC
Confidence            3345789999999999999999999999999999933344444

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.85  E-value=0.00095  Score=61.22  Aligned_cols=38  Identities=37%  Similarity=0.377  Sum_probs=33.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      +..+++.|++|+||||++..++..+..+|.+|.++++.
T Consensus        54 ~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~   91 (202)
T 2w58_A           54 MKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVP   91 (202)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhH
Confidence            36788999999999999999999999889999988764

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=96.85  E-value=0.001  Score=69.91  Aligned_cols=66  Identities=14%  Similarity=0.195  Sum_probs=33.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH---------HHHHHHHHh-hhcCCeeEEEEcCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ---------EAAALVTTF-NIEIGITGAILTKLD  333 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~---------~~~~~~~~f-~~~~~i~GvIlnKvD  333 (481)
                      .+..+.|+||||...    +...+.  .....++.++||+|+..+.         ...+.+... ...++-.-+++||+|
T Consensus       119 ~~~~~~iiDtPGh~~----f~~~~~--~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~D  192 (467)
T 1r5b_A          119 EHRRFSLLDAPGHKG----YVTNMI--NGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMD  192 (467)
T ss_dssp             SSEEEEECCCCC-----------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTT
T ss_pred             CCeEEEEEECCCcHH----HHHHHH--hhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECcc
Confidence            356789999999743    222221  1223468899999996542         122222111 112322357899999


Q ss_pred             CC
Q 011624          334 GD  335 (481)
Q Consensus       334 ~~  335 (481)
                      ..
T Consensus       193 l~  194 (467)
T 1r5b_A          193 EP  194 (467)
T ss_dssp             ST
T ss_pred             CC
Confidence            74

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=96.84  E-value=0.0016  Score=58.93  Aligned_cols=82  Identities=16%  Similarity=0.087  Sum_probs=45.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH-------HHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL-------VTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~-------~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+.|+||||.....     .+. .......+.+++|+|.....+....       +..+.... ..-+|.||+|...
T Consensus        69 ~~~~~~i~Dt~G~~~~~-----~~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-p~ilv~nK~Dl~~  141 (194)
T 3reg_A           69 EEFILHLWDTAGQEEYD-----RLR-PLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTA-KTVLVGLKVDLRK  141 (194)
T ss_dssp             EEEEEEEEEECCSGGGT-----TTG-GGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTS-EEEEEEECGGGCC
T ss_pred             EEEEEEEEECCCcHHHH-----HHh-HhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCC-CEEEEEEChhhcc
Confidence            34567999999964211     010 0111235788999999765443322       22222222 3458899999532


Q ss_pred             ------chhHHHHHHHHhCCC-e
Q 011624          337 ------RGGAALSVKEVSGKP-I  352 (481)
Q Consensus       337 ------~~g~~~~~~~~~glP-V  352 (481)
                            ....+...+...+.+ +
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~~  164 (194)
T 3reg_A          142 DGSDDVTKQEGDDLCQKLGCVAY  164 (194)
T ss_dssp             TTTTCCCHHHHHHHHHHHTCSCE
T ss_pred             CCCCcccHHHHHHHHHhcCCCEE
Confidence                  133445666677776 5

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.84  E-value=0.001  Score=61.43  Aligned_cols=38  Identities=39%  Similarity=0.494  Sum_probs=32.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++.+++++|++|+||||++..|+..+..   ++.+++.|.+
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~~---~i~~v~~d~~   42 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLGE---RVALLPMDHY   42 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHGG---GEEEEEGGGC
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhCC---CeEEEecCcc
Confidence            5679999999999999999999876642   5899999875

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=96.83  E-value=0.0016  Score=61.29  Aligned_cols=38  Identities=8%  Similarity=0.047  Sum_probs=34.6

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      .+..+.+++|+-|+||||.+..++..+..+|++|+++.
T Consensus        26 ~~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k   63 (214)
T 2j9r_A           26 QNGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFK   63 (214)
T ss_dssp             CSCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE
Confidence            34679999999999999999999999999999999875

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=96.83  E-value=0.00033  Score=75.98  Aligned_cols=23  Identities=17%  Similarity=0.293  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANY  206 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~  206 (481)
                      .-|+++|.+++||||++..|...
T Consensus       178 ~~I~iiG~~d~GKSTLi~~Ll~~  200 (592)
T 3mca_A          178 VHLVVTGHVDSGKSTMLGRIMFE  200 (592)
T ss_dssp             EEEEEECCSSSTHHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            45788999999999999998654

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=96.83  E-value=0.0058  Score=55.76  Aligned_cols=82  Identities=10%  Similarity=0.002  Sum_probs=43.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhh-----hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFN-----IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~-----~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||+|.......+...   ...  ..+.+++|.|.+...+.   ......+.     ... ..-+|.||+|...
T Consensus        71 ~~~l~i~Dt~g~~~~~~~~~~~---~~~--~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~-piilv~nK~Dl~~  144 (195)
T 3cbq_A           71 EVTLVVYDIWEQGDAGGWLRDH---CLQ--TGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDL-PVILVGNKSDLAR  144 (195)
T ss_dssp             EEEEEEECCCCCSGGGHHHHHH---HHH--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCC-CEEEEEECTTCTT
T ss_pred             EEEEEEEecCCCccchhhhHHH---hhc--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-CEEEEeechhccc
Confidence            4567889999875322112111   111  24778999998654322   22222221     122 2458899999643


Q ss_pred             c----hhHHHHHHHHhCCCe
Q 011624          337 R----GGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV  352 (481)
                      .    ...+..++...+.++
T Consensus       145 ~~~v~~~~~~~~a~~~~~~~  164 (195)
T 3cbq_A          145 SREVSLEEGRHLAGTLSCKH  164 (195)
T ss_dssp             TCCSCHHHHHHHHHHTTCEE
T ss_pred             cCCcCHHHHHHHHHHhCCEE
Confidence            2    223344555566554

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.82  E-value=0.0021  Score=58.71  Aligned_cols=82  Identities=15%  Similarity=0.130  Sum_probs=44.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhhh-----cCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFNI-----EIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~~-----~~~i~GvIlnKvD~~  335 (481)
                      ..+.+.|+||||...... .   .  .......+.+++|+|.....+.   ......+..     .. ..-+|+||+|..
T Consensus        70 ~~~~~~l~Dt~G~~~~~~-~---~--~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~-piilv~nK~Dl~  142 (201)
T 3oes_A           70 DEFHLHLVDTAGQDEYSI-L---P--YSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRV-PVVLVGNKADLS  142 (201)
T ss_dssp             -CEEEEEEEECCCCTTCC-C---C--GGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CC-CEEEEEECTTCG
T ss_pred             EEEEEEEEECCCccchHH-H---H--HHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCC-CEEEEEECccCc
Confidence            467789999999643210 0   0  0111235788999998654322   222222211     22 345889999953


Q ss_pred             Cc----hhHHHHHHHHhCCCe
Q 011624          336 SR----GGAALSVKEVSGKPI  352 (481)
Q Consensus       336 ~~----~g~~~~~~~~~glPV  352 (481)
                      ..    ...+...+...+.|+
T Consensus       143 ~~~~v~~~~~~~~~~~~~~~~  163 (201)
T 3oes_A          143 PEREVQAVEGKKLAESWGATF  163 (201)
T ss_dssp             GGCCSCHHHHHHHHHHHTCEE
T ss_pred             cccccCHHHHHHHHHHhCCeE
Confidence            21    233455666777766

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=96.80  E-value=0.0025  Score=56.67  Aligned_cols=81  Identities=14%  Similarity=0.099  Sum_probs=43.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---HHHHh----h-hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---LVTTF----N-IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~~~~f----~-~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||...... ..   .  ......+.+++|+|.....+...   ....+    . ... ..-+|.||+|...
T Consensus        53 ~~~~~l~Dt~G~~~~~~-~~---~--~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-p~ilv~nK~Dl~~  125 (181)
T 3t5g_A           53 EYHLQLVDTAGQDEYSI-FP---Q--TYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQI-PIMLVGNKKDLHM  125 (181)
T ss_dssp             EEEEEEEECCCCCTTCC-CC---G--GGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----C-CEEEEEECTTCTT
T ss_pred             EEEEEEEeCCCchhhhH-HH---H--HHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC-CEEEEEECccchh
Confidence            46788999999643210 00   0  01113478899999865433221   11111    1 122 3458899999632


Q ss_pred             ----chhHHHHHHHHhCCCe
Q 011624          337 ----RGGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ----~~g~~~~~~~~~glPV  352 (481)
                          ....+...+...+.|+
T Consensus       126 ~~~~~~~~~~~~~~~~~~~~  145 (181)
T 3t5g_A          126 ERVISYEEGKALAESWNAAF  145 (181)
T ss_dssp             TCCSCHHHHHHHHHHTTCEE
T ss_pred             cceecHHHHHHHHHHhCCcE
Confidence                1334456666777765

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=96.79  E-value=0.0038  Score=57.76  Aligned_cols=22  Identities=32%  Similarity=0.477  Sum_probs=18.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +.-|+++|.+||||||++..|.
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~   55 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFA   55 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHH
Confidence            4568889999999999998875

>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=96.79  E-value=0.0051  Score=63.57  Aligned_cols=38  Identities=26%  Similarity=0.412  Sum_probs=30.0

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+|.+|+++|++|+||||++..|+..+   |  ..+|+.|.++
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~---~--~~~i~~D~~~  293 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA---G--YVHVNRDTLG  293 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG---T--CEECCGGGSC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc---C--cEEEccchHH
Confidence            357899999999999999998887543   3  4667888763

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=96.78  E-value=0.0016  Score=69.07  Aligned_cols=109  Identities=22%  Similarity=0.267  Sum_probs=59.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      ++.++++.|..|+||||++..|...-...+.                       ..|+.........             
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e-----------------------~~GIT~~i~~~~v-------------   46 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGE-----------------------AGGITQHIGAYHV-------------   46 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTT-----------------------BCCCCCCSSCCCC-------------
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCcccc-----------------------CCCeeEeEEEEEE-------------
Confidence            5668899999999999999887532111110                       0111111000000             


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      ...+..+.|+||||.....    ...  .......+.++||+|+..+   +  +....+..  ..++ .-+++||+|..
T Consensus        47 ~~~~~~i~~iDTPGhe~f~----~~~--~~~~~~aD~aILVVda~~g~~~qT~e~l~~~~~--~~vP-iIVviNKiDl~  116 (501)
T 1zo1_I           47 ETENGMITFLDTPGHAAFT----SMR--ARGAQATDIVVLVVAADDGVMPQTIEAIQHAKA--AQVP-VVVAVNKIDKP  116 (501)
T ss_dssp             CTTSSCCCEECCCTTTCCT----TSB--CSSSBSCSSEEEEEETTTBSCTTTHHHHHHHHH--TTCC-EEEEEECSSSS
T ss_pred             EECCEEEEEEECCCcHHHH----HHH--HHHHhhCCEEEEEeecccCccHHHHHHHHHHHh--cCce-EEEEEEecccc
Confidence            0134578999999974321    111  1112235788999998543   2  22222222  2344 45889999964

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=96.77  E-value=0.0024  Score=57.99  Aligned_cols=66  Identities=17%  Similarity=0.250  Sum_probs=37.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH---HHHHHHhh-----hcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA---AALVTTFN-----IEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~---~~~~~~f~-----~~~~i~GvIlnKvD~~  335 (481)
                      .++.+.++||||...... ..   ...  ....+.+++|+|++...+.   ......+.     ... ..-+|.||+|..
T Consensus        65 ~~~~~~i~Dt~G~~~~~~-~~---~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-piilv~NK~Dl~  137 (190)
T 1m2o_B           65 GNIKFTTFDLGGHIQARR-LW---KDY--FPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDV-PFVILGNKIDAP  137 (190)
T ss_dssp             TTEEEEEEECCCSGGGTT-SG---GGG--CTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTC-CEEEEEECTTST
T ss_pred             CCEEEEEEECCCCHHHHH-HH---HHH--HhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCC-CEEEEEECCCCc
Confidence            346789999999743211 00   011  1245788999999655332   22222221     122 345889999975


Q ss_pred             C
Q 011624          336 S  336 (481)
Q Consensus       336 ~  336 (481)
                      .
T Consensus       138 ~  138 (190)
T 1m2o_B          138 N  138 (190)
T ss_dssp             T
T ss_pred             C
Confidence            4

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.77  E-value=0.0013  Score=60.29  Aligned_cols=35  Identities=20%  Similarity=0.488  Sum_probs=29.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      ++.+|++.|++||||||++..|+..|...| +|...
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~l~~~g-~~~~~   37 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDWIELKR-DVYLT   37 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHTTTS-CEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhhcC-CEEEe
Confidence            367899999999999999999999987777 66543

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=96.76  E-value=0.001  Score=72.39  Aligned_cols=42  Identities=45%  Similarity=0.709  Sum_probs=38.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++.+|+++|.+||||||++..|+..|.++|..+..+|.|..|
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lDgD~iR   92 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNIR   92 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEESHHHHT
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEechHHhh
Confidence            678999999999999999999999999899999988887654

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.75  E-value=0.0013  Score=60.49  Aligned_cols=37  Identities=30%  Similarity=0.427  Sum_probs=32.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      ++.+|+++|.+||||||++..|+..|...+..|.++.
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l~~~~~~~~~~~   45 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYLKNNNVEVKHLY   45 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            4679999999999999999999999988888885443

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.73  E-value=0.0016  Score=59.75  Aligned_cols=36  Identities=19%  Similarity=0.171  Sum_probs=32.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      +.+++++|+.|+||||++..++..+..+|++|+++.
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~   38 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFK   38 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            458899999999999999999999988999999764

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.72  E-value=0.0017  Score=58.69  Aligned_cols=34  Identities=41%  Similarity=0.618  Sum_probs=29.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      +|+++|.+||||||++..|+..|...|..|.-.+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            6889999999999999999999988898876443

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=96.72  E-value=0.003  Score=64.35  Aligned_cols=97  Identities=20%  Similarity=0.283  Sum_probs=55.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      .|+++|..++||||++..|.    ++|     ++.|                  +.....                 ...
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~----~~g-----iTi~------------------~~~~~~-----------------~~~   58 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG----KKG-----TSSD------------------ITMYNN-----------------DKE   58 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS----EEE-----EESS------------------SEEEEE-----------------CSS
T ss_pred             EEEEECCCCCCHHHHHHHHH----hCC-----EEEE------------------eeEEEE-----------------ecC
Confidence            78899999999999998875    111     1111                  111110                 124


Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEc-CCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILT-KLDG  334 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIln-KvD~  334 (481)
                      ++.+.|+||||....    ...+....  ...+.+++|+| ..+   +  +....+..+  .++..-+++| |+|.
T Consensus        59 ~~~i~iiDtPGh~~f----~~~~~~~~--~~aD~ailVvd-~~g~~~qt~e~~~~~~~~--~i~~~ivvvNNK~Dl  125 (370)
T 2elf_A           59 GRNMVFVDAHSYPKT----LKSLITAL--NISDIAVLCIP-PQGLDAHTGECIIALDLL--GFKHGIIALTRSDST  125 (370)
T ss_dssp             SSEEEEEECTTTTTC----HHHHHHHH--HTCSEEEEEEC-TTCCCHHHHHHHHHHHHT--TCCEEEEEECCGGGS
T ss_pred             CeEEEEEECCChHHH----HHHHHHHH--HHCCEEEEEEc-CCCCcHHHHHHHHHHHHc--CCCeEEEEEEeccCC
Confidence            567999999997542    22222222  23588999999 433   1  112222222  2344357888 9998

>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=96.72  E-value=0.003  Score=61.75  Aligned_cols=37  Identities=32%  Similarity=0.511  Sum_probs=29.4

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..+|.+|+++|++||||||++..|+.    .|..  +|++|.+
T Consensus        72 ~~~~~iI~I~G~~GSGKSTva~~La~----lg~~--~id~D~~  108 (281)
T 2f6r_A           72 PSGLYVLGLTGISGSGKSSVAQRLKN----LGAY--IIDSDHL  108 (281)
T ss_dssp             CTTCEEEEEEECTTSCHHHHHHHHHH----HTCE--EEEHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH----CCCc--EEehhHH
Confidence            34678999999999999999988873    3654  5788754

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=96.71  E-value=0.0043  Score=68.49  Aligned_cols=22  Identities=27%  Similarity=0.217  Sum_probs=19.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +..|+++|.+|+||||++..|.
T Consensus        69 ~~~V~VvG~~naGKSSLlNaLl   90 (695)
T 2j69_A           69 VFRLLVLGDMKRGKSTFLNALI   90 (695)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHh
Confidence            4578899999999999999887

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=96.71  E-value=0.0031  Score=57.56  Aligned_cols=66  Identities=18%  Similarity=0.180  Sum_probs=36.8

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH-------HHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA-------LVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~-------~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+.|+||||.....     .+.. ......+.+++|+|.........       .+..+....+ .-+|+||+|....
T Consensus        72 ~~~l~i~Dt~G~~~~~-----~~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~  144 (201)
T 2gco_A           72 QVELALWDTAGQEDYD-----RLRP-LSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVP-IILVGNKKDLRQD  144 (201)
T ss_dssp             EEEEEEECCCCSGGGT-----TTGG-GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECGGGTTC
T ss_pred             EEEEEEEECCCchhHH-----HHHH-HhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEecHHhhcC
Confidence            4678999999964211     0100 11223578899999865433222       2222222343 4589999997543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.70  E-value=0.0039  Score=60.18  Aligned_cols=72  Identities=24%  Similarity=0.289  Sum_probs=44.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .+.-+++.|++|+||||++..+|..+   +..+..+.+..+....                    .......+...+..+
T Consensus        50 ~~~~~ll~G~~GtGKT~la~~la~~~---~~~~~~v~~~~~~~~~--------------------~~~~~~~~~~~~~~~  106 (285)
T 3h4m_A           50 PPKGILLYGPPGTGKTLLAKAVATET---NATFIRVVGSELVKKF--------------------IGEGASLVKDIFKLA  106 (285)
T ss_dssp             CCSEEEEESSSSSSHHHHHHHHHHHT---TCEEEEEEGGGGCCCS--------------------TTHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHh---CCCEEEEehHHHHHhc--------------------cchHHHHHHHHHHHH
Confidence            45678899999999999999987654   5666655543221110                    011223344555555


Q ss_pred             HcCCCcEEEEcCCCC
Q 011624          262 KKKNVDVVIVDTAGR  276 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~  276 (481)
                      ......+++||-...
T Consensus       107 ~~~~~~vl~iDEid~  121 (285)
T 3h4m_A          107 KEKAPSIIFIDEIDA  121 (285)
T ss_dssp             HHTCSEEEEEETTHH
T ss_pred             HHcCCeEEEEECHHH
Confidence            545667999987643

>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=96.70  E-value=0.0077  Score=54.52  Aligned_cols=80  Identities=16%  Similarity=0.094  Sum_probs=44.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH------HHHHHHhh--hcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA------AALVTTFN--IEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~------~~~~~~f~--~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||...  ......   ...  ..+.+++|+|.+...+.      ...+..+.  ... ..-+|.||+|...
T Consensus        75 ~~~~~l~Dt~G~~~--~~~~~~---~~~--~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~-piilv~NK~Dl~~  146 (196)
T 2atv_A           75 VVSMEILDTAGQED--TIQREG---HMR--WGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNV-TLILVGNKADLDH  146 (196)
T ss_dssp             EEEEEEEECCCCCC--CHHHHH---HHH--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCC-CEEEEEECGGGGG
T ss_pred             EEEEEEEECCCCCc--ccchhh---hhc--cCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCC-cEEEEEECccccc
Confidence            46789999999754  112111   111  23778999998654322      12222222  122 2458899999643


Q ss_pred             c----hhHHHHHHHHhCCCe
Q 011624          337 R----GGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV  352 (481)
                      .    ...+...+...+.|+
T Consensus       147 ~~~v~~~~~~~~~~~~~~~~  166 (196)
T 2atv_A          147 SRQVSTEEGEKLATELACAF  166 (196)
T ss_dssp             GCCSCHHHHHHHHHHHTSEE
T ss_pred             ccccCHHHHHHHHHHhCCeE
Confidence            1    234455666667766

>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=96.69  E-value=0.01  Score=60.07  Aligned_cols=108  Identities=17%  Similarity=0.204  Sum_probs=58.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCC-CCCHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGT-EVKPSQIAKQGLEE  260 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~-~~~~~~~l~~~l~~  260 (481)
                      ..+++++|++|+||||+...|+..+... |.++..+. |+.....      ......+.-...+. .....    +++..
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~e-d~~e~~~------~~~~~~v~q~~~~~~~~~~~----~~La~  191 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIE-DPIEFVH------ESKKCLVNQREVHRDTLGFS----EALRS  191 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEE-SSCCSCC------CCSSSEEEEEEBTTTBSCHH----HHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEcc-CcHHhhh------hccccceeeeeeccccCCHH----HHHHH
Confidence            4599999999999999999999888765 66665443 4321100      00000011111111 12222    34555


Q ss_pred             HHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc
Q 011624          261 AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT  307 (481)
Q Consensus       261 ~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~  307 (481)
                      +...+.|++++|=|-    |......+.+....  -..++.++....
T Consensus       192 aL~~~PdvillDEp~----d~e~~~~~~~~~~~--G~~vl~t~H~~~  232 (356)
T 3jvv_A          192 ALREDPDIILVGEMR----DLETIRLALTAAET--GHLVFGTLHTTS  232 (356)
T ss_dssp             HTTSCCSEEEESCCC----SHHHHHHHHHHHHT--TCEEEEEESCSS
T ss_pred             HhhhCcCEEecCCCC----CHHHHHHHHHHHhc--CCEEEEEEccCh
Confidence            545789999999986    33333333333221  244566655533

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=96.68  E-value=0.0018  Score=57.55  Aligned_cols=22  Identities=23%  Similarity=0.158  Sum_probs=18.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..-|++.|.+|+||||+...+.
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~   29 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYT   29 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHh
Confidence            3457788999999999997765

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=96.68  E-value=0.0012  Score=74.42  Aligned_cols=64  Identities=19%  Similarity=0.383  Sum_probs=37.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHH-hhhcCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTT-FNIEIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~-f~~~~~i~GvIlnKvD~~  335 (481)
                      ++.+.||||||......    +......  ..+.+++|+|+..+.  ........ ...+++ .-+++||+|..
T Consensus        97 ~~~i~liDTPG~~df~~----~~~~~l~--~aD~ailVvDa~~g~~~qt~~~~~~~~~~~~p-~ilviNK~D~~  163 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSS----EVTAALR--VTDGALVVVDTIEGVCVQTETVLRQALGERIK-PVVVINKVDRA  163 (842)
T ss_dssp             EEEEEEECCCCCCSSCH----HHHHHHH--TCSEEEEEEETTTBSCHHHHHHHHHHHHTTCE-EEEEEECHHHH
T ss_pred             CceEEEEECcCchhhHH----HHHHHHH--hCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCC-eEEEEECCCcc
Confidence            57789999999865332    2222223  248899999996541  11222221 122333 45899999954

>1vco_A CTP synthetase; tetramer, riken structural genomics/proteomics initiative, RSGI, structural genomics, ligase; HET: GLN; 2.15A {Thermus thermophilus} SCOP: c.23.16.1 c.37.1.10 PDB: 1vcn_A 1vcm_A

Probab=96.67  E-value=0.0067  Score=64.83  Aligned_cols=40  Identities=20%  Similarity=0.446  Sum_probs=35.7

Q ss_pred             CEEEEEE-cC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLA-GL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~-G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+.|+++ |. +|+||+++++.|++.|+++|++|..+-.|||
T Consensus        12 ~~~i~v~gg~~s~~gk~~~~~~~~~~l~~~g~~v~~~k~~py   53 (550)
T 1vco_A           12 RKYVFITGGVVSSLGKGILTSSLGALLRARGYRVTAIKIDPY   53 (550)
T ss_dssp             CEEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECS
T ss_pred             eeEEEEeCCcccCcchHHHHHHHHHHHHhCCceeeEeecccc
Confidence            3567777 77 9999999999999999999999999999876

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=96.67  E-value=0.0011  Score=60.98  Aligned_cols=33  Identities=21%  Similarity=0.293  Sum_probs=26.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +++++|.+||||||++.+|+..    |.+|.+++...
T Consensus         1 ~ilV~Gg~~SGKS~~A~~la~~----~~~~~yiaT~~   33 (180)
T 1c9k_A            1 MILVTGGARSGKSRHAEALIGD----APQVLYIATSQ   33 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHCS----CSSEEEEECCC
T ss_pred             CEEEECCCCCcHHHHHHHHHhc----CCCeEEEecCC
Confidence            3678999999999999998744    77788887743

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=96.67  E-value=0.013  Score=55.14  Aligned_cols=124  Identities=19%  Similarity=0.274  Sum_probs=64.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHH-HHHcCC--eEEEEeccCCchhHHHHHHHhhhhcCCCe----e-c---------CCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANY-LKKQGK--SCMLVAGDVYRPAAIDQLVILGEQVGVPV----Y-T---------AGT  246 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~-L~~~G~--kVlLId~D~~rp~aidql~~~~~~~gv~v----~-~---------~~~  246 (481)
                      ..+++.|++|+||||+...+... +...+.  .+.++-..+.|..+......+....+..+    - .         .+.
T Consensus        77 ~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~  156 (235)
T 3llm_A           77 SVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRPHA  156 (235)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHHHTTTCCTTSSEEEEETTEEECCCSSS
T ss_pred             CEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHHHHhccccCceEEEeechhhccCCCCC
Confidence            47899999999999877665543 333343  44445555666544433333332222211    0 0         000


Q ss_pred             ---CCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHH-HHHHhhhhccCCceEEEEEeCcchHH
Q 011624          247 ---EVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMM-DELKDVKRVLNPTEVLLVVDAMTGQE  310 (481)
Q Consensus       247 ---~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~-~el~~i~~~~~p~~vvLVvda~~~~~  310 (481)
                         ...|. .+.+.+.. ...+++++|||-+-....+.... ..+..+.... +..-++++.|+...+
T Consensus       157 ~Ivv~Tpg-~l~~~l~~-~l~~~~~lVlDEah~~~~~~~~~~~~l~~i~~~~-~~~~~il~SAT~~~~  221 (235)
T 3llm_A          157 SIMFCTVG-VLLRKLEA-GIRGISHVIVDEIHERDINTDFLLVVLRDVVQAY-PEVRIVLMSATIDTS  221 (235)
T ss_dssp             EEEEEEHH-HHHHHHHH-CCTTCCEEEECCTTSCCHHHHHHHHHHHHHHHHC-TTSEEEEEECSSCCH
T ss_pred             eEEEECHH-HHHHHHHh-hhcCCcEEEEECCccCCcchHHHHHHHHHHHhhC-CCCeEEEEecCCCHH
Confidence               11233 33333333 24688999999986643333333 3444444433 344467778865543

>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=96.66  E-value=0.0016  Score=58.86  Aligned_cols=37  Identities=35%  Similarity=0.584  Sum_probs=29.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +|.+|+++|++||||||++..|+..|   |..  +++.|.++
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l---~~~--~i~~D~~~   40 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL---RLP--LLSKDAFK   40 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH---TCC--EEEHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc---CCe--EecHHHHH
Confidence            57899999999999999999998876   444  46666554

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.64  E-value=0.042  Score=54.72  Aligned_cols=102  Identities=5%  Similarity=0.021  Sum_probs=58.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-------CCeEEEEeccCCchh--HHHHHHHhhhhcCCCeecCCCCCCHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-------GKSCMLVAGDVYRPA--AIDQLVILGEQVGVPVYTAGTEVKPSQ  252 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-------G~kVlLId~D~~rp~--aidql~~~~~~~gv~v~~~~~~~~~~~  252 (481)
                      +|..+.++|++|+|||+++..++..|.+.       +..++.|+|-.....  ....+  +....|....    .....+
T Consensus        44 ~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I--~~~L~g~~~~----~~~~~~  117 (318)
T 3te6_A           44 QNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI--WFAISKENLC----GDISLE  117 (318)
T ss_dssp             CCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH--HHHHSCCC------CCCCHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH--HHHhcCCCCC----chHHHH
Confidence            46688999999999999999999999753       346777777655422  22222  2222333211    112234


Q ss_pred             HHHHHHHHH--HcCCCcEEEEcCCCCccccHHHHHHHHhh
Q 011624          253 IAKQGLEEA--KKKNVDVVIVDTAGRLQIDKAMMDELKDV  290 (481)
Q Consensus       253 ~l~~~l~~~--~~~~~D~VIIDt~G~~~~d~~~~~el~~i  290 (481)
                      .+...+..+  .....-+|++|-.-.+. +...+..+-.+
T Consensus       118 ~L~~~f~~~~~~~~~~~ii~lDE~d~l~-~q~~L~~l~~~  156 (318)
T 3te6_A          118 ALNFYITNVPKAKKRKTLILIQNPENLL-SEKILQYFEKW  156 (318)
T ss_dssp             HHHHHHHHSCGGGSCEEEEEEECCSSSC-CTHHHHHHHHH
T ss_pred             HHHHHHHHhhhccCCceEEEEecHHHhh-cchHHHHHHhc
Confidence            455555543  11334478889887765 44455554443

>1s1m_A CTP synthase; CTP synthetase, UTP:ammonia ligase (ADP-forming), cytidine 5 triphosphate synthase, ammonia lyase; 2.30A {Escherichia coli} SCOP: c.23.16.1 c.37.1.10 PDB: 2ad5_A*

Probab=96.64  E-value=0.006  Score=65.13  Aligned_cols=39  Identities=28%  Similarity=0.490  Sum_probs=35.0

Q ss_pred             EEEEEE-cC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          184 TVILLA-GL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       184 ~VI~i~-G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +.|+++ |. +|+||+++++.|++.|+++|++|..+-.|||
T Consensus         4 ~~i~v~gg~~s~~gk~~~~~~l~~~l~~~g~~v~~~k~~py   44 (545)
T 1s1m_A            4 NYIFVTGGVVSSLGKGIAAASLAAILEARGLNVTIMKLDPY   44 (545)
T ss_dssp             EEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECC
T ss_pred             eEEEEeCCcccCcchHHHHHHHHHHHHhCCceeeeeecccc
Confidence            466776 77 9999999999999999999999999999876

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=96.63  E-value=0.0012  Score=71.25  Aligned_cols=44  Identities=32%  Similarity=0.503  Sum_probs=38.9

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcC-CeEEEEeccCCc
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQG-KSCMLVAGDVYR  223 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G-~kVlLId~D~~r  223 (481)
                      .+++.+|+++|.+||||||++..|+..|..+| +++.++|.|..|
T Consensus       393 gq~~~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~D~ir  437 (573)
T 1m8p_A          393 ATQGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGDTVR  437 (573)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHHHH
T ss_pred             cccceEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECcHHHH
Confidence            34678999999999999999999999999888 899999988654

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=96.63  E-value=0.0017  Score=70.38  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=20.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLAN  205 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~  205 (481)
                      ++.+|++.|.+|+||||++..|..
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~   27 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRG   27 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhc
Confidence            355889999999999999988863

>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=96.63  E-value=0.0018  Score=64.13  Aligned_cols=43  Identities=28%  Similarity=0.400  Sum_probs=35.7

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHH--HcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLK--KQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~--~~G~kVlLId~D~~r  223 (481)
                      .++.+++++|++|+||||++..|+..+.  -.+-+|.++++|-+.
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d~~~  122 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecCCcc
Confidence            3578999999999999999999988776  345678889998764

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=96.62  E-value=0.0022  Score=68.86  Aligned_cols=43  Identities=35%  Similarity=0.583  Sum_probs=38.5

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +.+.+|+++|.+|+||||++..|+..|..+|+++.++|.|..|
T Consensus       370 ~~~~~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld~D~ir  412 (546)
T 2gks_A          370 KQGFCVWLTGLPCAGKSTIAEILATMLQARGRKVTLLDGDVVR  412 (546)
T ss_dssp             GCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECHHHHH
T ss_pred             ccceEEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEECchHhh
Confidence            3468999999999999999999999999999999999988643

>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=96.61  E-value=0.00048  Score=63.58  Aligned_cols=37  Identities=30%  Similarity=0.476  Sum_probs=32.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +|++.|++||||||++..|+..|...|.+|.++.-+.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~~g~~v~~~~~~~   38 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAFPR   38 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHEEEEEEEEEESSE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEeecC
Confidence            7889999999999999999999998899988776443

>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=96.61  E-value=0.0021  Score=58.71  Aligned_cols=37  Identities=22%  Similarity=0.324  Sum_probs=29.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ++.+|++.|++||||||++..|+..|  .|.++..++..
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~l--~g~~~~~~~~~   39 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMESI--PANTIKYLNFP   39 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTS--CGGGEEEEESS
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH--CCCceEEEecC
Confidence            45789999999999999999998776  46777766543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.61  E-value=0.0016  Score=63.99  Aligned_cols=36  Identities=17%  Similarity=0.287  Sum_probs=29.9

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      ..|+.+++.|++|+|||+++..+|..+   |.++..+++
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~~l---~~~~i~v~~   69 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFRKM---GINPIMMSA   69 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHHHH---TCCCEEEEH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh---CCCEEEEeH
Confidence            357788999999999999999999877   667776654

>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=96.59  E-value=0.0031  Score=58.99  Aligned_cols=86  Identities=26%  Similarity=0.322  Sum_probs=50.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKK  264 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~  264 (481)
                      +|++.|++||||+|.+..|+..+   |. +.+-.+|.+|......- .++.... ..+.. ...-|.+++...+.... .
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~---g~-~~istGdllR~~i~~~t-~lg~~~~-~~~~~-G~lvpd~iv~~lv~~~l-~   73 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK---GF-VHISTGDILREAVQKGT-PLGKKAK-EYMER-GELVPDDLIIALIEEVF-P   73 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH---CC-EEEEHHHHHHHHHHHTC-HHHHHHH-HHHHH-TCCCCHHHHHHHHHHHC-C
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH---CC-eEEcHHHHHHHHHHhcC-hhhhhHH-HHHhc-CCcCCHHHHHHHHHHhh-c
Confidence            67888999999999999999766   44 34456777774321100 0111000 01111 12335666666666653 4


Q ss_pred             CCcEEEEcCCCCcc
Q 011624          265 NVDVVIVDTAGRLQ  278 (481)
Q Consensus       265 ~~D~VIIDt~G~~~  278 (481)
                      ..+-+|+|+-|+.-
T Consensus        74 ~~~~~ilDGfPRt~   87 (206)
T 3sr0_A           74 KHGNVIFDGFPRTV   87 (206)
T ss_dssp             SSSCEEEESCCCSH
T ss_pred             cCCceEecCCchhH
Confidence            45668899987753

>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=96.59  E-value=0.0024  Score=60.03  Aligned_cols=36  Identities=31%  Similarity=0.437  Sum_probs=32.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      ++.+|++.|+.|+||||.+..|+.+|..+|++|.+.
T Consensus         5 ~g~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~   40 (213)
T 4edh_A            5 TGLFVTLEGPEGAGKSTNRDYLAERLRERGIEVQLT   40 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHHHHcCCCcccc
Confidence            467999999999999999999999999999999643

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=96.59  E-value=0.00075  Score=62.39  Aligned_cols=65  Identities=14%  Similarity=0.103  Sum_probs=35.5

Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH------HHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA------ALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~------~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      +.+.|+||||...... ....   .  ....+.+++|+|+....+..      ..+......-...-+|+||+|...
T Consensus        61 ~~~~l~Dt~G~~~~~~-~~~~---~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  131 (218)
T 4djt_A           61 IKFNVWDTAGQEKKAV-LKDV---Y--YIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKN  131 (218)
T ss_dssp             EEEEEEEECSGGGTSC-CCHH---H--HTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC-
T ss_pred             EEEEEEecCCchhhch-HHHH---H--hhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCcc
Confidence            6689999999643211 1111   0  11347889999997653322      222222211123458899999643

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=96.58  E-value=0.0044  Score=65.39  Aligned_cols=64  Identities=27%  Similarity=0.385  Sum_probs=39.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HH--HHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QE--AAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~--~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .++.+.|+||||...    ....+...  ....+.++||+|+..+   +.  ....++..  .+++ -+++||+|...
T Consensus        71 ~~~~i~iiDtPGh~~----~~~~~~~~--~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~--~ip~-IvviNK~Dl~~  139 (482)
T 1wb1_A           71 ENYRITLVDAPGHAD----LIRAVVSA--ADIIDLALIVVDAKEGPKTQTGEHMLILDHF--NIPI-IVVITKSDNAG  139 (482)
T ss_dssp             TTEEEEECCCSSHHH----HHHHHHHH--TTSCCEEEEEEETTTCSCHHHHHHHHHHHHT--TCCB-CEEEECTTSSC
T ss_pred             CCEEEEEEECCChHH----HHHHHHHH--HhhCCEEEEEEecCCCccHHHHHHHHHHHHc--CCCE-EEEEECCCccc
Confidence            356799999999632    33333222  2345889999999652   32  22223322  3444 68999999754

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.57  E-value=0.0083  Score=54.01  Aligned_cols=65  Identities=15%  Similarity=0.115  Sum_probs=36.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH-------HHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA-------ALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~-------~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||......     +. .......+.+++|+|.....+..       ..+..+.+..+ .-+|.||+|...
T Consensus        65 ~~~~~i~D~~G~~~~~~-----~~-~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~  136 (194)
T 2atx_A           65 QYLLGLYDTAGQEDYDR-----LR-PLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP-FLLIGTQIDLRD  136 (194)
T ss_dssp             EEEEEEECCCCSSSSTT-----TG-GGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECTTSTT
T ss_pred             EEEEEEEECCCCcchhH-----HH-HHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEChhhcc
Confidence            46788999999753211     10 01122357889999986553322       22222222333 458999999754

>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=96.56  E-value=0.005  Score=64.12  Aligned_cols=40  Identities=20%  Similarity=0.428  Sum_probs=34.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHc--CCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQ--GKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~--G~kVlLId~D~~  222 (481)
                      +.-+++.|++|+||||++..++..+...  |.++..+++..+
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~  171 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKF  171 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHH
Confidence            4568899999999999999999988776  888998887754

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=96.54  E-value=0.0019  Score=58.06  Aligned_cols=68  Identities=16%  Similarity=0.116  Sum_probs=37.5

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHhhh----cCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTFNI----EIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f~~----~~~i~GvIlnKvD~~~  336 (481)
                      .++.+.|+||||...... ..   .  ......+.+++|+|++..   .........+..    .-...-+|+||+|...
T Consensus        64 ~~~~~~~~Dt~G~~~~~~-~~---~--~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  137 (189)
T 2x77_A           64 KNISFEVWDLGGQTGVRP-YW---R--CYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPD  137 (189)
T ss_dssp             TTEEEEEEEECCSSSSCC-CC---S--SSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTT
T ss_pred             CCEEEEEEECCCCHhHHH-HH---H--HHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcC
Confidence            356789999999643210 00   0  011235788999998544   222222332211    1224568899999754


Q ss_pred             c
Q 011624          337 R  337 (481)
Q Consensus       337 ~  337 (481)
                      .
T Consensus       138 ~  138 (189)
T 2x77_A          138 A  138 (189)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=96.54  E-value=0.0036  Score=57.42  Aligned_cols=65  Identities=20%  Similarity=0.227  Sum_probs=36.2

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH-------HHHHhhhcCCeeEEEEcCCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA-------LVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~-------~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .+.+.|+||||......     +.. ......+.+++|+|.....+...       .+..+.+..+ .-+|+||+|...
T Consensus        72 ~~~~~i~Dt~G~~~~~~-----~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~  143 (207)
T 2fv8_A           72 QVELALWDTAGQEDYDR-----LRP-LSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVP-IILVANKKDLRS  143 (207)
T ss_dssp             EEEEEEEECTTCTTCTT-----TGG-GGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECGGGGG
T ss_pred             EEEEEEEECCCcHHHHH-----HHH-hhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEEchhhhc
Confidence            46789999999643210     000 11123578899999865433222       2222222343 358899999643

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.52  E-value=0.0023  Score=60.94  Aligned_cols=44  Identities=25%  Similarity=0.455  Sum_probs=33.1

Q ss_pred             cCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH-----cCCeEEEEeccCC
Q 011624          179 AKSRPTVILLAGLQGVGKTTVSAKLANYLKK-----QGKSCMLVAGDVY  222 (481)
Q Consensus       179 ~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~-----~G~kVlLId~D~~  222 (481)
                      .-.++.++.++|++|+||||++..|+..+..     ...+|.+++.|.+
T Consensus        21 ~i~~g~iigI~G~~GsGKSTl~k~L~~~lG~~~~~~~~~~i~~v~~d~~   69 (245)
T 2jeo_A           21 QSMRPFLIGVSGGTASGKSTVCEKIMELLGQNEVEQRQRKVVILSQDRF   69 (245)
T ss_dssp             --CCSEEEEEECSTTSSHHHHHHHHHHHHTGGGSCGGGCSEEEEEGGGG
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHhchhcccccCCceEEEeCCcC
Confidence            3346789999999999999999999876632     1346888888854

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.51  E-value=0.0033  Score=59.65  Aligned_cols=44  Identities=30%  Similarity=0.416  Sum_probs=37.1

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCc
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYR  223 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~r  223 (481)
                      ..++.+|++.|..|+||||.+..|+.+|.. +|++|.++.-.|..
T Consensus        18 ~~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~~   62 (223)
T 3ld9_A           18 GPGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPGG   62 (223)
T ss_dssp             -CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSCS
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCCC
Confidence            346789999999999999999999999998 99998875555543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.51  E-value=0.015  Score=57.74  Aligned_cols=74  Identities=16%  Similarity=0.215  Sum_probs=47.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      +++-+++.|++|+|||+++..+|..+  .+..+..+++......               .     .......++..+..+
T Consensus        44 ~~~~iLL~GppGtGKT~la~ala~~~--~~~~~~~i~~~~l~~~---------------~-----~g~~~~~~~~lf~~a  101 (322)
T 1xwi_A           44 PWRGILLFGPPGTGKSYLAKAVATEA--NNSTFFSISSSDLVSK---------------W-----LGESEKLVKNLFQLA  101 (322)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHT--TSCEEEEEECCSSCCS---------------S-----CCSCHHHHHHHHHHH
T ss_pred             CCceEEEECCCCccHHHHHHHHHHHc--CCCcEEEEEhHHHHhh---------------h-----hhHHHHHHHHHHHHH
Confidence            45788999999999999999998765  2556665555422100               0     011234455666666


Q ss_pred             HcCCCcEEEEcCCCCc
Q 011624          262 KKKNVDVVIVDTAGRL  277 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~  277 (481)
                      ......+++||-...+
T Consensus       102 ~~~~~~vl~iDEid~l  117 (322)
T 1xwi_A          102 RENKPSIIFIDEIDSL  117 (322)
T ss_dssp             HHTSSEEEEEETTTGG
T ss_pred             HhcCCcEEEeecHHHh
Confidence            5556789999976443

>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=96.50  E-value=0.0025  Score=56.98  Aligned_cols=37  Identities=27%  Similarity=0.536  Sum_probs=30.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++.+++++|++|+||||++..|+..+   |.  .++++|..+
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~---g~--~~i~~d~~~   43 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQL---HA--AFLDGDFLH   43 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH---TC--EEEEGGGGC
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhh---Cc--EEEeCcccc
Confidence            46799999999999999999998765   43  567888765

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=96.50  E-value=0.0067  Score=54.99  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=18.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..-|+++|.+||||||+...|.
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~   41 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYT   41 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4567888999999999998875

>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=96.50  E-value=0.0025  Score=58.71  Aligned_cols=38  Identities=29%  Similarity=0.562  Sum_probs=30.8

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .++.+|+++|++|+||||++..|+..+.    .+.+++.|.+
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~~~----~~~~i~~D~~   56 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKHLP----NCSVISQDDF   56 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTTST----TEEEEEGGGG
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhcC----CcEEEeCCcc
Confidence            4578999999999999999988874321    5888999975

>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=96.49  E-value=0.0017  Score=58.90  Aligned_cols=36  Identities=28%  Similarity=0.422  Sum_probs=27.7

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .++.+|+++|++||||||++..|+..+  .|  ..++|+|
T Consensus         8 ~~~~~I~l~G~~GsGKSTv~~~La~~l--~g--~~~id~d   43 (184)
T 1y63_A            8 PKGINILITGTPGTGKTSMAEMIAAEL--DG--FQHLEVG   43 (184)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHS--TT--EEEEEHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhc--CC--CEEeeHH
Confidence            346789999999999999998887652  14  4556777

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=96.48  E-value=0.014  Score=52.87  Aligned_cols=65  Identities=20%  Similarity=0.213  Sum_probs=35.6

Q ss_pred             CCCcEEEEcCCCCccccHHH---HHHHHhhhhccCCceEEEEEeCcch--HHH---HHHHHHh---hhcCCeeEEEEcCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAM---MDELKDVKRVLNPTEVLLVVDAMTG--QEA---AALVTTF---NIEIGITGAILTKL  332 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~---~~el~~i~~~~~p~~vvLVvda~~~--~~~---~~~~~~f---~~~~~i~GvIlnKv  332 (481)
                      ..+.+.|+||||........   ...    ..  ..+.+++|+|.+..  ...   ...+...   .... ..-+|.||+
T Consensus        67 ~~~~l~i~Dt~G~~~~~~~~~~~~~~----~~--~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~-piilv~nK~  139 (196)
T 3llu_A           67 SFVNFQIWDFPGQMDFFDPTFDYEMI----FR--GTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDM-NFEVFIHKV  139 (196)
T ss_dssp             TSCCEEEEECCSSCCTTCTTCCHHHH----HH--TCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTC-EEEEEEECG
T ss_pred             CeeEEEEEECCCCHHHHhhhhhcccc----cc--cCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCC-cEEEEEecc
Confidence            45789999999974321111   111    11  24788999998543  221   1222222   2222 345788999


Q ss_pred             CCC
Q 011624          333 DGD  335 (481)
Q Consensus       333 D~~  335 (481)
                      |..
T Consensus       140 Dl~  142 (196)
T 3llu_A          140 DGL  142 (196)
T ss_dssp             GGS
T ss_pred             ccC
Confidence            954

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.47  E-value=0.0021  Score=59.07  Aligned_cols=37  Identities=24%  Similarity=0.472  Sum_probs=30.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++.+++++|++|+||||++..|+..+   |.  .+++.|.+.
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~---g~--~~i~~d~~~   64 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET---GL--EFAEADAFH   64 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH---CC--EEEEGGGGS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh---CC--eEEcccccc
Confidence            46799999999999999999998776   53  567888765

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.47  E-value=0.0015  Score=59.40  Aligned_cols=39  Identities=21%  Similarity=0.375  Sum_probs=32.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+++++|++|+||||++..|+..+...|+++..|..|..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~~g~~~G~I~~dg~   41 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRERGLRVAVVKRHAH   41 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHHTTCCEEEEEC---
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhhcCCceEEEEEcCc
Confidence            478899999999999999999999998988887776654

>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=96.46  E-value=0.0033  Score=62.62  Aligned_cols=43  Identities=30%  Similarity=0.337  Sum_probs=36.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHc-C-CeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQ-G-KSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G-~kVlLId~D~~r  223 (481)
                      .++.+++++|++|+||||++..|+..+... | .+|.+|..|.|-
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~~~  132 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDGFL  132 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGGGB
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccccCCCCeEEEEecCccC
Confidence            467899999999999999999998888643 5 579999988763

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=96.45  E-value=0.0026  Score=58.35  Aligned_cols=64  Identities=17%  Similarity=0.142  Sum_probs=36.2

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH-------HHHHhhhcCCeeEEEEcCCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA-------LVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~-------~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      .+.+.|+||||...... +.    . ......+.+++|+|.....+...       .+..+.+..+ .-+|.||+|..
T Consensus        56 ~~~~~i~Dt~G~~~~~~-~~----~-~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~  126 (212)
T 2j0v_A           56 IVNLGLWDTAGQEDYSR-LR----P-LSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVP-IVLVGTKLDLR  126 (212)
T ss_dssp             EEEEEEECCCCCCCCCC-------C-GGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCC-EEEEEECHHHH
T ss_pred             EEEEEEEECCCcHHHHH-HH----H-hhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC-EEEEEeCHHhh
Confidence            46789999999743211 10    0 11223588899999865543322       2222222333 45889999964

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=96.44  E-value=0.021  Score=59.22  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=20.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .+.-++++|++||||||+...|.
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~  201 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAIL  201 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHh
Confidence            45678899999999999998876

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=96.42  E-value=0.00028  Score=64.52  Aligned_cols=22  Identities=36%  Similarity=0.501  Sum_probs=18.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +.-|+++|.+||||||++..|.
T Consensus        33 ~~ki~vvG~~~~GKSsli~~l~   54 (199)
T 3l0i_B           33 LFKLLLIGDSGVGKSCLLLRFA   54 (199)
T ss_dssp             EEEEEEECCTTSCCTTTTTSSB
T ss_pred             ceEEEEECCCCCCHHHHHHHHh
Confidence            4567888999999999986663

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.40  E-value=0.0036  Score=55.58  Aligned_cols=37  Identities=27%  Similarity=0.403  Sum_probs=30.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHH-------cCCeEEEEec
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKK-------QGKSCMLVAG  219 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~-------~G~kVlLId~  219 (481)
                      +..++++|++|+||||++..++..+..       .+.++..+++
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeH
Confidence            456789999999999999999998876       4677776655

>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=96.40  E-value=0.0089  Score=59.57  Aligned_cols=36  Identities=31%  Similarity=0.490  Sum_probs=29.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++.+|+++||+||||||++..||..+     ...+|++|.+
T Consensus         2 ~~~~i~i~GptgsGKt~la~~La~~~-----~~~iis~Ds~   37 (322)
T 3exa_A            2 KEKLVAIVGPTAVGKTKTSVMLAKRL-----NGEVISGDSM   37 (322)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHTT-----TEEEEECCGG
T ss_pred             CCcEEEEECCCcCCHHHHHHHHHHhC-----ccceeecCcc
Confidence            35789999999999999999998654     3578999963

>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=96.40  E-value=0.011  Score=59.55  Aligned_cols=70  Identities=20%  Similarity=0.278  Sum_probs=44.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++-+++.|++|+||||++..+|..+   |..+..+++......+                    .......++..+..+
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~~~---~~~~~~i~~~~l~~~~--------------------~g~~~~~~~~~~~~a  172 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIASQS---GATFFSISASSLTSKW--------------------VGEGEKMVRALFAVA  172 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHHHT---TCEEEEEEGGGGCCSS--------------------TTHHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHc---CCeEEEEehHHhhccc--------------------cchHHHHHHHHHHHH
Confidence            46788999999999999999998654   6677766654221000                    001223344455555


Q ss_pred             HcCCCcEEEEcCC
Q 011624          262 KKKNVDVVIVDTA  274 (481)
Q Consensus       262 ~~~~~D~VIIDt~  274 (481)
                      ......+++||-.
T Consensus       173 ~~~~~~vl~iDEi  185 (357)
T 3d8b_A          173 RCQQPAVIFIDEI  185 (357)
T ss_dssp             HHTCSEEEEEETH
T ss_pred             HhcCCeEEEEeCc
Confidence            4456789999865

>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=96.39  E-value=0.021  Score=57.76  Aligned_cols=41  Identities=17%  Similarity=0.145  Sum_probs=33.1

Q ss_pred             CCEEEEE--EcCCCCCHHHHHHHHHHHHHHc------CCeEEEEeccCC
Q 011624          182 RPTVILL--AGLQGVGKTTVSAKLANYLKKQ------GKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i--~G~~GvGKTTta~~LA~~L~~~------G~kVlLId~D~~  222 (481)
                      .+..+++  +|++|+||||++..++..+...      +..+..+++...
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNA   97 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGC
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCC
Confidence            4567888  9999999999999999887653      677888887543

>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=96.39  E-value=0.004  Score=66.17  Aligned_cols=40  Identities=15%  Similarity=0.177  Sum_probs=36.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH-c-CCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK-Q-GKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~-~-G~kVlLId~D~  221 (481)
                      ++.+|+++|.+||||||++..||..|.. + |+.+.++|+|.
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L~~~~g~r~~~~lDgD~  435 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHNN  435 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCTT
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHHHHhhcCcceEEecCCC
Confidence            4689999999999999999999999986 6 47888999997

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=96.38  E-value=0.015  Score=60.58  Aligned_cols=33  Identities=24%  Similarity=0.407  Sum_probs=29.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEE
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGK-SCMLV  217 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~-kVlLI  217 (481)
                      .+++.|++|+||||++..++.+|...|. +|+++
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~   80 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALISTGETGIILA   80 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCceEEEe
Confidence            7889999999999999999999999887 66655

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.38  E-value=0.0027  Score=64.04  Aligned_cols=35  Identities=29%  Similarity=0.526  Sum_probs=30.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +.+|+++|++||||||++..||..+.     +.+|++|.+
T Consensus         7 ~~lI~I~GptgSGKTtla~~La~~l~-----~~iis~Ds~   41 (340)
T 3d3q_A            7 PFLIVIVGPTASGKTELSIEVAKKFN-----GEIISGDSM   41 (340)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTT-----EEEEECCSS
T ss_pred             CceEEEECCCcCcHHHHHHHHHHHcC-----Cceeccccc
Confidence            36899999999999999999987653     788999976

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=96.38  E-value=0.0036  Score=62.62  Aligned_cols=22  Identities=45%  Similarity=0.611  Sum_probs=18.4

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +.-|+++|.+||||||++..|.
T Consensus       165 ~~kI~ivG~~~vGKSsLl~~l~  186 (329)
T 3o47_A          165 EMRILMVGLDAAGKTTILYKLK  186 (329)
T ss_dssp             SEEEEEEESTTSSHHHHHHHTC
T ss_pred             cceEEEECCCCccHHHHHHHHh
Confidence            4468889999999999987763

>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=96.36  E-value=0.036  Score=51.88  Aligned_cols=82  Identities=13%  Similarity=0.097  Sum_probs=45.7

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH------HHHHh-hhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA------LVTTF-NIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~------~~~~f-~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+-|.||+|.-.. ..+...   .  ....+.+++|.|.+...+...      .+... .+.+ +.-+|.||.|...
T Consensus        60 ~~v~l~iwDtaGqe~~-~~l~~~---~--~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~-piilVgNK~Dl~~  132 (216)
T 4dkx_A           60 RTIRLQLWDTAGLERF-RSLIPS---Y--IRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDV-IIMLVGNKTDLAD  132 (216)
T ss_dssp             CEEEEEEECCSCTTTC-GGGHHH---H--HTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSS-EEEEEEECTTCGG
T ss_pred             eEEEEEEEECCCchhh-hhHHHH---H--hccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCC-eEEEEeeccchHh
Confidence            3466789999996432 112211   1  123477888888765433322      22222 2222 3457889999643


Q ss_pred             ----chhHHHHHHHHhCCCe
Q 011624          337 ----RGGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ----~~g~~~~~~~~~glPV  352 (481)
                          ....+..++...|.+.
T Consensus       133 ~r~V~~~e~~~~a~~~~~~~  152 (216)
T 4dkx_A          133 KRQVSIEEGERKAKELNVMF  152 (216)
T ss_dssp             GCCSCHHHHHHHHHHHTCEE
T ss_pred             cCcccHHHHhhHHHHhCCee
Confidence                2344566777788765

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.36  E-value=0.0025  Score=57.46  Aligned_cols=34  Identities=26%  Similarity=0.480  Sum_probs=27.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      +|.+|+++|++||||||++..|+..+   |.  .+++.|
T Consensus         2 ~~~~I~l~G~~GsGKsT~a~~L~~~~---~~--~~i~~d   35 (196)
T 1tev_A            2 KPLVVFVLGGPGAGKGTQCARIVEKY---GY--THLSAG   35 (196)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHHHH---CC--EEEEHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh---CC--eEEeHH
Confidence            46799999999999999999998765   44  346666

>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=96.36  E-value=0.0025  Score=57.64  Aligned_cols=37  Identities=32%  Similarity=0.490  Sum_probs=28.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ++.+++++|++|+||||++..|+..   .+.....++.|.
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~---~~~g~i~i~~d~   44 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL---PGVPKVHFHSDD   44 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC---SSSCEEEECTTH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc---cCCCeEEEcccc
Confidence            4679999999999999999888754   233445677664

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.35  E-value=0.0065  Score=66.33  Aligned_cols=55  Identities=25%  Similarity=0.257  Sum_probs=40.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      +.++.||+|+|||+|++.+..++.++|.+|++++   +...++|.+...-...+..++
T Consensus       207 ~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a---~TN~AvD~i~erL~~~~~~il  261 (646)
T 4b3f_X          207 LAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCA---PSNIAVDNLVERLALCKQRIL  261 (646)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE---SSHHHHHHHHHHHHHTTCCEE
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEc---CchHHHHHHHHHHHhcCCceE
Confidence            7788999999999999999999999999998663   344556655332223344443

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=96.35  E-value=0.0087  Score=53.93  Aligned_cols=81  Identities=15%  Similarity=0.059  Sum_probs=43.4

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---H---HHHhh----hcCCeeEEEEcCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---L---VTTFN----IEIGITGAILTKLD  333 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~---~~~f~----~~~~i~GvIlnKvD  333 (481)
                      ..+.+.|+||||...... + .   ...  ...+.+++|.|.....+...   .   +..+.    .... .-+|.||+|
T Consensus        67 ~~~~l~i~Dt~G~~~~~~-~-~---~~~--~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p-iilv~nK~D  138 (187)
T 3c5c_A           67 QPVHLRVMDTADLDTPRN-C-E---RYL--NWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIP-ALLLGNKLD  138 (187)
T ss_dssp             EEEEEEEEECCC---CCC-T-H---HHH--TTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCC-EEEEEECGG
T ss_pred             EEEEEEEEECCCCCcchh-H-H---HHH--hhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCC-EEEEEECcc
Confidence            346788999999643221 1 1   111  13477899999865432221   1   22221    2233 458899999


Q ss_pred             CCC----chhHHHHHHHHhCCCe
Q 011624          334 GDS----RGGAALSVKEVSGKPI  352 (481)
Q Consensus       334 ~~~----~~g~~~~~~~~~glPV  352 (481)
                      ...    ....+...+...+.++
T Consensus       139 l~~~~~v~~~~~~~~~~~~~~~~  161 (187)
T 3c5c_A          139 MAQYRQVTKAEGVALAGRFGCLF  161 (187)
T ss_dssp             GGGGCSSCHHHHHHHHHHHTCEE
T ss_pred             hhhcCccCHHHHHHHHHHcCCcE
Confidence            632    1234456667777765

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=96.34  E-value=0.015  Score=51.34  Aligned_cols=21  Identities=14%  Similarity=0.186  Sum_probs=18.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|++.|.+||||||++..|.
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~   28 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFL   28 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            457889999999999998775

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.33  E-value=0.0023  Score=58.75  Aligned_cols=36  Identities=31%  Similarity=0.401  Sum_probs=28.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      .++.+|+++|++||||||++..|+..+   |..  +++.|.
T Consensus        23 ~~~~~i~l~G~~GsGKsTl~~~La~~l---~~~--~i~~d~   58 (199)
T 3vaa_A           23 NAMVRIFLTGYMGAGKTTLGKAFARKL---NVP--FIDLDW   58 (199)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH---TCC--EEEHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHc---CCC--EEcchH
Confidence            345689999999999999999999777   443  456664

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=96.30  E-value=0.016  Score=59.61  Aligned_cols=64  Identities=19%  Similarity=0.184  Sum_probs=37.0

Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc----hHHHHHHHHHhh-hcCCeeEEEEcCCCCCC
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT----GQEAAALVTTFN-IEIGITGAILTKLDGDS  336 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~----~~~~~~~~~~f~-~~~~i~GvIlnKvD~~~  336 (481)
                      +.+.|+||||..    .+...+.  ......+.++||+|+..    .+.. +.+..+. ......-+++||+|...
T Consensus        81 ~~i~iiDtPGh~----~f~~~~~--~~~~~~D~~ilVvda~~g~~~~qt~-e~l~~~~~l~~~~iivv~NK~Dl~~  149 (408)
T 1s0u_A           81 RRVSFVDSPGHE----TLMATML--SGASLMDGAILVIAANEPCPQPQTK-EHLMALEILGIDKIIIVQNKIDLVD  149 (408)
T ss_dssp             EEEEEEECSSHH----HHHHHHH--TTCSCCSEEEEEEETTSCSSCHHHH-HHHHHHHHTTCCCEEEEEECTTSSC
T ss_pred             cEEEEEECCCHH----HHHHHHH--HhHhhCCEEEEEEECCCCCCCchhH-HHHHHHHHcCCCeEEEEEEccCCCC
Confidence            568999999953    2333332  22334688999999963    3322 2222221 12223458899999643

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=96.28  E-value=0.011  Score=60.43  Aligned_cols=117  Identities=16%  Similarity=0.257  Sum_probs=61.6

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHH
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~  259 (481)
                      +.+-.-|+++|.+.|||||+...|.      |.++. +..=+|        .+.....|+  +                 
T Consensus        69 k~g~a~V~ivG~PNvGKSTL~n~Lt------~~~~~-v~~~pf--------tT~~~~~g~--~-----------------  114 (376)
T 4a9a_A           69 RTGVASVGFVGFPSVGKSTLLSKLT------GTESE-AAEYEF--------TTLVTVPGV--I-----------------  114 (376)
T ss_dssp             BCSSEEEEEECCCCHHHHHHHHHHH------SBCCC-GGGTCS--------SCCCEEEEE--E-----------------
T ss_pred             ecCCCeEEEECCCCCCHHHHHHHHh------CCCCc-ccCCCC--------ceeeeeeEE--E-----------------
Confidence            3444578899999999999998885      33322 111111        011101111  1                 


Q ss_pred             HHHcCCCcEEEEcCCCCcccc---HHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH----HHhhhcC--CeeEEEEc
Q 011624          260 EAKKKNVDVVIVDTAGRLQID---KAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV----TTFNIEI--GITGAILT  330 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~~~d---~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~----~~f~~~~--~i~GvIln  330 (481)
                        ...+..+.++||||.....   ..+..+....  +-.++-+++|+|+.........+    ..+...+  ...-+++|
T Consensus       115 --~~~~~~i~l~D~pGl~~~a~~~~~~g~~~l~~--i~~ad~il~vvD~~~p~~~~~~i~~EL~~~~~~l~~k~~~i~~n  190 (376)
T 4a9a_A          115 --RYKGAKIQMLDLPGIIDGAKDGRGRGKQVIAV--ARTCNLLFIILDVNKPLHHKQIIEKELEGVGIRLNKTPPDILIK  190 (376)
T ss_dssp             --EETTEEEEEEECGGGCCC-----CHHHHHHHH--HHHCSEEEEEEETTSHHHHHHHHHHHHHHTTEEETCCCCCEEEE
T ss_pred             --EeCCcEEEEEeCCCccCCchhhhHHHHHHHHH--HHhcCccccccccCccHHHHHHHHHHHHHhhHhhccCChhhhhh
Confidence              1245678999999986431   1122222111  12358889999997653333322    2232211  23347889


Q ss_pred             CCCC
Q 011624          331 KLDG  334 (481)
Q Consensus       331 KvD~  334 (481)
                      |.|.
T Consensus       191 K~d~  194 (376)
T 4a9a_A          191 KKEK  194 (376)
T ss_dssp             ECSS
T ss_pred             Hhhh
Confidence            9884

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=96.27  E-value=0.0043  Score=62.58  Aligned_cols=81  Identities=12%  Similarity=0.162  Sum_probs=42.0

Q ss_pred             CcEEEEcCCCCcc---ccHHHHHHH-HhhhhccCCceEEEEEeCcc-----hH-HH---HHHHHHhhhc--CCeeEEEEc
Q 011624          266 VDVVIVDTAGRLQ---IDKAMMDEL-KDVKRVLNPTEVLLVVDAMT-----GQ-EA---AALVTTFNIE--IGITGAILT  330 (481)
Q Consensus       266 ~D~VIIDt~G~~~---~d~~~~~el-~~i~~~~~p~~vvLVvda~~-----~~-~~---~~~~~~f~~~--~~i~GvIln  330 (481)
                      ..++|+||||...   ....+..+. ..+.   ..+.+++|+|++.     .. +.   ...+..+.+.  -...-+|+|
T Consensus       206 ~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~---~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~N  282 (342)
T 1lnz_A          206 RSFVMADLPGLIEGAHQGVGLGHQFLRHIE---RTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVAN  282 (342)
T ss_dssp             CEEEEEEHHHHHHHTTCTTTTHHHHHHHHH---HCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEE
T ss_pred             ceEEEecCCCCcccccccchhHHHHHHHHH---hccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEE
Confidence            5799999999532   111122221 1111   2477899999853     21 22   2223344321  123458999


Q ss_pred             CCCCCCchhHHHHHHHHhC
Q 011624          331 KLDGDSRGGAALSVKEVSG  349 (481)
Q Consensus       331 KvD~~~~~g~~~~~~~~~g  349 (481)
                      |+|.......+..+....+
T Consensus       283 K~Dl~~~~e~~~~l~~~l~  301 (342)
T 1lnz_A          283 KMDMPEAAENLEAFKEKLT  301 (342)
T ss_dssp             CTTSTTHHHHHHHHHHHCC
T ss_pred             CccCCCCHHHHHHHHHHhh
Confidence            9997654333444555544

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=96.26  E-value=0.012  Score=60.47  Aligned_cols=63  Identities=16%  Similarity=0.070  Sum_probs=36.7

Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc----hHHH--HHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT----GQEA--AALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~----~~~~--~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.|+||||..    .+...+..-  ...++.++||+|+..    .+..  ...+..+  .....-+++||+|...
T Consensus        83 ~~i~iiDtPGh~----~f~~~~~~~--~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~--~~~~iivviNK~Dl~~  151 (410)
T 1kk1_A           83 RRVSFIDAPGHE----ALMTTMLAG--ASLMDGAILVIAANEPCPRPQTREHLMALQII--GQKNIIIAQNKIELVD  151 (410)
T ss_dssp             EEEEEEECSSHH----HHHHHHHHC--GGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH--TCCCEEEEEECGGGSC
T ss_pred             cEEEEEECCChH----HHHHHHHhh--hhhCCEEEEEEECCCCCCChhHHHHHHHHHHc--CCCcEEEEEECccCCC
Confidence            568999999963    233333222  224588999999963    2322  2222222  2223447799999754

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=96.25  E-value=0.011  Score=56.37  Aligned_cols=85  Identities=15%  Similarity=0.151  Sum_probs=51.6

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe--ccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA--GDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGL  258 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId--~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l  258 (481)
                      ....+.+++|+-|+||||.+..++..+..+|++|+++.  .|. |.+  ..+..   ..|+........ ...    +.+
T Consensus        17 ~~g~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~kp~~D~-Ryg--~~i~s---r~G~~~~a~~i~-~~~----di~   85 (234)
T 2orv_A           17 TRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDT-RYS--SSFCT---HDRNTMEALPAC-LLR----DVA   85 (234)
T ss_dssp             -CCEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEETTCC-CC----------------CEEEEES-SGG----GGH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEeecCCc-cch--HHHHh---hcCCeeEEEecC-CHH----HHH
Confidence            34679999999999999999999999999999999887  442 222  12211   123332211111 111    233


Q ss_pred             HHHHcCCCcEEEEcCCCCcc
Q 011624          259 EEAKKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       259 ~~~~~~~~D~VIIDt~G~~~  278 (481)
                      +.+  .++|+|+||=+-...
T Consensus        86 ~~~--~~~dvViIDEaQF~~  103 (234)
T 2orv_A           86 QEA--LGVAVIGIDEGQFFP  103 (234)
T ss_dssp             HHH--TTCSEEEESSGGGCT
T ss_pred             HHh--ccCCEEEEEchhhhh
Confidence            333  679999999986653

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.24  E-value=0.0038  Score=61.93  Aligned_cols=38  Identities=32%  Similarity=0.363  Sum_probs=34.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEecc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGD  220 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D  220 (481)
                      +.-+++.|++|+|||+++..++..+. ++|.+|.++.+.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~  190 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFP  190 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHH
Confidence            45788899999999999999999999 999999988764

>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=96.24  E-value=0.0026  Score=56.24  Aligned_cols=35  Identities=34%  Similarity=0.469  Sum_probs=28.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+|+++|++||||||++..|+..+   |.  .+++.|.+.
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l---~~--~~i~~d~~~   36 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL---KY--PIIKGSSFE   36 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH---CC--CEEECCCHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh---CC--eeecCcccc
Confidence            378899999999999999998765   43  457888764

>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=96.23  E-value=0.0035  Score=56.38  Aligned_cols=34  Identities=26%  Similarity=0.483  Sum_probs=27.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .+.+|+++|++||||||++..|+..+   |.  .++++|
T Consensus         5 ~~~~I~l~G~~GsGKsT~~~~L~~~l---~~--~~i~~d   38 (194)
T 1qf9_A            5 KPNVVFVLGGPGSGKGTQCANIVRDF---GW--VHLSAG   38 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH---CC--EEEEHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHh---CC--eEeeHH
Confidence            46799999999999999999998765   43  456665

>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=96.23  E-value=0.0034  Score=55.23  Aligned_cols=28  Identities=36%  Similarity=0.694  Sum_probs=22.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEE
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCM  215 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVl  215 (481)
                      .+|+++|++||||||++..|    .+.|..+.
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L----~~~g~~~i   29 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL----KERGAKVI   29 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH----HHTTCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHH----HHCCCcEE
Confidence            37889999999999999887    45577654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.23  E-value=0.0028  Score=57.42  Aligned_cols=35  Identities=23%  Similarity=0.377  Sum_probs=27.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ++.+|+++|++||||||++..|+..|   |..  +++.|.
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l---~~~--~i~~d~   42 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY---GYT--HLSTGD   42 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH---CCE--EEEHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh---CCe--EEcHHH
Confidence            45689999999999999999998766   443  566653

>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=96.22  E-value=0.017  Score=52.42  Aligned_cols=28  Identities=32%  Similarity=0.421  Sum_probs=24.1

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCe
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKS  213 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~k  213 (481)
                      ++++|++|+||||++..++..+...+..
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~~~~~~~~   68 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARDLFGENWR   68 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHGGGGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhccccc
Confidence            8899999999999999999888665543

>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=96.22  E-value=0.012  Score=58.20  Aligned_cols=73  Identities=19%  Similarity=0.300  Sum_probs=46.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++-+++.|++|+|||+++..+|..+   +..+..+++...          .....          ......++..+..+
T Consensus        50 ~~~~vLl~GppGtGKT~la~aia~~~---~~~~~~v~~~~l----------~~~~~----------g~~~~~~~~~f~~a  106 (322)
T 3eie_A           50 PTSGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSDL----------VSKWM----------GESEKLVKQLFAMA  106 (322)
T ss_dssp             CCCEEEEECSSSSCHHHHHHHHHHHH---TCEEEEEEHHHH----------HTTTG----------GGHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHH---CCCEEEEchHHH----------hhccc----------chHHHHHHHHHHHH
Confidence            45678999999999999999998764   556665544211          00000          11234455566666


Q ss_pred             HcCCCcEEEEcCCCCc
Q 011624          262 KKKNVDVVIVDTAGRL  277 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~  277 (481)
                      ......+++||-...+
T Consensus       107 ~~~~~~vl~iDEid~l  122 (322)
T 3eie_A          107 RENKPSIIFIDQVDAL  122 (322)
T ss_dssp             HHTSSEEEEEECGGGG
T ss_pred             HhcCCeEEEechhhhh
Confidence            5556679999876544

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=96.21  E-value=0.0053  Score=56.86  Aligned_cols=65  Identities=18%  Similarity=0.158  Sum_probs=36.6

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH-------HHHHhhhcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA-------LVTTFNIEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~-------~~~~f~~~~~i~GvIlnKvD~~  335 (481)
                      ..+.+.|+||+|.....     .+.. ......+.+++|+|.+...+...       .+....... ..-+|.||+|..
T Consensus        73 ~~~~l~i~Dt~G~~~~~-----~~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~-piilv~nK~Dl~  144 (214)
T 3q3j_B           73 QRVELSLWDTSGSPYYD-----NVRP-LCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPST-RVLLIGCKTDLR  144 (214)
T ss_dssp             CEEEEEEEEECCSGGGT-----TTGG-GGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTS-EEEEEEECGGGG
T ss_pred             EEEEEEEEECCCCHhHH-----HHHH-HHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCC-CEEEEEEChhhc
Confidence            45678999999964211     0100 01123578899999865543322       222222223 345789999964

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.18  E-value=0.0074  Score=54.16  Aligned_cols=22  Identities=32%  Similarity=0.542  Sum_probs=19.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKL  203 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~L  203 (481)
                      ++.+++++|++|+||||++..+
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            5679999999999999999864

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=96.17  E-value=0.0075  Score=56.64  Aligned_cols=39  Identities=26%  Similarity=0.411  Sum_probs=32.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGK-SCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~-kVlLId~D~~  222 (481)
                      +.+|++.|+.|+||||.+..|+.+|..+|+ .|. +.-.|.
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~~v~-~~rep~   42 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMV-FTREPG   42 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEE-EEESSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCCcce-eeeCCC
Confidence            568999999999999999999999999998 664 444443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.17  E-value=0.015  Score=56.47  Aligned_cols=73  Identities=15%  Similarity=0.219  Sum_probs=45.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .+.-+++.|++|+||||++..+|..+   +.....+++......                    .........+..+..+
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~---~~~~~~i~~~~l~~~--------------------~~~~~~~~~~~~~~~~  109 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATEC---SATFLNISAASLTSK--------------------YVGDGEKLVRALFAVA  109 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHT---TCEEEEEESTTTSSS--------------------SCSCHHHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHh---CCCeEEeeHHHHhhc--------------------ccchHHHHHHHHHHHH
Confidence            45688999999999999999988654   455555554322100                    0112234445555555


Q ss_pred             HcCCCcEEEEcCCCCc
Q 011624          262 KKKNVDVVIVDTAGRL  277 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~  277 (481)
                      ......+++||-+..+
T Consensus       110 ~~~~~~vl~iDEid~l  125 (297)
T 3b9p_A          110 RHMQPSIIFIDEVDSL  125 (297)
T ss_dssp             HHTCSEEEEEETGGGT
T ss_pred             HHcCCcEEEeccHHHh
Confidence            4456789999977443

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.17  E-value=0.0031  Score=56.78  Aligned_cols=35  Identities=40%  Similarity=0.525  Sum_probs=27.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +.+|+++|++||||||++..||..|   |.  .++|.|.+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l---~~--~~i~~d~~   39 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT---KR--ILYDSDKE   39 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH---CC--CEEEHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh---CC--CEEEChHH
Confidence            4578899999999999999998766   43  45677754

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=96.16  E-value=0.0025  Score=68.23  Aligned_cols=24  Identities=38%  Similarity=0.493  Sum_probs=19.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLAN  205 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~  205 (481)
                      ++.+|++.|.+|+||||+...|..
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~   26 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRK   26 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            345788899999999999988853

>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=96.15  E-value=0.0037  Score=57.28  Aligned_cols=35  Identities=34%  Similarity=0.449  Sum_probs=28.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ..|.+|+++|++||||||++..|+..+   |..  +++.|
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~~l---~~~--~i~~d   52 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAEKL---GIP--QISTG   52 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHHHH---TCC--EEEHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh---CCc--EEehh
Confidence            457799999999999999999998776   444  45654

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.14  E-value=0.031  Score=53.07  Aligned_cols=35  Identities=26%  Similarity=0.461  Sum_probs=26.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      |+-+++.|++|+||||++..++..+   +..+..+++.
T Consensus        45 ~~~vll~G~~GtGKT~la~~la~~~---~~~~~~i~~~   79 (257)
T 1lv7_A           45 PKGVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGS   79 (257)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH---TCCEEEECSC
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHHc---CCCEEEEeHH
Confidence            4458899999999999999998765   4455555544

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=96.11  E-value=0.0042  Score=59.00  Aligned_cols=35  Identities=29%  Similarity=0.530  Sum_probs=28.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc----CCeEEE
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ----GKSCML  216 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~----G~kVlL  216 (481)
                      ++.+|++.|+.|+||||.+..|+.+|...    |++|.+
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~   62 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVV   62 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhccccceeeee
Confidence            46789999999999999999999999988    999864

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.11  E-value=0.0036  Score=56.36  Aligned_cols=34  Identities=26%  Similarity=0.381  Sum_probs=27.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ++.+|+++|++||||||++..|+..+   |.  .++++|
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~l---~~--~~i~~d   36 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQEL---GF--KKLSTG   36 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHHH---TC--EEECHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh---CC--eEecHH
Confidence            35689999999999999999998766   44  445665

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.11  E-value=0.0043  Score=55.07  Aligned_cols=37  Identities=27%  Similarity=0.336  Sum_probs=29.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHH-------cCCeEEEEec
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKK-------QGKSCMLVAG  219 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~-------~G~kVlLId~  219 (481)
                      +..++++|++|+||||++..++..+..       .+..+..+++
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDL   86 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeH
Confidence            346789999999999999999998876       3666766554

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.11  E-value=0.002  Score=57.84  Aligned_cols=31  Identities=35%  Similarity=0.483  Sum_probs=20.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEE
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCM  215 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVl  215 (481)
                      +|.+|+++|.+||||||++..|+..|   |..+.
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~l---~~~~i   34 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHERL---PGSFV   34 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHHS---TTCEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc---CCCEE
Confidence            46799999999999999998887654   55544

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.08  E-value=0.0038  Score=57.12  Aligned_cols=36  Identities=25%  Similarity=0.327  Sum_probs=28.6

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ..++.+|+++|++||||||++..|+..+   |.  .++++|
T Consensus        12 ~~~~~~I~l~G~~GsGKsT~~~~L~~~~---g~--~~i~~d   47 (203)
T 1ukz_A           12 PDQVSVIFVLGGPGAGKGTQCEKLVKDY---SF--VHLSAG   47 (203)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHHS---SC--EEEEHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHc---Cc--eEEeHH
Confidence            3467899999999999999999998654   44  556666

>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=96.07  E-value=0.0027  Score=58.95  Aligned_cols=26  Identities=38%  Similarity=0.491  Sum_probs=22.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++.+++++|++|+||||++..|+..+
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            46799999999999999999887654

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=96.06  E-value=0.0027  Score=65.99  Aligned_cols=87  Identities=17%  Similarity=0.107  Sum_probs=44.6

Q ss_pred             cEEEEcCCCCccccH---HHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchh--HH
Q 011624          267 DVVIVDTAGRLQIDK---AMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGG--AA  341 (481)
Q Consensus       267 D~VIIDt~G~~~~d~---~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g--~~  341 (481)
                      .+.|+||||......   ..........  ...+.+++|+|+............+...-...-+|+||+|......  ..
T Consensus        84 ~l~liDTpG~~d~~~l~~~~~~~~~~~l--~~aD~vllVvD~~~~~~~~~~l~~l~~~~~piIvV~NK~Dl~~~~~~~~~  161 (423)
T 3qq5_A           84 PVTLVDTPGLDDVGELGRLRVEKARRVF--YRADCGILVTDSAPTPYEDDVVNLFKEMEIPFVVVVNKIDVLGEKAEELK  161 (423)
T ss_dssp             EEEEEECSSTTCCCTTCCCCHHHHHHHH--TSCSEEEEECSSSCCHHHHHHHHHHHHTTCCEEEECCCCTTTTCCCTHHH
T ss_pred             eEEEEECcCCCcccchhHHHHHHHHHHH--hcCCEEEEEEeCCChHHHHHHHHHHHhcCCCEEEEEeCcCCCCccHHHHH
Confidence            689999999753211   0111111111  2358889999983333222333333221123458899999654322  22


Q ss_pred             HHHHHHhCCCeEEe
Q 011624          342 LSVKEVSGKPIKLV  355 (481)
Q Consensus       342 ~~~~~~~glPV~~i  355 (481)
                      ..+....+.|+..+
T Consensus       162 ~~l~~~~g~~v~~v  175 (423)
T 3qq5_A          162 GLYESRYEAKVLLV  175 (423)
T ss_dssp             HHSSCCTTCCCCCC
T ss_pred             HHHHHHcCCCEEEE
Confidence            33334456776433

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.04  E-value=0.0043  Score=62.45  Aligned_cols=36  Identities=25%  Similarity=0.458  Sum_probs=30.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++.+|+++|++||||||++..||..+     ..-+|++|..
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l-----~~eiIs~Ds~   74 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF-----PLEVINSDKM   74 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS-----CEEEEECCSS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC-----CCcEEccccc
Confidence            45799999999999999999998543     4678999965

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=96.03  E-value=0.0098  Score=58.73  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=17.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|++.|.+||||||+...|.
T Consensus         4 ~KI~lvG~~~vGKSSLi~~l~   24 (307)
T 3r7w_A            4 SKLLLMGRSGSGKSSMRSIIF   24 (307)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            457889999999999987764

>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=95.99  E-value=0.013  Score=58.27  Aligned_cols=26  Identities=35%  Similarity=0.462  Sum_probs=22.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      .|. ++++|++|+||||++..|+..+.
T Consensus        36 ~~~-~ll~Gp~G~GKTtl~~~la~~l~   61 (354)
T 1sxj_E           36 LPH-LLLYGPNGTGKKTRCMALLESIF   61 (354)
T ss_dssp             CCC-EEEECSTTSSHHHHHHTHHHHHS
T ss_pred             CCe-EEEECCCCCCHHHHHHHHHHHHc
Confidence            355 88999999999999999998664

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.98  E-value=0.004  Score=56.52  Aligned_cols=34  Identities=26%  Similarity=0.344  Sum_probs=27.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +.+|+++|++||||||++..|+..|   |  ..+++.|.
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l---~--~~~i~~d~   45 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKY---G--FTHLSTGE   45 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH---T--CEEEEHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh---C--CeEEcHHH
Confidence            5689999999999999999998776   3  34567664

>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=95.98  E-value=0.026  Score=51.60  Aligned_cols=28  Identities=36%  Similarity=0.526  Sum_probs=24.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQ  210 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~  210 (481)
                      +..++++|++|+||||++..++..+...
T Consensus        45 ~~~~ll~G~~G~GKT~l~~~~~~~~~~~   72 (250)
T 1njg_A           45 HHAYLFSGTRGVGKTSIARLLAKGLNCE   72 (250)
T ss_dssp             CSEEEEECSTTSCHHHHHHHHHHHHHCT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            4588999999999999999998877643

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.97  E-value=0.022  Score=59.12  Aligned_cols=71  Identities=20%  Similarity=0.308  Sum_probs=45.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      ..|+=+++.||+|+|||+++.++|..+   |..+..+++...-..                    ........+++.+..
T Consensus       204 ~~prGiLL~GPPGtGKT~lakAiA~~~---~~~~~~v~~~~l~~~--------------------~~Ge~e~~ir~lF~~  260 (428)
T 4b4t_K          204 DPPRGVLLYGPPGTGKTMLVKAVANST---KAAFIRVNGSEFVHK--------------------YLGEGPRMVRDVFRL  260 (428)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHHHH---TCEEEEEEGGGTCCS--------------------SCSHHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHh---CCCeEEEecchhhcc--------------------ccchhHHHHHHHHHH
Confidence            357789999999999999999998765   556665544321100                    011223455667777


Q ss_pred             HHcCCCcEEEEcCC
Q 011624          261 AKKKNVDVVIVDTA  274 (481)
Q Consensus       261 ~~~~~~D~VIIDt~  274 (481)
                      ++....-+++||-.
T Consensus       261 A~~~aP~IifiDEi  274 (428)
T 4b4t_K          261 ARENAPSIIFIDEV  274 (428)
T ss_dssp             HHHTCSEEEEEECT
T ss_pred             HHHcCCCeeechhh
Confidence            65445557777653

>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=95.97  E-value=0.0053  Score=55.85  Aligned_cols=36  Identities=33%  Similarity=0.500  Sum_probs=28.9

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .++.+|+++|++||||||++..|+..    |.  .++|+|.+
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~----g~--~~id~d~~   41 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW----GY--PVLDLDAL   41 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT----TC--CEEEHHHH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC----CC--EEEcccHH
Confidence            35789999999999999999888753    54  46788854

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=95.97  E-value=0.0036  Score=56.63  Aligned_cols=26  Identities=23%  Similarity=0.424  Sum_probs=22.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++.+++++|++||||||++..|+..+
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34699999999999999999998654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.97  E-value=0.0029  Score=58.36  Aligned_cols=26  Identities=31%  Similarity=0.470  Sum_probs=23.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++++|+++|++||||||++..|+..+
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            46789999999999999999998766

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.96  E-value=0.0049  Score=59.22  Aligned_cols=34  Identities=29%  Similarity=0.294  Sum_probs=27.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+++++|++||||||++..||..+   |  ..+++.|.+
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~---~--~~~i~~D~~   35 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET---G--WPVVALDRV   35 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH---C--CCEEECCSG
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC---C--CeEEeccHH
Confidence            478999999999999999998765   3  346788864

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.96  E-value=0.023  Score=59.13  Aligned_cols=71  Identities=20%  Similarity=0.291  Sum_probs=45.9

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      ..|+=+++.||+|+|||+++.++|..+   |.....+++...-..                    ........++..+..
T Consensus       213 ~~prGvLL~GPPGtGKTllAkAiA~e~---~~~~~~v~~s~l~sk--------------------~~Gese~~ir~~F~~  269 (437)
T 4b4t_L          213 KPPKGVLLYGPPGTGKTLLAKAVAATI---GANFIFSPASGIVDK--------------------YIGESARIIREMFAY  269 (437)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH---TCEEEEEEGGGTCCS--------------------SSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHh---CCCEEEEehhhhccc--------------------cchHHHHHHHHHHHH
Confidence            357889999999999999999998765   566665554322110                    011223445666777


Q ss_pred             HHcCCCcEEEEcCC
Q 011624          261 AKKKNVDVVIVDTA  274 (481)
Q Consensus       261 ~~~~~~D~VIIDt~  274 (481)
                      ++....-+|+||-.
T Consensus       270 A~~~~P~IifiDEi  283 (437)
T 4b4t_L          270 AKEHEPCIIFMDEV  283 (437)
T ss_dssp             HHHSCSEEEEEECC
T ss_pred             HHhcCCceeeeecc
Confidence            66556667787654

>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=95.94  E-value=0.0047  Score=57.48  Aligned_cols=34  Identities=24%  Similarity=0.316  Sum_probs=27.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ++..|++.|++||||||++..||..|   |.  .+++.|
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l---~~--~~i~~d   36 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF---HA--AHLATG   36 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH---CC--EEEEHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc---Cc--eEEehh
Confidence            46789999999999999999998876   43  446664

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.94  E-value=0.01  Score=57.49  Aligned_cols=39  Identities=23%  Similarity=0.459  Sum_probs=30.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D  220 (481)
                      +..+++++|++|+||||+...|+..+... .-+|.+..-+
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~   63 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDP   63 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCc
Confidence            45799999999999999999999888754 5566655433

>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=95.91  E-value=0.0034  Score=61.30  Aligned_cols=37  Identities=27%  Similarity=0.358  Sum_probs=28.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      |.+|+++|++||||||++..|+..+    ....+++.|.+|
T Consensus         2 ~~~I~l~G~~GsGKST~a~~L~~~~----~~~~~i~~D~~r   38 (301)
T 1ltq_A            2 KKIILTIGCPGSGKSTWAREFIAKN----PGFYNINRDDYR   38 (301)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHS----TTEEEECHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhC----CCcEEecccHHH
Confidence            5789999999999999999888632    235677877654

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=95.90  E-value=0.012  Score=63.73  Aligned_cols=73  Identities=23%  Similarity=0.230  Sum_probs=39.7

Q ss_pred             CCcEEEEcCCCCccc-----cHHHHHHHHhhhhc-c-CC-ceEEEEEeCc---chHHHHHHHHHhhhcCCeeEEEEcCCC
Q 011624          265 NVDVVIVDTAGRLQI-----DKAMMDELKDVKRV-L-NP-TEVLLVVDAM---TGQEAAALVTTFNIEIGITGAILTKLD  333 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~-----d~~~~~el~~i~~~-~-~p-~~vvLVvda~---~~~~~~~~~~~f~~~~~i~GvIlnKvD  333 (481)
                      ..+++|+|.||....     |.....++..+... + .+ .-+++|+++.   ..+.+...++.+++...-+-+|+||.|
T Consensus       146 ~p~LlLlDePGi~~~~t~~LD~~~~~~i~~li~~~l~~~~~iil~vvt~~~d~a~~~~l~la~~v~~~g~rtI~VlTK~D  225 (608)
T 3szr_A          146 VPDLTLIDLPGITRVAVGNQPADIGYKIKTLIKKYIQRQETISLVVVPSNVDIATTEALSMAQEVDPEGDRTIGILTKPD  225 (608)
T ss_dssp             SCCEEEEECCC------CCSSCSHHHHHHHHHHHHTTSSSCCEEEEEESSSCTTTCHHHHHHHHHCSSCCSEEEEEECGG
T ss_pred             CCceeEeeCCCccccccCCCCHHHHHHHHHHHHHHHhcCCCCceEEEeccchhccHHHHHHHHHHhhcCCceEEEecchh
Confidence            367999999975431     22223333333332 1 22 3345555552   224566777777655445668899999


Q ss_pred             CCCc
Q 011624          334 GDSR  337 (481)
Q Consensus       334 ~~~~  337 (481)
                      .-..
T Consensus       226 lv~~  229 (608)
T 3szr_A          226 LVDK  229 (608)
T ss_dssp             GSSS
T ss_pred             hcCc
Confidence            5433

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.88  E-value=0.0087  Score=55.33  Aligned_cols=33  Identities=42%  Similarity=0.691  Sum_probs=30.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      .|++-|.-||||||.+..|+.+|.++|++|.+.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~t   34 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRGKKVILK   34 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            477889999999999999999999999999754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.88  E-value=0.021  Score=59.45  Aligned_cols=71  Identities=18%  Similarity=0.244  Sum_probs=45.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      ..|+=+++.||+|+|||+++.++|..+   |.....+++...-..                    ........++..+..
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~e~---~~~f~~v~~s~l~~~--------------------~vGese~~ir~lF~~  269 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAAQT---NATFLKLAAPQLVQM--------------------YIGEGAKLVRDAFAL  269 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHH---TCEEEEEEGGGGCSS--------------------CSSHHHHHHHHHHHH
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHHHh---CCCEEEEehhhhhhc--------------------ccchHHHHHHHHHHH
Confidence            357889999999999999999988655   556665554321100                    011233455666666


Q ss_pred             HHcCCCcEEEEcCC
Q 011624          261 AKKKNVDVVIVDTA  274 (481)
Q Consensus       261 ~~~~~~D~VIIDt~  274 (481)
                      ++....-+|+||-.
T Consensus       270 A~~~aP~IifiDEi  283 (434)
T 4b4t_M          270 AKEKAPTIIFIDEL  283 (434)
T ss_dssp             HHHHCSEEEEEECT
T ss_pred             HHhcCCeEEeecch
Confidence            65455567888753

>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=95.88  E-value=0.0099  Score=59.11  Aligned_cols=35  Identities=31%  Similarity=0.471  Sum_probs=29.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      .|.+++++||+||||||++..||..+     ..-+|.+|.
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~-----~~~iis~Ds   43 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL-----PVELISVDS   43 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS-----CEEEEECCT
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC-----CCcEEeccc
Confidence            46899999999999999999998664     356889885

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.87  E-value=0.0041  Score=58.00  Aligned_cols=27  Identities=19%  Similarity=0.357  Sum_probs=23.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      +|.+|++.|++||||||++..||..|.
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999999987763

>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=95.86  E-value=0.0048  Score=55.40  Aligned_cols=34  Identities=38%  Similarity=0.439  Sum_probs=26.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ++.+|+++|++|+||||++..|+..+   |.  .+++.|
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~---~~--~~~~~d   43 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKS---GL--KYINVG   43 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHH---CC--EEEEHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHh---CC--eEEEHH
Confidence            45678899999999999999998766   43  345555

>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=95.84  E-value=0.0064  Score=57.91  Aligned_cols=26  Identities=27%  Similarity=0.272  Sum_probs=23.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +|.+|+++|++||||||++..|+..+
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999998766

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=95.84  E-value=0.027  Score=57.87  Aligned_cols=19  Identities=32%  Similarity=0.366  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||+...|.
T Consensus         3 I~ivG~pnvGKSTL~n~L~   21 (397)
T 1wxq_A            3 IGVVGKPNVGKSTFFSAAT   21 (397)
T ss_dssp             EEEEECTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6789999999999998875

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.84  E-value=0.0038  Score=55.45  Aligned_cols=34  Identities=32%  Similarity=0.451  Sum_probs=26.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +.+|+++|++|+||||++..|+..+   |.  .++|+|.
T Consensus         4 ~~~i~l~G~~GsGKSTl~~~La~~l---~~--~~id~d~   37 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIGRQLAQQL---NM--EFYDSDQ   37 (173)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHT---TC--EEEEHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh---CC--CEEeccH
Confidence            4579999999999999998888654   32  4567764

>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=95.83  E-value=0.063  Score=52.72  Aligned_cols=40  Identities=33%  Similarity=0.450  Sum_probs=32.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      .|.++++.|++|+||||++..++..+   |..+..+++...+.
T Consensus        47 ~~~~~L~~G~~G~GKT~la~~la~~l---~~~~~~i~~~~~~~   86 (324)
T 3u61_B           47 IPHIILHSPSPGTGKTTVAKALCHDV---NADMMFVNGSDCKI   86 (324)
T ss_dssp             CCSEEEECSSTTSSHHHHHHHHHHHT---TEEEEEEETTTCCH
T ss_pred             CCeEEEeeCcCCCCHHHHHHHHHHHh---CCCEEEEcccccCH
Confidence            45688999999999999999998665   67787777765553

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.82  E-value=0.0059  Score=61.09  Aligned_cols=35  Identities=37%  Similarity=0.599  Sum_probs=29.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +.+|+++|++||||||++..||..+     ...+|++|.+
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l-----~~~iis~Ds~   39 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADAL-----PCELISVDSA   39 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS-----CEEEEEECTT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc-----CCcEEeccch
Confidence            5689999999999999999998654     3678888864

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=95.80  E-value=0.005  Score=56.21  Aligned_cols=26  Identities=23%  Similarity=0.493  Sum_probs=22.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++.+++++|++|+||||++..|+..+
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            35699999999999999999888654

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=94.77  E-value=0.0016  Score=59.57  Aligned_cols=22  Identities=23%  Similarity=0.267  Sum_probs=18.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ..-|+++|.+||||||+...|.
T Consensus        30 ~~ki~v~G~~~~GKSsli~~l~   51 (204)
T 3th5_A           30 AIKCVVVGDGAVGKTCLLISYT   51 (204)
Confidence            4567888999999999997764

>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=95.74  E-value=0.005  Score=56.53  Aligned_cols=32  Identities=38%  Similarity=0.534  Sum_probs=25.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      .+|+++|++||||||++..|+.    .|..  ++|+|.
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~----lg~~--~id~d~   34 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD----LGVP--LVDADV   34 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT----TTCC--EEEHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH----CCCc--ccchHH
Confidence            5889999999999999988874    3654  467774

>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=95.73  E-value=0.0064  Score=57.74  Aligned_cols=26  Identities=27%  Similarity=0.425  Sum_probs=23.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +|.++++.|++|+||||++..|+..|
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            46799999999999999999998776

>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=95.73  E-value=0.019  Score=55.67  Aligned_cols=38  Identities=32%  Similarity=0.539  Sum_probs=30.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+.-+++.|++|+|||+++..++..+   +.++..+++..+
T Consensus        49 ~~~~vll~G~~GtGKT~la~~la~~l---~~~~~~i~~~~~   86 (310)
T 1ofh_A           49 TPKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKF   86 (310)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGGG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHh---CCCEEEEcchhc
Confidence            35568899999999999999999877   567777777654

>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=95.72  E-value=0.019  Score=57.80  Aligned_cols=73  Identities=21%  Similarity=0.310  Sum_probs=44.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++-+++.|++|+|||+++..+|..+   +..+..+++..        +  ....     .     ......++..+..+
T Consensus        83 ~~~~iLL~GppGtGKT~la~ala~~~---~~~~~~v~~~~--------l--~~~~-----~-----g~~~~~~~~~f~~a  139 (355)
T 2qp9_X           83 PTSGILLYGPPGTGKSYLAKAVATEA---NSTFFSVSSSD--------L--VSKW-----M-----GESEKLVKQLFAMA  139 (355)
T ss_dssp             CCCCEEEECSTTSCHHHHHHHHHHHH---TCEEEEEEHHH--------H--HSCC-------------CHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHh---CCCEEEeeHHH--------H--hhhh-----c-----chHHHHHHHHHHHH
Confidence            34568889999999999999998876   55665554321        1  1100     0     01233445555555


Q ss_pred             HcCCCcEEEEcCCCCc
Q 011624          262 KKKNVDVVIVDTAGRL  277 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~  277 (481)
                      ......+++||-...+
T Consensus       140 ~~~~~~vl~iDEid~l  155 (355)
T 2qp9_X          140 RENKPSIIFIDQVDAL  155 (355)
T ss_dssp             HHTSSEEEEEECGGGG
T ss_pred             HHcCCeEEEEechHhh
Confidence            5456789999876544

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=95.71  E-value=0.015  Score=59.01  Aligned_cols=21  Identities=29%  Similarity=0.525  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|+++|.+|+||||+...|.
T Consensus        38 ~~I~vvG~~g~GKSTLln~L~   58 (361)
T 2qag_A           38 FTLMVVGESGLGKSTLINSLF   58 (361)
T ss_dssp             ECEEECCCTTSCHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHh
Confidence            346889999999999998874

>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=95.71  E-value=0.0049  Score=55.45  Aligned_cols=34  Identities=41%  Similarity=0.623  Sum_probs=27.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+|+++|++||||||++..|+..|   |..  ++|.|.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l---g~~--~id~D~~   36 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL---GVG--LLDTDVA   36 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH---TCC--EEEHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc---CCC--EEeCchH
Confidence            368899999999999999998766   443  5677754

>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=95.70  E-value=0.0071  Score=55.78  Aligned_cols=36  Identities=36%  Similarity=0.403  Sum_probs=28.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ...+|.++|..||||||++..|+..+   |  +.++|+|.+
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l---g--~~vid~D~~   46 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY---G--AHVVNVDRI   46 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH---C--CEEEEHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc---C--CEEEECcHH
Confidence            35789999999999999998887654   5  456788865

>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=95.69  E-value=0.072  Score=53.00  Aligned_cols=28  Identities=25%  Similarity=0.442  Sum_probs=24.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      .|..+++.|++|+||||++..+|..+..
T Consensus        23 ~~~a~L~~G~~G~GKt~~a~~la~~l~~   50 (334)
T 1a5t_A           23 GHHALLIQALPGMGDDALIYALSRYLLC   50 (334)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             cceeEEEECCCCchHHHHHHHHHHHHhC
Confidence            3568999999999999999999988864

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=95.68  E-value=0.029  Score=54.31  Aligned_cols=53  Identities=8%  Similarity=-0.013  Sum_probs=44.7

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..|.++++++..       +.++++++|.+|+||||++...+..-.++|.+++++..+--
T Consensus         8 ~~LD~~l~GGl~-------~gs~~li~g~p~~~~~~l~~qfl~~g~~~Ge~~~~~~~~e~   60 (260)
T 3bs4_A            8 EELDREIGKIKK-------HSLILIHEEDASSRGKDILFYILSRKLKSDNLVGMFSISYP   60 (260)
T ss_dssp             HHHHHHHCCBCT-------TCEEEEEECSGGGCHHHHHHHHHHHHHHTTCEEEEEECSSC
T ss_pred             HHHHHHhCCCCC-------CCcEEEEEeCCCccHHHHHHHHHHHHHHCCCcEEEEEEeCC
Confidence            357778887654       56899999999999999999999888889999999999854

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.68  E-value=0.031  Score=59.38  Aligned_cols=40  Identities=23%  Similarity=0.252  Sum_probs=29.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH-HHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA-NYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA-~~L~~~G~kVlLId~D~  221 (481)
                      ++.++++.|++|+||||++..++ ..+...+...++++...
T Consensus        38 ~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g~~   78 (525)
T 1tf7_A           38 IGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEE   78 (525)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSS
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEeC
Confidence            45699999999999999999963 34444355567777654

>2vo1_A CTP synthase 1; pyrimidine biosynthesis, glutamine amidotransferase, phosphorylation, amidotransferase, cytidine 5-prime triphos synthetase, UTP; 2.8A {Homo sapiens} SCOP: c.37.1.10 PDB: 3ihl_A*

Probab=95.67  E-value=0.11  Score=50.03  Aligned_cols=42  Identities=26%  Similarity=0.427  Sum_probs=36.8

Q ss_pred             CCEEEEEEc-C-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAG-L-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G-~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ..+.|+++| . +|.||-.+++.|+..|+.+|++|.++-.|||=
T Consensus        22 ~~KyIfVTGGVvS~lGKGi~aaSlg~lLk~~G~~Vt~~K~DPYl   65 (295)
T 2vo1_A           22 SMKYILVTGGVISGIGKGIIASSVGTILKSCGLHVTSIKIDPYI   65 (295)
T ss_dssp             CCEEEEEEECSSSSSSHHHHHHHHHHHHHHTTCCEEEEEEECSS
T ss_pred             cceEEEEcCCcccccccHHHHHHHHHHHHHCCCcceeeecccce
Confidence            345666664 4 99999999999999999999999999999984

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=95.67  E-value=0.0048  Score=56.31  Aligned_cols=26  Identities=35%  Similarity=0.514  Sum_probs=22.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++.+++++|++||||||++..|+..+
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            45699999999999999999888665

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=95.66  E-value=0.043  Score=58.60  Aligned_cols=41  Identities=17%  Similarity=0.243  Sum_probs=30.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH--HcC--CeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK--KQG--KSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~--~~G--~kVlLId~D~~  222 (481)
                      .+++++++|++|+||||++..++....  ...  ..|..++.+..
T Consensus       146 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~  190 (591)
T 1z6t_A          146 EPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ  190 (591)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESC
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCC
Confidence            468999999999999999999875432  222  34777776654

>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=95.66  E-value=0.018  Score=55.33  Aligned_cols=34  Identities=26%  Similarity=0.315  Sum_probs=26.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      .+.-+++.|++|+|||+++..+|..+   |..+..++
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~~---~~~~~~i~   96 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEES---NFPFIKIC   96 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHH---TCSEEEEE
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHh---CCCEEEEe
Confidence            45788899999999999999998763   55555443

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.64  E-value=0.0052  Score=57.57  Aligned_cols=34  Identities=24%  Similarity=0.340  Sum_probs=26.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ++.+|++.|++||||||++..|+..|   |.  .+++.|
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l---~~--~~i~~d   39 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHF---EL--KHLSSG   39 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHS---SS--EEEEHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHc---CC--eEEech
Confidence            46789999999999999999998755   44  345654

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=95.62  E-value=0.022  Score=52.77  Aligned_cols=39  Identities=15%  Similarity=0.221  Sum_probs=34.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ..++.++.|+-|+||||-....+..+..+|++|+++...
T Consensus        19 ~g~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp~   57 (195)
T 1w4r_A           19 RGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYA   57 (195)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEET
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEccc
Confidence            457999999999999999999888888889999998743

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=95.62  E-value=0.014  Score=59.44  Aligned_cols=38  Identities=24%  Similarity=0.477  Sum_probs=31.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEec
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAG  219 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~  219 (481)
                      ++.+++++|++|+||||+...|+..+... ..+|.+++-
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~  173 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIED  173 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEES
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecc
Confidence            45799999999999999999999988765 567766653

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.60  E-value=0.056  Score=56.03  Aligned_cols=70  Identities=20%  Similarity=0.300  Sum_probs=44.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      ..|+=+++.||+|+|||+++.++|..+   |.....+++..+-                   . .........++..+..
T Consensus       214 ~~prGvLLyGPPGTGKTlLAkAiA~e~---~~~fi~v~~s~l~-------------------s-k~vGesek~ir~lF~~  270 (437)
T 4b4t_I          214 KPPKGVILYGAPGTGKTLLAKAVANQT---SATFLRIVGSELI-------------------Q-KYLGDGPRLCRQIFKV  270 (437)
T ss_dssp             CCCSEEEEESSTTTTHHHHHHHHHHHH---TCEEEEEESGGGC-------------------C-SSSSHHHHHHHHHHHH
T ss_pred             CCCCCCceECCCCchHHHHHHHHHHHh---CCCEEEEEHHHhh-------------------h-ccCchHHHHHHHHHHH
Confidence            356789999999999999999998665   4555555443110                   0 0011234456677777


Q ss_pred             HHcCCCcEEEEcC
Q 011624          261 AKKKNVDVVIVDT  273 (481)
Q Consensus       261 ~~~~~~D~VIIDt  273 (481)
                      ++....-+|+||-
T Consensus       271 Ar~~aP~IIfiDE  283 (437)
T 4b4t_I          271 AGENAPSIVFIDE  283 (437)
T ss_dssp             HHHTCSEEEEEEE
T ss_pred             HHhcCCcEEEEeh
Confidence            7645555777753

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.59  E-value=0.03  Score=57.61  Aligned_cols=70  Identities=19%  Similarity=0.270  Sum_probs=44.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .|+=+++.||+|+|||+++.++|..+   |.....+++...-..                    ........+++.+..+
T Consensus       181 ~prGvLL~GPPGTGKTllAkAiA~e~---~~~f~~v~~s~l~sk--------------------~vGese~~vr~lF~~A  237 (405)
T 4b4t_J          181 QPKGVILYGPPGTGKTLLARAVAHHT---DCKFIRVSGAELVQK--------------------YIGEGSRMVRELFVMA  237 (405)
T ss_dssp             CCCCEEEESCSSSSHHHHHHHHHHHH---TCEEEEEEGGGGSCS--------------------STTHHHHHHHHHHHHH
T ss_pred             CCCceEEeCCCCCCHHHHHHHHHHhh---CCCceEEEhHHhhcc--------------------ccchHHHHHHHHHHHH
Confidence            46778999999999999999998655   555554444311100                    0112344567777777


Q ss_pred             HcCCCcEEEEcCC
Q 011624          262 KKKNVDVVIVDTA  274 (481)
Q Consensus       262 ~~~~~D~VIIDt~  274 (481)
                      +....-+|+||-.
T Consensus       238 r~~aP~IIFiDEi  250 (405)
T 4b4t_J          238 REHAPSIIFMDEI  250 (405)
T ss_dssp             HHTCSEEEEEESS
T ss_pred             HHhCCceEeeecc
Confidence            6555667787653

>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=95.55  E-value=0.0087  Score=55.57  Aligned_cols=34  Identities=29%  Similarity=0.400  Sum_probs=25.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +.+|+++|++||||||++..|+..+   |.  ..+|+|.
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~---g~--~~~d~g~   38 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL---QW--HLLDSGA   38 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH---TC--EEEEHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh---CC--CcccCcc
Confidence            4589999999999999998888655   33  4456553

>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=95.54  E-value=0.007  Score=53.62  Aligned_cols=34  Identities=38%  Similarity=0.618  Sum_probs=26.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .+|+++|++||||||++..|+..|   |.  .++++|.+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l---g~--~~id~d~~   36 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL---GY--EFVDTDIF   36 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH---TC--EEEEHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh---CC--cEEcccHH
Confidence            478899999999999999998766   44  35677743

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.54  E-value=0.0064  Score=55.99  Aligned_cols=26  Identities=35%  Similarity=0.526  Sum_probs=22.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      +++++++|++|+||||++..|+..+.
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            46889999999999999999987653

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.54  E-value=0.0084  Score=54.41  Aligned_cols=24  Identities=38%  Similarity=0.560  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      +|++.|++||||||++..|+..|.
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            688999999999999999998773

>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=95.52  E-value=0.026  Score=54.90  Aligned_cols=27  Identities=37%  Similarity=0.640  Sum_probs=23.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQ  210 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~  210 (481)
                      |. +++.|++|+||||++..++..+...
T Consensus        43 ~~-~ll~G~~G~GKt~la~~l~~~l~~~   69 (323)
T 1sxj_B           43 PH-MIISGMPGIGKTTSVHCLAHELLGR   69 (323)
T ss_dssp             CC-EEEECSTTSSHHHHHHHHHHHHHGG
T ss_pred             Ce-EEEECcCCCCHHHHHHHHHHHhcCC
Confidence            44 8899999999999999999887643

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=95.49  E-value=0.011  Score=62.39  Aligned_cols=22  Identities=27%  Similarity=0.442  Sum_probs=19.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +..|+++|.+||||||+...|.
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~  264 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLL  264 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHH
Confidence            3568899999999999998886

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=95.48  E-value=0.0088  Score=52.99  Aligned_cols=34  Identities=24%  Similarity=0.414  Sum_probs=26.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ..+|+++|.+||||||++..||..|   |..  ++|+|.
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~l---g~~--~id~D~   40 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLAL---KLE--VLDTDM   40 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHH---TCC--EEEHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHh---CCC--EEEChH
Confidence            3589999999999999999988766   554  456664

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.47  E-value=0.0097  Score=55.39  Aligned_cols=33  Identities=21%  Similarity=0.295  Sum_probs=26.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      +..|++.|++||||||++..|+..|   |..  +++.|
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l---~~~--~i~~d   37 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEY---GLA--HLSTG   37 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHH---CCE--EEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh---Cce--EEehh
Confidence            4578889999999999999999877   543  45554

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=95.47  E-value=0.013  Score=51.06  Aligned_cols=36  Identities=17%  Similarity=0.212  Sum_probs=28.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      -+++.|++|+|||+++..++....+.+..+. ++|..
T Consensus        26 ~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~   61 (145)
T 3n70_A           26 AVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELT   61 (145)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECC
T ss_pred             CEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCC
Confidence            3688999999999999998876666566666 66654

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=95.46  E-value=0.0086  Score=55.64  Aligned_cols=40  Identities=18%  Similarity=0.253  Sum_probs=31.2

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH-----HcC-CeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLK-----KQG-KSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~-----~~G-~kVlLId~D~~  222 (481)
                      +.+++++|++|+|||+.+..++..+.     ++| ++|.+..+|-.
T Consensus         5 ~mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL   50 (199)
T 2r2a_A            5 AEICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGL   50 (199)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTB
T ss_pred             eeEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCc
Confidence            45889999999999999988766554     668 77776766644

>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=95.46  E-value=0.014  Score=54.04  Aligned_cols=34  Identities=29%  Similarity=0.475  Sum_probs=27.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +|.+|+++|++||||||++..|+.    .|.  .++|+|.
T Consensus         3 ~~~~I~i~G~~GSGKST~~~~L~~----lg~--~~id~D~   36 (218)
T 1vht_A            3 LRYIVALTGGIGSGKSTVANAFAD----LGI--NVIDADI   36 (218)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH----TTC--EEEEHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH----cCC--EEEEccH
Confidence            467999999999999999988875    355  4567774

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=95.46  E-value=0.0099  Score=62.31  Aligned_cols=42  Identities=36%  Similarity=0.495  Sum_probs=34.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .++.+|+++|.+|+||||++..|+..+...+..+..++.|.+
T Consensus        37 ~~~~~IvlvGlpGsGKSTia~~La~~l~~~~~~t~~~~~d~~   78 (469)
T 1bif_A           37 NCPTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQY   78 (469)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHhccCCCceEEecchh
Confidence            357789999999999999999999998877777766665543

>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=95.45  E-value=0.0065  Score=55.61  Aligned_cols=31  Identities=35%  Similarity=0.508  Sum_probs=25.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +|+++|++||||||++..|+. +   |  +.++++|.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~---g--~~~i~~d~   33 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-L---G--AYVLDADK   33 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-T---T--CEEEEHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-C---C--CEEEEccH
Confidence            788999999999999988876 3   5  45567764

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.44  E-value=0.033  Score=58.21  Aligned_cols=71  Identities=24%  Similarity=0.303  Sum_probs=45.6

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      ..|+=+++.||+|+|||+++.++|..+   |.....+++..+-.                    .........++..+..
T Consensus       241 ~pprGILLyGPPGTGKTlLAkAiA~e~---~~~fi~vs~s~L~s--------------------k~vGesek~ir~lF~~  297 (467)
T 4b4t_H          241 DPPKGILLYGPPGTGKTLCARAVANRT---DATFIRVIGSELVQ--------------------KYVGEGARMVRELFEM  297 (467)
T ss_dssp             CCCSEEEECSCTTSSHHHHHHHHHHHH---TCEEEEEEGGGGCC--------------------CSSSHHHHHHHHHHHH
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhcc---CCCeEEEEhHHhhc--------------------ccCCHHHHHHHHHHHH
Confidence            357789999999999999999998655   45555444432110                    0011234456677777


Q ss_pred             HHcCCCcEEEEcCC
Q 011624          261 AKKKNVDVVIVDTA  274 (481)
Q Consensus       261 ~~~~~~D~VIIDt~  274 (481)
                      ++....-+++||-.
T Consensus       298 Ar~~aP~IIfiDEi  311 (467)
T 4b4t_H          298 ARTKKACIIFFDEI  311 (467)
T ss_dssp             HHHTCSEEEEEECC
T ss_pred             HHhcCCceEeeccc
Confidence            76555667888654

>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=95.43  E-value=0.0083  Score=55.74  Aligned_cols=26  Identities=23%  Similarity=0.432  Sum_probs=22.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++++++++|++|+||||++..|+..+
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            46799999999999999999988654

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=95.39  E-value=0.028  Score=55.69  Aligned_cols=30  Identities=27%  Similarity=0.424  Sum_probs=23.8

Q ss_pred             ccCCCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          178 FAKSRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       178 ~~~~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +.-.+..+++++|++|+||||+...|+..+
T Consensus        75 l~i~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           75 FTVMPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             EEECTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            333456799999999999999998887544

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.36  E-value=0.0088  Score=53.44  Aligned_cols=33  Identities=30%  Similarity=0.516  Sum_probs=26.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +|+++|++|+||||++..||..|   |  ..++|.|.+
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l---~--~~~~d~d~~   38 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL---D--LVFLDSDFL   38 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH---T--CEEEEHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc---C--CCEEcccHH
Confidence            58889999999999999998766   3  356677743

>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=95.34  E-value=0.0083  Score=54.74  Aligned_cols=33  Identities=21%  Similarity=0.465  Sum_probs=27.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +|+++|++|+||||++..|+..|   |  +.++|.|.+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l---g--~~~~d~d~~   36 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL---G--VPYLSSGLL   36 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH---T--CCEEEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc---C--CceeccchH
Confidence            89999999999999999998766   3  456677754

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.32  E-value=0.011  Score=52.01  Aligned_cols=33  Identities=30%  Similarity=0.305  Sum_probs=26.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +|+++|.+||||||++..|+..|   |..  ++++|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l---~~~--~i~~d~~   34 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL---NIP--FYDVDEE   34 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH---TCC--EEEHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCC--EEECcHH
Confidence            58899999999999999998766   443  4576643

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=95.31  E-value=0.037  Score=56.22  Aligned_cols=73  Identities=15%  Similarity=0.260  Sum_probs=45.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++-+++.|++|+|||+++..+|..   .|..+..+++......+..                    .....+...+..+
T Consensus       147 ~~~~vLL~GppGtGKT~la~aia~~---~~~~~~~v~~~~l~~~~~g--------------------~~~~~~~~~~~~a  203 (389)
T 3vfd_A          147 PARGLLLFGPPGNGKTMLAKAVAAE---SNATFFNISAASLTSKYVG--------------------EGEKLVRALFAVA  203 (389)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHH---TTCEEEEECSCCC---------------------------CHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHh---hcCcEEEeeHHHhhccccc--------------------hHHHHHHHHHHHH
Confidence            3567899999999999999888754   4677777777544221100                    0122334455555


Q ss_pred             HcCCCcEEEEcCCCCc
Q 011624          262 KKKNVDVVIVDTAGRL  277 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~  277 (481)
                      ......+++||-...+
T Consensus       204 ~~~~~~il~iDEid~l  219 (389)
T 3vfd_A          204 RELQPSIIFIDQVDSL  219 (389)
T ss_dssp             HHSSSEEEEEETGGGG
T ss_pred             HhcCCeEEEEECchhh
Confidence            4455679999876443

>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=95.30  E-value=0.043  Score=54.53  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=22.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcC
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQG  211 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G  211 (481)
                      +++.|++|+||||++..+|..+...+
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~~~~   74 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIYGKN   74 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcCCC
Confidence            88999999999999999998876443

>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=95.30  E-value=0.071  Score=61.51  Aligned_cols=40  Identities=18%  Similarity=0.221  Sum_probs=30.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH----cCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK----QGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~----~G~kVlLId~D~  221 (481)
                      .++++.++|++|+||||++..++.....    ....|..++...
T Consensus       146 ~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~  189 (1249)
T 3sfz_A          146 EPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK  189 (1249)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECC
Confidence            5689999999999999999988865432    224576777654

>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=95.26  E-value=0.021  Score=56.06  Aligned_cols=34  Identities=24%  Similarity=0.331  Sum_probs=26.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      .++.+++.|++|+||||++..+|..+   +.....++
T Consensus        48 ~~~~vLL~Gp~GtGKT~la~ala~~~---~~~~i~v~   81 (301)
T 3cf0_A           48 PSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIK   81 (301)
T ss_dssp             CCSEEEEECSSSSSHHHHHHHHHHHT---TCEEEEEC
T ss_pred             CCceEEEECCCCcCHHHHHHHHHHHh---CCCEEEEE
Confidence            46688999999999999999998755   45555444

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.25  E-value=0.017  Score=59.53  Aligned_cols=34  Identities=35%  Similarity=0.566  Sum_probs=28.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +.+|+++|++||||||++..||..+.     ..+|.+|.
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~~-----~~iis~Ds   35 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKFN-----GEVINSDS   35 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHHT-----EEEEECCT
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHCC-----CeEeecCc
Confidence            46899999999999999999998773     35789885

>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=95.25  E-value=0.22  Score=55.12  Aligned_cols=36  Identities=36%  Similarity=0.505  Sum_probs=30.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..+++.|++|+|||+++..||..+   |..+..+++..+
T Consensus       489 ~~~ll~G~~GtGKT~la~~la~~l---~~~~~~i~~s~~  524 (758)
T 1r6b_X          489 GSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFDMSEY  524 (758)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH---TCEEEEEEGGGC
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHh---cCCEEEEechhh
Confidence            478899999999999999999887   677777777654

>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=95.24  E-value=0.013  Score=55.22  Aligned_cols=34  Identities=29%  Similarity=0.320  Sum_probs=27.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      ++..|++.|++|+||||++..|+..|   |.  .++++|
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l---~~--~~i~~d   48 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF---CV--CHLATG   48 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH---TC--EEEEHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh---CC--ceecHH
Confidence            45689999999999999999999876   33  455654

>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=95.21  E-value=0.03  Score=56.23  Aligned_cols=35  Identities=31%  Similarity=0.420  Sum_probs=27.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      .+.-+++.|++|+|||+++..||..+   |.....+++
T Consensus        50 ~~~~vll~GppGtGKT~la~~ia~~~---~~~~~~~~~   84 (363)
T 3hws_A           50 GKSNILLIGPTGSGKTLLAETLARLL---DVPFTMADA   84 (363)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEech
Confidence            34578899999999999999998776   555555554

>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=95.20  E-value=0.063  Score=57.19  Aligned_cols=24  Identities=21%  Similarity=0.451  Sum_probs=21.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLAN  205 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~  205 (481)
                      ..+++.++|.+|+||||+|..++.
T Consensus       151 ~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          151 DSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999999988874

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.20  E-value=0.011  Score=63.57  Aligned_cols=41  Identities=32%  Similarity=0.596  Sum_probs=35.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~  222 (481)
                      ++.+++++|++|+||||++..|+..+... |.++.++|.|..
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD~~  409 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGDIV  409 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCcHH
Confidence            56899999999999999999999988755 467888998854

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=95.19  E-value=0.035  Score=60.33  Aligned_cols=53  Identities=30%  Similarity=0.383  Sum_probs=36.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHHHHHHHhhhhcCCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVP  240 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~aidql~~~~~~~gv~  240 (481)
                      +.++.|++|+||||++..++..+.+ .+.+|++++ .+  ..+.+++...-...|++
T Consensus       197 ~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a-~t--n~A~~~l~~~l~~~~~~  250 (624)
T 2gk6_A          197 LSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCA-PS--NIAVDQLTEKIHQTGLK  250 (624)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEEE-SS--HHHHHHHHHHHHTTTCC
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEe-Cc--HHHHHHHHHHHHhcCCe
Confidence            6788999999999999999998887 677877553 33  34555554332233443

>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=95.19  E-value=0.01  Score=53.65  Aligned_cols=34  Identities=32%  Similarity=0.624  Sum_probs=24.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      .+++++|++|+||||++..|+.   ..+.. ..++.|.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~---~~~g~-~~i~~d~   36 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA---QLDNS-AYIEGDI   36 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH---HSSSE-EEEEHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc---ccCCe-EEEcccc
Confidence            5889999999999999999975   22223 3456554

>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=95.19  E-value=0.05  Score=57.21  Aligned_cols=71  Identities=21%  Similarity=0.288  Sum_probs=45.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      |+-+++.|++|+||||++..+|..+   |..+..+++..+-..                +    ........+..+..+.
T Consensus        49 p~gvLL~GppGtGKT~Laraia~~~---~~~f~~is~~~~~~~----------------~----~g~~~~~~r~lf~~A~  105 (476)
T 2ce7_A           49 PKGILLVGPPGTGKTLLARAVAGEA---NVPFFHISGSDFVEL----------------F----VGVGAARVRDLFAQAK  105 (476)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGGTTTC----------------C----TTHHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc---CCCeeeCCHHHHHHH----------------H----hcccHHHHHHHHHHHH
Confidence            4458899999999999999998654   555555544322100                0    0012334556677666


Q ss_pred             cCCCcEEEEcCCCC
Q 011624          263 KKNVDVVIVDTAGR  276 (481)
Q Consensus       263 ~~~~D~VIIDt~G~  276 (481)
                      .....+++||-+..
T Consensus       106 ~~~p~ILfIDEid~  119 (476)
T 2ce7_A          106 AHAPCIVFIDEIDA  119 (476)
T ss_dssp             HTCSEEEEEETGGG
T ss_pred             hcCCCEEEEechhh
Confidence            56678999997743

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.18  E-value=0.012  Score=54.19  Aligned_cols=23  Identities=35%  Similarity=0.538  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .|+++|++||||||++..|+..+
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            47889999999999999998765

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=95.14  E-value=0.0088  Score=55.98  Aligned_cols=27  Identities=33%  Similarity=0.460  Sum_probs=23.0

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .++.+++++|++|+||||++..|+..+
T Consensus        21 ~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           21 NNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             -CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            356799999999999999999998755

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.11  E-value=0.018  Score=53.84  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .|++.|++||||||++..|+..|
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            58899999999999999998877

>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=95.11  E-value=0.02  Score=53.25  Aligned_cols=33  Identities=27%  Similarity=0.414  Sum_probs=28.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      +.|++-|.-||||||.+..|+.+|. +|++|.+.
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~-~~~~v~~~   35 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLV-KDYDVIMT   35 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHT-TTSCEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHH-CCCCEEEe
Confidence            5788999999999999999999996 58888743

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=95.07  E-value=0.14  Score=47.78  Aligned_cols=33  Identities=45%  Similarity=0.498  Sum_probs=25.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ..-|.++|.-|+||||++..|+    +.|..  ++|+|.
T Consensus         9 ~~~iglTGgigsGKStv~~~l~----~~g~~--vidaD~   41 (210)
T 4i1u_A            9 MYAIGLTGGIGSGKTTVADLFA----ARGAS--LVDTDL   41 (210)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHH----HTTCE--EEEHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHH----HCCCc--EEECcH
Confidence            4678999999999999996664    45665  568885

>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=95.06  E-value=0.021  Score=53.17  Aligned_cols=34  Identities=32%  Similarity=0.516  Sum_probs=27.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      .++.++++|++|+||||++..|+    ++|.  -+|..|.
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La----~~g~--~iIsdDs   66 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELV----QRGH--RLIADDR   66 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHH----TTTC--EEEESSE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH----HhCC--eEEecch
Confidence            35789999999999999997765    5566  6677774

>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=95.02  E-value=0.015  Score=55.50  Aligned_cols=35  Identities=31%  Similarity=0.438  Sum_probs=27.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +|.+|++.|++|+||||++..|+..|   |.  .+++.|.
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~~l---g~--~~~d~g~   42 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLARAL---GA--RYLDTGA   42 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH---TC--EEEEHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh---CC--CcccCCc
Confidence            46789999999999999999998776   33  4456553

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=94.98  E-value=0.0074  Score=56.66  Aligned_cols=27  Identities=37%  Similarity=0.474  Sum_probs=17.4

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHH-HHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLA-NYL  207 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA-~~L  207 (481)
                      .++.+++++|++|+||||++..|+ ..+
T Consensus        25 ~~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           25 SVGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             ECCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            346799999999999999999887 654

>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=94.95  E-value=0.019  Score=53.08  Aligned_cols=30  Identities=23%  Similarity=0.262  Sum_probs=24.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      .|++.|++||||||++..|+..+   |..+  +++
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~---g~~~--i~~   31 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY---GIPQ--IST   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH---CCCE--EEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---CCeE--EeH
Confidence            47889999999999999998776   5544  454

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=94.94  E-value=0.16  Score=47.19  Aligned_cols=39  Identities=23%  Similarity=0.182  Sum_probs=24.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHH-HHH------HcCCeEEEEeccCCchh
Q 011624          185 VILLAGLQGVGKTTVSAKLAN-YLK------KQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~-~L~------~~G~kVlLId~D~~rp~  225 (481)
                      -+++.+++|+|||+.....+. .+.      ..|.+++++.  |.|.-
T Consensus        64 ~~li~a~TGsGKT~~~~~~~l~~l~~~~~~~~~~~~~lil~--Pt~~L  109 (236)
T 2pl3_A           64 DVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIIS--PTREL  109 (236)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHTTCCGGGCCCEEEEC--SSHHH
T ss_pred             CEEEEeCCCCcHHHHHHHHHHHHHHhhcccccCCceEEEEe--CCHHH
Confidence            367789999999997665443 232      2366776665  44433

>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=94.90  E-value=0.11  Score=58.07  Aligned_cols=71  Identities=27%  Similarity=0.426  Sum_probs=45.7

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      ..|+=|++.|++|+|||+++..+|..+   |..+..|++.-        +  ...          ........++..++.
T Consensus       236 ~~p~GILL~GPPGTGKT~LAraiA~el---g~~~~~v~~~~--------l--~sk----------~~gese~~lr~lF~~  292 (806)
T 3cf2_A          236 KPPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPE--------I--MSK----------LAGESESNLRKAFEE  292 (806)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHTTT---TCEEEEEEHHH--------H--HSS----------CTTHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHh---CCeEEEEEhHH--------h--hcc----------cchHHHHHHHHHHHH
Confidence            467889999999999999998887543   66666555421        1  110          011234456777777


Q ss_pred             HHcCCCcEEEEcCC
Q 011624          261 AKKKNVDVVIVDTA  274 (481)
Q Consensus       261 ~~~~~~D~VIIDt~  274 (481)
                      ++....-+++||-.
T Consensus       293 A~~~~PsIIfIDEi  306 (806)
T 3cf2_A          293 AEKNAPAIIFIDEL  306 (806)
T ss_dssp             HTTSCSEEEEEESG
T ss_pred             HHHcCCeEEEEehh
Confidence            76555567787653

>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=94.89  E-value=0.018  Score=51.34  Aligned_cols=27  Identities=26%  Similarity=0.448  Sum_probs=24.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .++.++++.|++|+||||++..|+..+
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            356799999999999999999999877

>3nva_A CTP synthase; rossman fold, nucleotide binding, LIG; 2.50A {Sulfolobus solfataricus}

Probab=94.88  E-value=0.14  Score=54.18  Aligned_cols=41  Identities=32%  Similarity=0.457  Sum_probs=36.4

Q ss_pred             CEEEEEEc-C-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          183 PTVILLAG-L-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G-~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+.|+++| . +|.||-.+++.|+..|+.+|++|.++-.|||=
T Consensus         3 ~k~i~vtggv~s~lgkgi~~as~g~ll~~~g~~v~~~k~dpyl   45 (535)
T 3nva_A            3 NKYIVVTGGVLSSVGKGTLVASIGMLLKRRGYNVTAVKIDPYI   45 (535)
T ss_dssp             CEEEEEECCCSTTTTHHHHHHHHHHHHHHTTCCEEEEEEECSS
T ss_pred             ceEEEEeCccccCcchHHHHHHHHHHHHHCCceEEEEecCcce
Confidence            35677765 4 99999999999999999999999999999984

>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=94.87  E-value=0.015  Score=53.64  Aligned_cols=26  Identities=35%  Similarity=0.464  Sum_probs=22.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++.+++++|++|+||||++..|+..+
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45699999999999999999988655

>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=94.86  E-value=0.014  Score=53.95  Aligned_cols=31  Identities=26%  Similarity=0.439  Sum_probs=23.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .|+++|++||||||++..|+..+   |.  .++++|
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~---~~--~~i~~d   32 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY---GI--PHISTG   32 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS---SC--CEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---CC--cEEeHH
Confidence            47789999999999999887654   44  345553

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=94.82  E-value=0.048  Score=61.05  Aligned_cols=54  Identities=30%  Similarity=0.385  Sum_probs=37.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccCCchhHHHHHHHhhhhcCCCe
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK-QGKSCMLVAGDVYRPAAIDQLVILGEQVGVPV  241 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~-~G~kVlLId~D~~rp~aidql~~~~~~~gv~v  241 (481)
                      +.++.|++|+||||++..++..|.+ .+.+|+++ +.+  ..+.+.+...-...|+++
T Consensus       373 ~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~-a~t--n~A~~~l~~~l~~~g~~v  427 (800)
T 2wjy_A          373 LSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVC-APS--NIAVDQLTEKIHQTGLKV  427 (800)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEE-ESS--HHHHHHHHHHHHTTTCCE
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCCcEEEE-cCc--HHHHHHHHHHHHHhCcce
Confidence            6788999999999999999998887 57787755 333  345555543333344443

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=94.81  E-value=0.025  Score=58.55  Aligned_cols=38  Identities=24%  Similarity=0.296  Sum_probs=30.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      +..+++++|++|+||||+...|+..+.....+|.++.-
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~ed  203 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVED  203 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEES
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEecc
Confidence            34699999999999999999998877655556765543

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=94.81  E-value=0.016  Score=55.46  Aligned_cols=26  Identities=38%  Similarity=0.494  Sum_probs=22.2

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++.+|+++|++||||||++..||..|
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            34689999999999999998888655

>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=94.81  E-value=0.019  Score=52.10  Aligned_cols=24  Identities=42%  Similarity=0.631  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      .++++|++|+||||++..|+..+.
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            578899999999999999987773

>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=94.79  E-value=0.028  Score=58.42  Aligned_cols=37  Identities=22%  Similarity=0.270  Sum_probs=28.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .++-+++.|++|+|||+++..+|..+  .+..+..+++.
T Consensus       166 ~~~~vLL~GppGtGKT~lA~aia~~~--~~~~~~~v~~~  202 (444)
T 2zan_A          166 PWRGILLFGPPGTGKSYLAKAVATEA--NNSTFFSISSS  202 (444)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHC--CSSEEEEECCC
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHc--CCCCEEEEeHH
Confidence            45788999999999999999998765  35566656554

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=94.78  E-value=0.16  Score=46.66  Aligned_cols=33  Identities=21%  Similarity=0.223  Sum_probs=21.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc---CCeEEEEe
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQ---GKSCMLVA  218 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~---G~kVlLId  218 (481)
                      +++.+++|+|||.+....+......   +.+++++.
T Consensus        54 ~li~~~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~   89 (220)
T 1t6n_A           54 VLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMC   89 (220)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHCCCCTTCCCEEEEC
T ss_pred             EEEECCCCCchhhhhhHHHHHhhhccCCCEEEEEEe
Confidence            6778999999998776655444222   33666554

>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=94.77  E-value=0.053  Score=57.21  Aligned_cols=70  Identities=27%  Similarity=0.393  Sum_probs=44.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .+.-+++.|++|+|||+++..++..+   +..+..++|..+.          ..          ........++..+..+
T Consensus       237 ~~~~vLL~GppGtGKT~lAraia~~~---~~~fv~vn~~~l~----------~~----------~~g~~~~~~~~~f~~A  293 (489)
T 3hu3_A          237 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGPEIM----------SK----------LAGESESNLRKAFEEA  293 (489)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHC---SSEEEEEEHHHHH----------TS----------CTTHHHHHHHHHHHHH
T ss_pred             CCCcEEEECcCCCCHHHHHHHHHHHh---CCCEEEEEchHhh----------hh----------hcchhHHHHHHHHHHH
Confidence            45678899999999999998887654   6677666653110          00          0011223345566666


Q ss_pred             HcCCCcEEEEcCC
Q 011624          262 KKKNVDVVIVDTA  274 (481)
Q Consensus       262 ~~~~~D~VIIDt~  274 (481)
                      ......+++||-.
T Consensus       294 ~~~~p~iLfLDEI  306 (489)
T 3hu3_A          294 EKNAPAIIFIDEL  306 (489)
T ss_dssp             HHTCSEEEEEESH
T ss_pred             HhcCCcEEEecch
Confidence            5455678999875

>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=94.77  E-value=0.023  Score=54.31  Aligned_cols=42  Identities=14%  Similarity=0.247  Sum_probs=34.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      -+++.|++|+|||+++..++..+...+..+..++|..+....
T Consensus        31 ~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~~   72 (265)
T 2bjv_A           31 PVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENL   72 (265)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHHH
T ss_pred             CEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChhH
Confidence            577899999999999999988776667788888888775443

>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=94.77  E-value=0.014  Score=53.75  Aligned_cols=22  Identities=36%  Similarity=0.516  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANY  206 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~  206 (481)
                      .|+++||+||||||++.+|...
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4789999999999999887544

>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=94.76  E-value=0.017  Score=54.39  Aligned_cols=27  Identities=19%  Similarity=0.322  Sum_probs=23.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      ++.+++++|++|+||||+...|+..+.
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            456999999999999999998876553

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=94.74  E-value=0.11  Score=53.77  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=19.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ...++++|++|+||||+...|+
T Consensus       157 g~~VgLVG~~gAGKSTLL~~Ls  178 (416)
T 1udx_A          157 IADVGLVGYPNAGKSSLLAAMT  178 (416)
T ss_dssp             SCSEEEECCGGGCHHHHHHHHC
T ss_pred             CCEEEEECCCCCcHHHHHHHHH
Confidence            3578899999999999998875

>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=94.72  E-value=0.075  Score=52.86  Aligned_cols=27  Identities=37%  Similarity=0.524  Sum_probs=23.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      +..++++|++|+||||++..++..+..
T Consensus        38 ~~~~ll~G~~G~GKT~la~~la~~l~~   64 (373)
T 1jr3_A           38 HHAYLFSGTRGVGKTSIARLLAKGLNC   64 (373)
T ss_dssp             CSEEEEESCTTSSHHHHHHHHHHHHSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            457899999999999999999987753

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.72  E-value=0.017  Score=54.56  Aligned_cols=27  Identities=26%  Similarity=0.332  Sum_probs=24.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      +|.+|++.|..|+||||++..|+.+|.
T Consensus         1 ~~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            1 GPRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            367999999999999999999998774

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=94.66  E-value=0.027  Score=58.94  Aligned_cols=25  Identities=36%  Similarity=0.490  Sum_probs=22.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      -++++|++|+|||+++..||..+..
T Consensus       203 ~~LL~G~pG~GKT~la~~la~~l~~  227 (468)
T 3pxg_A          203 NPVLIGEPGVGKTAIAEGLAQQIIN  227 (468)
T ss_dssp             EEEEESCTTTTTHHHHHHHHHHHHS
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHHh
Confidence            4578999999999999999988865

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=94.56  E-value=0.15  Score=50.00  Aligned_cols=130  Identities=19%  Similarity=0.250  Sum_probs=66.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEEeccCCchhHH---HHHHHhhhhcCCCeecCCCCCC----------
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK--QGKSCMLVAGDVYRPAAI---DQLVILGEQVGVPVYTAGTEVK----------  249 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~--~G~kVlLId~D~~rp~ai---dql~~~~~~~gv~v~~~~~~~~----------  249 (481)
                      -+++.+++|+|||+++...+..+..  .|.+++++.  |.+.-+.   +.+..+....++.+........          
T Consensus        46 ~~l~~~~TGsGKT~~~~~~~~~~~~~~~~~~~lil~--P~~~L~~q~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  123 (367)
T 1hv8_A           46 NIVAQARTGSGKTASFAIPLIELVNENNGIEAIILT--PTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALKN  123 (367)
T ss_dssp             EEEEECCSSSSHHHHHHHHHHHHSCSSSSCCEEEEC--SCHHHHHHHHHHHHHHHCSSCCCEEEECTTSCHHHHHHHHHT
T ss_pred             CEEEECCCCChHHHHHHHHHHHHhcccCCCcEEEEc--CCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHHhhcCC
Confidence            5778899999999988776665543  366777665  3443222   2222222223333322211111          


Q ss_pred             -------HHHHHHHHHHH--HHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHh
Q 011624          250 -------PSQIAKQGLEE--AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTF  318 (481)
Q Consensus       250 -------~~~~l~~~l~~--~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f  318 (481)
                             +.. +...+..  ....+++++|||=+-.+. +......+..+.....+..-++.+.|+........+..+
T Consensus       124 ~~iiv~T~~~-l~~~~~~~~~~~~~~~~iIiDEah~~~-~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~  199 (367)
T 1hv8_A          124 ANIVVGTPGR-ILDHINRGTLNLKNVKYFILDEADEML-NMGFIKDVEKILNACNKDKRILLFSATMPREILNLAKKY  199 (367)
T ss_dssp             CSEEEECHHH-HHHHHHTTCSCTTSCCEEEEETHHHHH-TTTTHHHHHHHHHTSCSSCEEEEECSSCCHHHHHHHHHH
T ss_pred             CCEEEecHHH-HHHHHHcCCcccccCCEEEEeCchHhh-hhchHHHHHHHHHhCCCCceEEEEeeccCHHHHHHHHHH
Confidence                   111 1122211  012467889998864432 112334444455544455566777776665555555444

>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=94.53  E-value=0.1  Score=54.23  Aligned_cols=27  Identities=37%  Similarity=0.522  Sum_probs=23.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      .|+-+++.|++|+|||+++..+|..+.
T Consensus        62 ~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           62 AGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            346688999999999999999998864

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=94.44  E-value=0.26  Score=46.10  Aligned_cols=57  Identities=18%  Similarity=0.128  Sum_probs=31.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHH-HHHH-------cCCeEEEEeccCCchhHH---HHHHHhhhhcCCCeec
Q 011624          185 VILLAGLQGVGKTTVSAKLAN-YLKK-------QGKSCMLVAGDVYRPAAI---DQLVILGEQVGVPVYT  243 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~-~L~~-------~G~kVlLId~D~~rp~ai---dql~~~~~~~gv~v~~  243 (481)
                      -+++.+++|+|||....-.+. .+..       .|.+++++.  |.|.-+.   +.+..+....++.+..
T Consensus        68 ~~l~~apTGsGKT~~~~l~~l~~l~~~~~~~~~~~~~~lil~--Pt~~L~~Q~~~~~~~~~~~~~~~~~~  135 (242)
T 3fe2_A           68 DMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLA--PTRELAQQVQQVAAEYCRACRLKSTC  135 (242)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTSCCCCTTCCCSEEEEC--SSHHHHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CEEEECCCcCHHHHHHHHHHHHHHHhccccccCCCCEEEEEe--CcHHHHHHHHHHHHHHHhhcCceEEE
Confidence            366778999999988654443 3332       355666554  5553332   2233444444555443

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=94.40  E-value=0.038  Score=56.15  Aligned_cols=37  Identities=16%  Similarity=0.193  Sum_probs=32.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .-++++|++|+||||++..|+..+...|.+|.++|-+
T Consensus        36 ~~~~i~G~~G~GKs~~~~~~~~~~~~~~~~~~~~D~~   72 (392)
T 4ag6_A           36 SNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPE   72 (392)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEESS
T ss_pred             CceEEEcCCCCCHHHHHHHHHHHHHHCCCEEEEEeCC
Confidence            3567889999999999999998888889999988754

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=94.35  E-value=0.1  Score=53.02  Aligned_cols=30  Identities=17%  Similarity=0.170  Sum_probs=23.5

Q ss_pred             ccCCCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          178 FAKSRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       178 ~~~~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +.-.+..++++.|++|+||||+...|+..+
T Consensus        49 l~i~~Gei~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           49 LHVPAGQIYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEcCCCEEEEEcCCCchHHHHHHHHhcCC
Confidence            333456799999999999999988777443

>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=94.28  E-value=0.038  Score=58.56  Aligned_cols=39  Identities=28%  Similarity=0.319  Sum_probs=33.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      ++.++++|++|+||||++..+|..+   |..+..+++...+.
T Consensus        77 ~~~lLL~GppGtGKTtla~~la~~l---~~~~i~in~s~~~~  115 (516)
T 1sxj_A           77 FRAAMLYGPPGIGKTTAAHLVAQEL---GYDILEQNASDVRS  115 (516)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHT---TCEEEEECTTSCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc---CCCEEEEeCCCcch
Confidence            4688999999999999999998776   88888888876654

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=94.28  E-value=0.025  Score=53.09  Aligned_cols=35  Identities=29%  Similarity=0.495  Sum_probs=27.5

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      .++.+|++.|+.|+||||++..|+..    +.+|.+..-
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~----~g~v~~~~~   52 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY----KNDICLLTE   52 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG----TTTEEEECC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc----cCCeEEEec
Confidence            45789999999999999999888754    556665543

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=94.21  E-value=0.33  Score=46.22  Aligned_cols=39  Identities=28%  Similarity=0.319  Sum_probs=25.3

Q ss_pred             EEEEcCCCCCHHHHHHHHHH-HHHH------cCCeEEEEeccCCchhH
Q 011624          186 ILLAGLQGVGKTTVSAKLAN-YLKK------QGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~-~L~~------~G~kVlLId~D~~rp~a  226 (481)
                      +++.+++|+|||.+..-.+. .+.+      .|.+++++.  |.|.-+
T Consensus        94 ~lv~a~TGsGKT~~~~l~~l~~l~~~~~~~~~~~~~lil~--Pt~~La  139 (262)
T 3ly5_A           94 LLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILS--PTRELA  139 (262)
T ss_dssp             CEECCCTTSCHHHHHHHHHHHHHHHTTCCGGGCCCEEEEC--SSHHHH
T ss_pred             EEEEccCCCCchHHHHHHHHHHHHhccccccCCceEEEEe--CCHHHH
Confidence            67789999999987655443 3332      467777665  455443

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=94.19  E-value=0.033  Score=52.44  Aligned_cols=37  Identities=22%  Similarity=0.292  Sum_probs=28.7

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .++.+|+++|++|+||||++..|+..|   |.  .++|+|.+
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~~l---g~--~~~d~d~~   50 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAKDF---GF--TYLDTGAM   50 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHHH---CC--EEEEHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHc---CC--ceecCCCe
Confidence            356789999999999999999888655   43  45677643

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=94.15  E-value=0.51  Score=42.49  Aligned_cols=34  Identities=18%  Similarity=0.078  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH-H--cCCeEEEEe
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLK-K--QGKSCMLVA  218 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~-~--~G~kVlLId  218 (481)
                      -+++.+++|+|||.+....+.... .  .+.+++++.
T Consensus        42 ~~lv~apTGsGKT~~~~~~~~~~~~~~~~~~~~lil~   78 (206)
T 1vec_A           42 DILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIV   78 (206)
T ss_dssp             CEEEECCSSSTTHHHHHHHHHHHCCTTSCSCCEEEEC
T ss_pred             CEEEECCCCCchHHHHHHHHHHHhcccCCCeeEEEEe
Confidence            367889999999976654333221 1  244566554

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=94.15  E-value=0.043  Score=53.26  Aligned_cols=31  Identities=42%  Similarity=0.593  Sum_probs=23.5

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      +++.|++|+||||++..||..+   +.....+++
T Consensus        47 vlL~Gp~GtGKTtLakala~~~---~~~~i~i~g   77 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANES---GLNFISVKG   77 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHT---TCEEEEEET
T ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCCEEEEEc
Confidence            8899999999999999988654   334444443

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=94.11  E-value=0.55  Score=44.33  Aligned_cols=56  Identities=25%  Similarity=0.210  Sum_probs=31.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHH-HHHHc--CCeEEEEeccCCchhHH---HHHHHhhhhcCCCee
Q 011624          185 VILLAGLQGVGKTTVSAKLAN-YLKKQ--GKSCMLVAGDVYRPAAI---DQLVILGEQVGVPVY  242 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~-~L~~~--G~kVlLId~D~~rp~ai---dql~~~~~~~gv~v~  242 (481)
                      -+++.+++|+|||......+. .+...  +.+++++.  |.|.-+.   +.+..+....++.+.
T Consensus        82 ~~lv~a~TGsGKT~~~~~~il~~l~~~~~~~~~lil~--Ptr~L~~q~~~~~~~~~~~~~~~~~  143 (249)
T 3ber_A           82 DIIGLAETGSGKTGAFALPILNALLETPQRLFALVLT--PTRELAFQISEQFEALGSSIGVQSA  143 (249)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCCSSCEEEEC--SSHHHHHHHHHHHHHHHGGGTCCEE
T ss_pred             CEEEEcCCCCCchhHhHHHHHHHHhcCCCCceEEEEe--CCHHHHHHHHHHHHHHhccCCeeEE
Confidence            467789999999987654443 33333  34566554  4453322   233344444455543

---

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	481
d2qy9a2	211	c.37.1.10 (A:285-495) GTPase domain of the signal	4e-64
d1okkd2	207	c.37.1.10 (D:97-303) GTPase domain of the signal r	1e-63
d1ls1a2	207	c.37.1.10 (A:89-295) GTPase domain of the signal s	2e-61
d1j8yf2	211	c.37.1.10 (F:87-297) GTPase domain of the signal s	2e-60
d1vmaa2	213	c.37.1.10 (A:82-294) GTPase domain of the signal r	6e-60
d1khta_	190	c.37.1.1 (A:) Adenylate kinase {Archaeon Methanoco	9e-31
d1nksa_	194	c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobu	8e-30
d1ls1a1	88	a.24.13.1 (A:1-88) Signal sequence recognition pro	3e-27
d1wgwa_	99	a.24.13.1 (A:) Signal recognition particle 54 kDa	7e-25
d1bifa1	213	c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fruct	3e-24
d1j8yf1	84	a.24.13.1 (F:3-86) Signal sequence recognition pro	3e-22
d1qzxa2	138	a.36.1.1 (A:295-432) Signal sequence binding prote	5e-17
d2i3ba1	189	c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57	4e-11
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	6e-10
d1hq1a_	104	a.36.1.1 (A:) Signal sequence binding protein Ffh	2e-09
d1qb2a_	107	a.36.1.1 (A:) SRP54M {Human (Homo sapiens) [TaxId:	4e-09
d2ffha2	100	a.36.1.1 (A:319-418) Signal sequence binding prote	3e-07
d1hyqa_	232	c.37.1.10 (A:) Cell division regulator MinD {Archa	1e-05
d1ihua1	296	c.37.1.10 (A:1-296) Arsenite-translocating ATPase	2e-05
d1g3qa_	237	c.37.1.10 (A:) Cell division regulator MinD {Archa	2e-05
d1rz3a_	198	c.37.1.6 (A:) Hypothetical protein rbstp0775 {Baci	5e-05
d1ihua2	279	c.37.1.10 (A:308-586) Arsenite-translocating ATPas	9e-05
d1m8pa3	183	c.37.1.15 (A:391-573) ATP sulfurylase C-terminal d	1e-04
d1cp2a_	269	c.37.1.10 (A:) Nitrogenase iron protein {Clostridi	1e-04
d1x6va3	195	c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kin	1e-04
d1odfa_	286	c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker'	2e-04
d1a7ja_	288	c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sph	3e-04
d1qf9a_	194	c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoi	3e-04
d2vp4a1	197	c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fr	5e-04
d1np6a_	170	c.37.1.10 (A:) Molybdopterin-guanine dinucleotide	5e-04
d1uj2a_	213	c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Ho	7e-04
d2afhe1	289	c.37.1.10 (E:1-289) Nitrogenase iron protein {Azot	8e-04
d1gsia_	208	c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tu	8e-04
d1yj5a2	172	c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' p	0.001
d1ukza_	196	c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Sac	0.001
d1sq5a_	308	c.37.1.6 (A:) Pantothenate kinase PanK {Escherichi	0.001
d1nn5a_	209	c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapi	0.002
d1byia_	224	c.37.1.10 (A:) Dethiobiotin synthetase {Escherichi	0.002
d1xjca_	165	c.37.1.10 (A:) Molybdopterin-guanine dinucleotide	0.003
d1m7ga_	208	c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (A	0.003
d1e9ra_	433	c.37.1.11 (A:) Bacterial conjugative coupling prot	0.003
d4tmka_	210	c.37.1.1 (A:) Thymidylate kinase {Escherichia coli	0.004
d1zp6a1	176	c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {	0.004

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]} Length = 211

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]

 Score =  204 bits (521), Expect = 4e-64
 Identities = 89/209 (42%), Positives = 124/209 (59%), Gaps = 6/209 (2%)

Query: 176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE 235
           L      P VIL+ G+ GVGKTT   KLA   ++QGKS ML AGD +R AA++QL + G+
Sbjct: 2   LNVEGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQ 61

Query: 236 QVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN 295
           +  +PV    T    + +    ++ AK +N+DV+I DTAGRLQ    +M+ELK + RV+ 
Sbjct: 62  RNNIPVIAQHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMK 121

Query: 296 ------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSG 349
                 P EV+L +DA TGQ A +    F+  +G+TG  LTKLDG ++GG   SV +  G
Sbjct: 122 KLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTAKGGVIFSVADQFG 181

Query: 350 KPIKLVGRGERMEDLEPFYPDRMAGRILG 378
            PI+ +G GER+EDL PF  D     +  
Sbjct: 182 IPIRYIGVGERIEDLRPFKADDFIEALFA 210

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]} Length = 207

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]

 Score =  203 bits (516), Expect = 1e-63
 Identities = 79/204 (38%), Positives = 114/204 (55%), Gaps = 6/204 (2%)

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV 239
           + +  V+L+ G+ GVGKTT  AKL  Y +  GK  M  AGD +R A   QL   G+++ +
Sbjct: 3   EPKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSI 62

Query: 240 PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL----- 294
           PV        P+ +A   ++  K +  D++ VDTAGRL     +M+ELK VKR +     
Sbjct: 63  PVIQGPEGTDPAALAYDAVQAMKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADP 122

Query: 295 -NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIK 353
             P EV LV+DA+TGQ        F+  +G+TG I+TKLDG ++GG  + +      PIK
Sbjct: 123 EEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTAKGGVLIPIVRTLKVPIK 182

Query: 354 LVGRGERMEDLEPFYPDRMAGRIL 377
            VG GE  +DL+PF P+     +L
Sbjct: 183 FVGVGEGPDDLQPFDPEAFVEALL 206

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]} Length = 207

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]

 Score =  197 bits (502), Expect = 2e-61
 Identities = 110/201 (54%), Positives = 143/201 (71%)

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV 239
                +  L GLQG GKTT +AKLA Y K +G+  +LVA D  RPAA +QL +LGE+VGV
Sbjct: 7   LKDRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGV 66

Query: 240 PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEV 299
           PV        P  I ++  E+A+ +  D+++VDTAGRLQID+ +M EL  +K VL P EV
Sbjct: 67  PVLEVMDGESPESIRRRVEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEV 126

Query: 300 LLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGE 359
           LLV+DAMTGQEA ++   F+ ++G+TG +LTKLDGD+RGGAALS + V+GKPI   G  E
Sbjct: 127 LLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAALSARHVTGKPIYFAGVSE 186

Query: 360 RMEDLEPFYPDRMAGRILGMG 380
           + E LEPFYP+R+AGRILGMG
Sbjct: 187 KPEGLEPFYPERLAGRILGMG 207

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]} Length = 211

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]

 Score =  195 bits (496), Expect = 2e-60
 Identities = 87/209 (41%), Positives = 125/209 (59%), Gaps = 2/209 (0%)

Query: 172 EVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV 231
           +    V     P VI+L G+QG GK T + KLA + KK+G    LV  DVYRPAA++QL 
Sbjct: 1   DKEPKVIPDKIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQ 60

Query: 232 ILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMM--DELKD 289
            LG+Q+GVPVY    E     IAK+G+E+   + ++++IVDTAGR    +     +E+K+
Sbjct: 61  QLGQQIGVPVYGEPGEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKN 120

Query: 290 VKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSG 349
           +   + P EV LV+DA  GQ+A  L + FN    I   I+TK+DG ++GG ALS    +G
Sbjct: 121 IYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKGGGALSAVAATG 180

Query: 350 KPIKLVGRGERMEDLEPFYPDRMAGRILG 378
             IK +G GE++++LE F P R   R+  
Sbjct: 181 ATIKFIGTGEKIDELEVFNPRRFVARLHH 209

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]} Length = 213

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]

 Score =  193 bits (492), Expect = 6e-60
 Identities = 89/211 (42%), Positives = 120/211 (56%), Gaps = 6/211 (2%)

Query: 174 SELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVIL 233
           ++L      P VI++ G+ G GKTT   KLA     +GKS +L A D +R AAI+QL I 
Sbjct: 2   TKLNVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIW 61

Query: 234 GEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRV 293
           GE+VG  V +      P+ +A   +  A  +N DVVI+DTAGRL   K +M+EL+ V RV
Sbjct: 62  GERVGATVISHSEGADPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRV 121

Query: 294 LN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEV 347
           +       P E LLV+DA TGQ        F   + +TG ILTKLDG ++GG  L++   
Sbjct: 122 VKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEAVNVTGIILTKLDGTAKGGITLAIARE 181

Query: 348 SGKPIKLVGRGERMEDLEPFYPDRMAGRILG 378
            G PIK +G GE+ EDL PF P+     +L 
Sbjct: 182 LGIPIKFIGVGEKAEDLRPFDPEAFVEVLLS 212

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]} Length = 190

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]

 Score =  115 bits (289), Expect = 9e-31
 Identities = 32/179 (17%), Positives = 73/179 (40%), Gaps = 2/179 (1%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTA 244
           V+++ G+ GVG TT S    + L+K+G +  +V+          +  ++ ++  +     
Sbjct: 3   VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFGSVMFEVAKEENLVSDRDQMRKMDP 62

Query: 245 GTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVD 304
            T+ +  ++A + + E  K+    V VDT   +   K  +  L          ++++VV+
Sbjct: 63  ETQKRIQKMAGRKIAEMAKE--SPVAVDTHSTVSTPKGYLPGLPSWVLNELNPDLIIVVE 120

Query: 305 AMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMED 363
               +     ++       +  A   +        AA+S   ++G  +K+V     + D
Sbjct: 121 TTGDEILMRRMSDETRVRDLDTASTIEQHQFMNRCAAMSYGVLTGATVKIVQNRNGLLD 179

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]} Length = 194

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]

 Score =  113 bits (282), Expect = 8e-30
 Identities = 35/195 (17%), Positives = 68/195 (34%), Gaps = 9/195 (4%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKS-CMLVAGDVYRPAAIDQLVILGEQVGVPVYT 243
           + ++ G+ GVGK+TV AK+   L  QG +  ++  GD     A+             +  
Sbjct: 3   IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINYGDFMLATALKLGYAKDRDEMRKLSV 62

Query: 244 AGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDE-LKDVKRVLNPTEVLLV 302
              +      AK   EEA+      + +DT   ++     +      V   +NP+ + L+
Sbjct: 63  EKQKKLQIDAAKGIAEEARAGGEGYLFIDTHAVIRTPSGYLPGLPSYVITEINPSVIFLL 122

Query: 303 VDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERME 362
                   +     T       +   +     +    AA +   ++G  +K++   E   
Sbjct: 123 EADPKIILSRQKRDTTRNRNDYSDESVILETINFARYAATASAVLAGSTVKVIVNVEG-- 180

Query: 363 DLEPFYPDRMAGRIL 377
                 P   A  I+
Sbjct: 181 -----DPSIAANEII 190

>d1ls1a1 a.24.13.1 (A:1-88) Signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]} Length = 88

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Domain of the SRP/SRP receptor G-proteins
family: Domain of the SRP/SRP receptor G-proteins
domain: Signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

 Score =  102 bits (256), Expect = 3e-27
 Identities = 33/88 (37%), Positives = 59/88 (67%)

Query: 84  MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAV 143
           MF QL++ L+ A  +L+G   +T+E++   +R+IRRAL++ADV+L V R FV+ V E+A+
Sbjct: 1   MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEAL 60

Query: 144 GVGLIRGVRPDQQLVKIVRDELVKLMGG 171
           G  ++  + P + ++  V + L + +GG
Sbjct: 61  GKQVLESLTPAEVILATVYEALKEALGG 88

>d1wgwa_ a.24.13.1 (A:) Signal recognition particle 54 kDa protein, SRP54 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Domain of the SRP/SRP receptor G-proteins
family: Domain of the SRP/SRP receptor G-proteins
domain: Signal recognition particle 54 kDa protein, SRP54
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 96.4 bits (240), Expect = 7e-25
 Identities = 19/93 (20%), Positives = 39/93 (41%)

Query: 80  VRAEMFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVS 139
                   L   + +A   L     + +E +   ++++  ALLEADV++ +V++  + V 
Sbjct: 2   SSGSSGADLGRKITSALRSLSNATIINEEVLNAMLKEVCTALLEADVNIKLVKQLRENVK 61

Query: 140 EQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGE 172
                  +  G+   + +   V  ELVK+    
Sbjct: 62  SAIDLEEMASGLNKRKMIQHAVFKELVKVKVYS 94

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 213

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]

 Score = 98.5 bits (244), Expect = 3e-24
 Identities = 31/214 (14%), Positives = 59/214 (27%), Gaps = 28/214 (13%)

Query: 183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY 242
           PT+I++ GL   GKT +S KL  YL   G          YR   +         +     
Sbjct: 2   PTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEE 61

Query: 243 TAGTEVK-PSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRV-------- 293
                 +          +   ++   V + D     +  +AM+    +            
Sbjct: 62  GLKIRKQCALAALNDVRKFLSEEGGHVAVFDATNTTRERRAMIFNFGEQNGYKTFFVESI 121

Query: 294 --------LNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVK 345
                    N  +V L       +++      F   I         LD +     +    
Sbjct: 122 CVDPEVIAANIVQVKLGSPDYVNRDSDEATEDFMRRIECYENSYESLDEEQDRDLS---- 177

Query: 346 EVSGKPIKLVGRGERME--DLEPFYPDRMAGRIL 377
                 IK++  G+      +      R+   ++
Sbjct: 178 -----YIKIMDVGQSYVVNRVADHIQSRIVYYLM 206

>d1j8yf1 a.24.13.1 (F:3-86) Signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]} Length = 84

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Domain of the SRP/SRP receptor G-proteins
family: Domain of the SRP/SRP receptor G-proteins
domain: Signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

 Score = 88.6 bits (220), Expect = 3e-22
 Identities = 18/84 (21%), Positives = 38/84 (45%)

Query: 88  LTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGL 147
           L   L     K     +   + + + +++++++L+ ADV++ +V      + E+      
Sbjct: 1   LLDNLRDTVRKFLTGSSSYDKAVEDFIKELQKSLISADVNVKLVFSLTNKIKERLKNEKP 60

Query: 148 IRGVRPDQQLVKIVRDELVKLMGG 171
              +   +  +KIV DEL  L GG
Sbjct: 61  PTYIERREWFIKIVYDELSNLFGG 84

>d1qzxa2 a.36.1.1 (A:295-432) Signal sequence binding protein Ffh {Archaeon Sulfolobus solfataricus [TaxId: 2287]} Length = 138

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

 Score = 75.4 bits (185), Expect = 5e-17
 Identities = 22/92 (23%), Positives = 46/92 (50%), Gaps = 6/92 (6%)

Query: 380 GDVLSFVEKAQEVMQQEDAEEMQKKIMSA--NFDFNDFLKQTRTVARMGSMSRVIGMIPG 437
           GD+ S +EK + + + +  ++  + +M         D   Q   + +MG +S+V+  IPG
Sbjct: 1   GDIESILEKVKGLEEYDKIQKKMEDVMEGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPG 60

Query: 438 MGKITPA----QVREAEKSLKIMEAMIEAMTP 465
           +G + P     Q++  E+ ++   A + +MT 
Sbjct: 61  LGIMLPTPSEDQLKIGEEKIRRWLAALNSMTY 92

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]} Length = 189

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]

 Score = 60.0 bits (144), Expect = 4e-11
 Identities = 26/174 (14%), Positives = 55/174 (31%), Gaps = 23/174 (13%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY---------------------- 222
            + L G  GVGKTT+  K +  LK  G        +                        
Sbjct: 3   HVFLTGPPGVGKTTLIHKASEVLKSSGVPVDGFYTEEVRQGGRRIGFDVVTLSGTRGPLS 62

Query: 223 RPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKA 282
           R            +VG  V    +  + +    +  + +      V ++D  G++++   
Sbjct: 63  RVGLEPPPGKRECRVGQYVVDLTSFEQLALPVLRNADCSSGPGQRVCVIDEIGKMELFSQ 122

Query: 283 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 336
           +  +    + +  P  ++L    +   +  ALV        +    +TK + + 
Sbjct: 123 LFIQAVR-QTLSTPGTIILGTIPVPKGKPLALVEEIRNRKDVKVFNVTKENRNH 175

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

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]

 Score = 57.7 bits (138), Expect = 6e-10
 Identities = 39/312 (12%), Positives = 97/312 (31%), Gaps = 47/312 (15%)

Query: 154 DQQLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKS 213
           D+Q    + D L +L+ G+ +        PT  LL G  G GKT++ + +    +     
Sbjct: 8   DKQFENRLNDNLEELIQGKKA-----VESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIV 62

Query: 214 CMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDT 273
              +  D ++    +   ++       V         +++ +  +     +  ++VI  T
Sbjct: 63  ---IDNDTFKQQHPNFDELVKLYEKDVV--KHVTPYSNRMTEAIISRLSDQGYNLVIEGT 117

Query: 274 AGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLD 333
                +       L+              +  M   +  + + T              + 
Sbjct: 118 GRTTDVPIQTATMLQAKGY-------ETKMYVMAVPKINSYLGTIE--------RYETMY 162

Query: 334 GDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVM 393
            D    A  + K+     +K +       +LE  +   +   I         +  + E  
Sbjct: 163 ADDPMTARATPKQAHDIVVKNLP-----TNLETLHKTGLFSDIRLYNREGVKLYSSLET- 216

Query: 394 QQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSL 453
                +E  +K ++      +            ++ R+        K+   + +E  +  
Sbjct: 217 PSISPKETLEKELNRKVSGKEIQP---------TLERIE------QKMVLNKHQETPE-F 260

Query: 454 KIMEAMIEAMTP 465
           K ++  +E++ P
Sbjct: 261 KAIQQKLESLQP 272

>d1hq1a_ a.36.1.1 (A:) Signal sequence binding protein Ffh {Escherichia coli [TaxId: 562]} Length = 104

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Escherichia coli [TaxId: 562]

 Score = 52.6 bits (126), Expect = 2e-09
 Identities = 25/57 (43%), Positives = 37/57 (64%), Gaps = 1/57 (1%)

Query: 410 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP-AQVREAEKSLKIMEAMIEAMTP 465
           FD NDFL+Q R +  MG M+ ++G +PGMG+I    + +  +K L  MEA+I +MT 
Sbjct: 2   FDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNVKSQMDDKVLVRMEAIINSMTM 58

>d1qb2a_ a.36.1.1 (A:) SRP54M {Human (Homo sapiens) [TaxId: 9606]} Length = 107

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: SRP54M
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.9 bits (124), Expect = 4e-09
 Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 2/58 (3%)

Query: 410 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITP--AQVREAEKSLKIMEAMIEAMTP 465
           F   D  +Q + + +MG  S+++GMIPG G         +E+   LK +  ++++M  
Sbjct: 2   FTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMND 59

>d2ffha2 a.36.1.1 (A:319-418) Signal sequence binding protein Ffh {Thermus aquaticus [TaxId: 271]} Length = 100

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Thermus aquaticus [TaxId: 271]

 Score = 46.4 bits (110), Expect = 3e-07
 Identities = 19/56 (33%), Positives = 34/56 (60%), Gaps = 4/56 (7%)

Query: 410 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTP 465
               DFLKQ + + R+G  S ++G++PG+ +         EK++K +EA++ +MTP
Sbjct: 2   LSLEDFLKQMQNLKRLGPFSEILGLLPGVPQGLKVD----EKAIKRLEAIVLSMTP 53

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 232

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]

 Score = 44.4 bits (103), Expect = 1e-05
 Identities = 11/34 (32%), Positives = 16/34 (47%)

Query: 193 GVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA 226
           G GKTT++A L   L + G    +V  D+     
Sbjct: 12  GTGKTTITANLGVALAQLGHDVTIVDADITMANL 45

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]} Length = 296

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]

 Score = 44.2 bits (103), Expect = 2e-05
 Identities = 17/43 (39%), Positives = 25/43 (58%)

Query: 178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD 220
           F ++ P  +   G  GVGKT++S   A  L +QGK  +LV+ D
Sbjct: 3   FLQNIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD 45

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 237

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]

 Score = 43.5 bits (101), Expect = 2e-05
 Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 1/43 (2%)

Query: 185 VILLAGLQ-GVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA 226
           +I +   + G GKTTV+A L+  L  +G+  + V GD+     
Sbjct: 4   IISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANL 46

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]} Length = 198

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]

 Score = 42.1 bits (97), Expect = 5e-05
 Identities = 14/47 (29%), Positives = 25/47 (53%)

Query: 176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY 222
           L    +   V+ + GL   GKTT++ +L+  L++QG S  +   D +
Sbjct: 15  LAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDDH 61

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]} Length = 279

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]

 Score = 41.9 bits (97), Expect = 9e-05
 Identities = 16/49 (32%), Positives = 24/49 (48%)

Query: 178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA 226
            A++   +I+L G  GVGKTT++A +A  L   G    L   D     +
Sbjct: 15  IARNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPAAHLS 63

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]} Length = 183

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]

 Score = 40.9 bits (94), Expect = 1e-04
 Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 1/43 (2%)

Query: 182 RPTVILLAGLQGVGKTTVSAKLANYLKKQG-KSCMLVAGDVYR 223
           +   I L G    GK  ++  L   L +QG +S  L+ GD  R
Sbjct: 5   QGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGDTVR 47

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]} Length = 269

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]

 Score = 41.5 bits (96), Expect = 1e-04
 Identities = 43/218 (19%), Positives = 77/218 (35%), Gaps = 4/218 (1%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGE-QVGVPVYT 243
            + + G  G+GK+T +  L + L   GK+ M+V  D    +    L  L +  V   +  
Sbjct: 3   QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLRE 62

Query: 244 AGTEVKPSQIAKQGLEEAKK--KNVDVVIVDTAGRLQID-KAMMDELKDVKRVLNPTEVL 300
            G +V+   I K+G    +          V  AGR  I    M+++L      L+     
Sbjct: 63  EGEDVELDSILKEGYGGIRCVESGGPEPGVGCAGRGIITSINMLEQLGAYTDDLDYVFYD 122

Query: 301 LVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER 360
           ++ D + G  A  +      EI I  +        +   +    K      ++L G    
Sbjct: 123 VLGDVVCGGFAMPIREGKAQEIYIVASGEMMALYAANNISKGIQKYAKSGGVRLGGIICN 182

Query: 361 MEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDA 398
              +   Y    A        ++ FV ++  V + E  
Sbjct: 183 SRKVANEYELLDAFAKELGSQLIHFVPRSPMVTKAEIN 220

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]} Length = 195

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]

 Score = 40.4 bits (93), Expect = 1e-04
 Identities = 19/42 (45%), Positives = 21/42 (50%)

Query: 182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR 223
           R   + L GL G GKTTVS  L  YL   G  C  + GD  R
Sbjct: 18  RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNIR 59

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 286

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]

 Score = 41.3 bits (96), Expect = 2e-04
 Identities = 10/32 (31%), Positives = 17/32 (53%)

Query: 179 AKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ 210
               P  I  +G QG GK+  S ++ N+L ++
Sbjct: 23  GNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEK 54

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]} Length = 288

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]

 Score = 40.3 bits (94), Expect = 3e-04
 Identities = 9/41 (21%), Positives = 19/41 (46%)

Query: 182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY 222
           +  +I + G  G G +TV        +++G   + + GD +
Sbjct: 3   KHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF 43

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]} Length = 194

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]

 Score = 39.6 bits (91), Expect = 3e-04
 Identities = 10/29 (34%), Positives = 14/29 (48%)

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYLK 208
           KS+P V+ + G  G GK T  A +     
Sbjct: 3   KSKPNVVFVLGGPGSGKGTQCANIVRDFG 31

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 197

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]

 Score = 38.8 bits (89), Expect = 5e-04
 Identities = 9/31 (29%), Positives = 13/31 (41%)

Query: 181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQG 211
           ++P  +L+ G  G GKTT       Y     
Sbjct: 7   TQPFTVLIEGNIGSGKTTYLNHFEKYKNDIC 37

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]} Length = 170

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]

 Score = 38.4 bits (88), Expect = 5e-04
 Identities = 24/165 (14%), Positives = 50/165 (30%), Gaps = 18/165 (10%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP--------------AAIDQL 230
           ++  A   G GKTT+  KL   L  +G    L+    +                A   Q 
Sbjct: 4   LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHDMDVDKPGKDSYELRKAGAAQT 63

Query: 231 VILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDV 290
           ++  +Q    +     E +                +D+++V+     +I K ++      
Sbjct: 64  IVASQQRWALMTETPDEEELDLQFL--ASRMDTSKLDLILVEGFKHEEIAKIVLFRDGAG 121

Query: 291 KRVLNPTEVLLVVDAMTGQEAAALVTTFNIE--IGITGAILTKLD 333
            R         V+   +       V   +I    G+   ++  + 
Sbjct: 122 HRPEELVIDRHVIAVASDVPLNLDVALLDINDVEGLADFVVEWMQ 166

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]} Length = 213

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]

 Score = 38.8 bits (89), Expect = 7e-04
 Identities = 11/45 (24%), Positives = 24/45 (53%), Gaps = 5/45 (11%)

Query: 183 PTVILLAGLQGVGKTTVSAKLANYLKK-----QGKSCMLVAGDVY 222
           P +I ++G    GK++V AK+   L +     + K  ++++ D +
Sbjct: 2   PFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSF 46

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]} Length = 289

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]

 Score = 39.1 bits (90), Expect = 8e-04
 Identities = 12/41 (29%), Positives = 19/41 (46%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA 225
              + G  G+GK+T +  L   L + GK  M+V  D    +
Sbjct: 4   QCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADS 44

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]} Length = 208

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]

 Score = 38.5 bits (88), Expect = 8e-04
 Identities = 12/37 (32%), Positives = 19/37 (51%)

Query: 186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY 222
           I + G+ G GK T+  KL+   +  G+S   +A   Y
Sbjct: 3   IAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAFPRY 39

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 172

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]

 Score = 37.9 bits (87), Expect = 0.001
 Identities = 7/30 (23%), Positives = 11/30 (36%)

Query: 178 FAKSRPTVILLAGLQGVGKTTVSAKLANYL 207
                P V++  G  G GK+T   +     
Sbjct: 9   LLSPNPEVVVAVGFPGAGKSTFIQEHLVSA 38

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 196

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]

 Score = 37.7 bits (86), Expect = 0.001
 Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 4/61 (6%)

Query: 177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQ 236
            F+  + +VI + G  G GK T   KL            L AGD+ R          GE 
Sbjct: 2   AFSPDQVSVIFVLGGPGAGKGTQCEKLVKDY----SFVHLSAGDLLRAEQGRAGSQYGEL 57

Query: 237 V 237
           +
Sbjct: 58  I 58

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]} Length = 308

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]

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 2/46 (4%)

Query: 179 AKSRPTVILLAGLQGVGKTTVSAKLANYLKK--QGKSCMLVAGDVY 222
            +  P +I +AG   VGK+T +  L   L +  + +   L+  D +
Sbjct: 76  GQRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF 121

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]} Length = 209

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]

 Score = 37.6 bits (86), Expect = 0.002
 Identities = 13/36 (36%), Positives = 18/36 (50%)

Query: 182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV 217
           R  +I+L G+   GK+T S KL   L   G    L+
Sbjct: 2   RGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL 37

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]} Length = 224

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]

 Score = 37.7 bits (86), Expect = 0.002
 Identities = 10/98 (10%), Positives = 22/98 (22%)

Query: 193 GVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQ 252
            VGKT  S  L    K  G                 + +   + + +   ++      + 
Sbjct: 12  EVGKTVASCALLQAAKAAGYRTAGYKPVASGSEKTPEGLRNSDALALQRNSSLQLDYATV 71

Query: 253 IAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDV 290
                 E      +          L +   +    +  
Sbjct: 72  NPYTFAEPTSPHIISAQEGRPIESLVMSAGLRALEQQA 109

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]} Length = 165

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]

 Score = 36.4 bits (83), Expect = 0.003
 Identities = 20/160 (12%), Positives = 47/160 (29%), Gaps = 12/160 (7%)

Query: 185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGV----- 239
           V  + G +  GKTT+  K      ++G     V    +         +   +        
Sbjct: 3   VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGGEPARPEGVDSVRHERAGAVA 62

Query: 240 -----PVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL 294
                         +P       L       +D+V+V+   + +  K ++   ++    L
Sbjct: 63  TAVEGDGLLQLHLRRPLWRLDDVLALYAPLRLDLVLVEGYKQERHPKVVLVRSEEDWASL 122

Query: 295 NPTEVLLVVDAMTGQEAAALVTTFNI--EIGITGAILTKL 332
                +  V A    E       F++  +      ++ ++
Sbjct: 123 QHLANIRAVIAWEPLEGPLAHPVFSLADDDEYIPWLMNEV 162

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]} Length = 208

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]

 Score = 36.7 bits (84), Expect = 0.003
 Identities = 13/45 (28%), Positives = 21/45 (46%), Gaps = 1/45 (2%)

Query: 180 KSRPTVILLAGLQGVGKTTVSAKLANYL-KKQGKSCMLVAGDVYR 223
             R   I L GL   GK+T++ +L + L + +      + GD  R
Sbjct: 21  NQRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIR 65

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]} Length = 433

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: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

 Score = 37.6 bits (86), Expect = 0.003
 Identities = 44/360 (12%), Positives = 105/360 (29%), Gaps = 29/360 (8%)

Query: 143 VGVGLIRGVRPDQQL--VKIVRD-ELVKLMGGEVSELVFA------KSRPTVILLAGLQG 193
           VG G   G    + L   +IV   +L ++   +  ++  A       + P  +L+ G  G
Sbjct: 1   VGQGEFGGAPFKRFLRGTRIVSGGKLKRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATG 60

Query: 194 VGKTTVSAKLANYLKKQGKSCMLV--AGDVYRPAA--IDQLVILGEQVGV---PVYTAGT 246
            GK+ +  +LA     +G   ++V   GD+        D ++   +Q             
Sbjct: 61  TGKSVLLRELAYTGLLRGDRMVIVDPNGDMLSKFGRDKDIILNPYDQRTKGWSFFNEIRN 120

Query: 247 EVKPSQIAKQGLEEAKKKNVD-----VVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLL 301
           +    + A   +   K    +       ++      ++       ++++           
Sbjct: 121 DYDWQRYALSVVPRGKTDEAEEWASYGRLLLRETAKKLALIGTPSMRELFHWTTIATFDD 180

Query: 302 VVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM 361
           +   + G  A +L    N       +    L         +   + S +       G  +
Sbjct: 181 LRGFLEGTLAESLFAGSNEASKALTSARFVLSDKLPEHVTMPDGDFSIRSWLEDPNGGNL 240

Query: 362 EDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRT 421
                         ++     +  V             E  K+ +    D    L++  +
Sbjct: 241 FITWREDMGPALRPLISA--WVDVV-----CTSILSLPEEPKRRLWLFIDELASLEKLAS 293

Query: 422 VARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR 481
           +A   +  R  G+    G  + +Q+ +     K  + +  +    +          T + 
Sbjct: 294 LADALTKGRKAGLRVVAGLQSTSQLDDVYGV-KEAQTLRASFRSLVVLGGSRTDPKTNED 352

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]} Length = 210

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]

 Score = 36.4 bits (83), Expect = 0.004
 Identities = 11/32 (34%), Positives = 18/32 (56%)

Query: 186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV 217
           I++ GL+G GKTT    +   L++ G   M+ 
Sbjct: 5   IVIEGLEGAGKTTARNVVVETLEQLGIRDMVF 36

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]} Length = 176

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]

 Score = 36.1 bits (82), Expect = 0.004
 Identities = 11/45 (24%), Positives = 18/45 (40%), Gaps = 3/45 (6%)

Query: 182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA 226
              ++LL+G  G GK+T++  LA      G   +    D      
Sbjct: 3   GGNILLLSGHPGSGKSTIAEALA---NLPGVPKVHFHSDDLWGYI 44

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	481
d2qy9a2	211	GTPase domain of the signal recognition particle r	100.0
d1ls1a2	207	GTPase domain of the signal sequence recognition p	100.0
d1vmaa2	213	GTPase domain of the signal recognition particle r	100.0
d1j8yf2	211	GTPase domain of the signal sequence recognition p	100.0
d1okkd2	207	GTPase domain of the signal recognition particle r	100.0
d1ls1a1	88	Signal sequence recognition protein Ffh {Thermus a	99.69
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	99.65
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	99.64
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	99.63
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	99.59
d1qzxa2	138	Signal sequence binding protein Ffh {Archaeon Sulf	99.58
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	99.54
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	99.52
d1j8yf1	84	Signal sequence recognition protein Ffh {Archaeon	99.49
d1wgwa_	99	Signal recognition particle 54 kDa protein, SRP54	99.42
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	99.37
d1hq1a_	104	Signal sequence binding protein Ffh {Escherichia c	99.25
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.23
d2ffha2	100	Signal sequence binding protein Ffh {Thermus aquat	99.2
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.14
d1qb2a_	107	SRP54M {Human (Homo sapiens) [TaxId: 9606]}	99.07
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.91
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.89
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	98.74
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.59
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	98.56
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.53
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.43
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	98.36
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	98.34
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	98.25
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	98.2
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.14
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.14
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	98.13
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	98.11
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	98.06
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	98.05
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	98.02
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	97.99
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	97.9
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	97.82
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	97.81
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.79
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	97.78
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.77
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.76
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.74
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	97.72
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	97.69
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.66
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	97.62
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.61
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.6
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	97.57
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.56
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	97.51
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.5
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.49
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.48
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.46
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.46
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	97.46
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	97.45
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	97.41
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	97.33
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	97.31
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.29
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	97.25
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	97.24
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	97.23
d1vmaa1	81	Signal recognition particle receptor, FtsY {Thermo	97.2
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	97.2
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.2
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	97.19
d1nrjb_	209	Signal recognition particle receptor beta-subunit	97.17
d1dula_	69	Signal sequence binding protein Ffh {Escherichia c	97.15
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.09
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	97.09
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	97.07
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.06
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.05
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.02
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.01
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	96.96
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.93
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	96.92
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.91
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	96.89
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.88
d2qy9a1	84	Signal recognition particle receptor, FtsY {Escher	96.88
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.82
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.8
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.79
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.77
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.75
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.75
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	96.74
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.71
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.68
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.67
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.64
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	96.61
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.61
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.58
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.57
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	96.53
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.5
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.5
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.47
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.46
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.44
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.43
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.43
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.4
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.4
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.4
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.39
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.36
d1s1ma2	266	CTP synthase PyrG, N-terminal domain {Escherichia	96.34
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.34
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.33
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	96.32
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.32
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	96.3
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.3
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.29
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.27
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.25
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.24
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.24
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.23
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.2
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.16
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.14
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	96.09
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.09
d2vo1a1	273	CTP synthase PyrG, N-terminal domain {Human (Homo	96.08
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.06
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.04
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.01
d1okkd1	58	Signal recognition particle receptor, FtsY {Thermu	95.99
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.96
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.95
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	95.93
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	95.91
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	95.9
d1vcoa2	272	CTP synthase PyrG, N-terminal domain {Thermus ther	95.88
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.87
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.85
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	95.85
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.81
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.77
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.74
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.74
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.73
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.7
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	95.68
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.67
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.67
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	95.66
d2awna2	232	Maltose transport protein MalK, N-terminal domain	95.63
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	95.62
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	95.59
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.56
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.54
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	95.51
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	95.5
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.49
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.45
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	95.42
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.42
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.4
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.38
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	95.36
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	95.36
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.32
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.3
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.29
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.29
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	95.23
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.15
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	95.14
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	95.09
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	95.06
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.04
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	95.02
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.97
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	94.95
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	94.93
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	94.93
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.92
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	94.84
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.83
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.73
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.71
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	94.65
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.58
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.57
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.56
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.56
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	94.5
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	94.47
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.47
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	94.45
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	94.3
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	94.23
d1e8ca3	234	UDP-N-acetylmuramyl tripeptide synthetase MurE {Es	94.2
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.99
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.98
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	93.96
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	93.81
d2g0ta1	338	Hypothetical protein TM0796 {Thermotoga maritima [	93.5
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.47
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.8
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	92.35
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.21
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	92.16
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.98
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	91.95
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	91.89
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	91.88
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	91.82
d1nkta3	288	Translocation ATPase SecA, nucleotide-binding doma	91.81
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.7
d1tf5a3	273	Translocation ATPase SecA, nucleotide-binding doma	91.7
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.51
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.36
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.36
d1gg4a4	214	UDP-murNac-tripeptide D-alanyl-D-alanine-adding en	91.33
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.28
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	91.27
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.22
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	91.12
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	91.03
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	90.98
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	90.92
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	90.77
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	90.63
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	90.53
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	90.48
d1eg7a_	549	Formyltetrahydrofolate synthetase {Moorella thermo	90.46
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.43
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	90.14
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	90.1
d2gc6a2	296	Folylpolyglutamate synthetase {Lactobacillus casei	89.93
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	89.47
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	89.37
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	89.14
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	88.96
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	88.84
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	88.74
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	88.62
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	88.53
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	88.41
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	88.38
d1o5za2	296	Folylpolyglutamate synthetase {Thermotoga maritima	88.05
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	87.74
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	87.68
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	87.59
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	87.51
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.5
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	87.49
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	87.42
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	87.37
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	87.3
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	87.26
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	87.24
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	87.15
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	86.77
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	86.65
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	86.55
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	86.52
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	86.44
d1u0sy_	118	CheY protein {Thermotoga maritima [TaxId: 2336]}	86.32
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	86.31
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	86.3
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	86.12
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	85.87
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	85.44
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	85.25
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.15
d1j6ua3	207	UDP-N-acetylmuramate-alanine ligase MurC {Thermoto	84.99
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	84.86
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	84.82
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	84.7
d1xpua3	289	Transcription termination factor Rho, ATPase domai	84.65
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	84.33
d1sbya1	254	Drosophila alcohol dehydrogenase {Fly (Drosophila	84.28
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	84.15
d2jfga3	204	UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase	84.05
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	83.89
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	83.04
d1p3da3	215	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	82.28
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	82.15
d1k2wa_	256	Sorbitol dehydrogenase {Rhodobacter sphaeroides [T	82.0
d2a9pa1	117	DNA-binding response regulator MicA, N-terminal do	81.97
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	81.85
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	81.33
d1peya_	119	Sporulation response regulator Spo0F {Bacillus sub	81.01
d1zema1	260	Xylitol dehydrogenase {Gluconobacter oxydans [TaxI	80.98
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	80.85
d1gega_	255	meso-2,3-butanediol dehydrogenase {Klebsiella pneu	80.78
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	80.73
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	80.67
d1xg5a_	257	Putative dehydrogenase ARPG836 (MGC4172) {Human (H	80.33

>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=100.00  E-value=6.4e-41  Score=316.20  Aligned_cols=203  Identities=44%  Similarity=0.726  Sum_probs=190.8

Q ss_pred             ccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHH
Q 011624          176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAK  255 (481)
Q Consensus       176 ~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~  255 (481)
                      ++.+.++|.||+++|++||||||+++|||++++++|++|.+|++|+||+++++||+.|++..|++++......++...++
T Consensus         2 l~~~~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~   81 (211)
T d2qy9a2           2 LNVEGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIF   81 (211)
T ss_dssp             CCCCSCTTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHH
T ss_pred             CCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHH
Confidence            44556779999999999999999999999999999999999999999999999999999999999999888889999999


Q ss_pred             HHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccC------CceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEE
Q 011624          256 QGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAIL  329 (481)
Q Consensus       256 ~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~------p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIl  329 (481)
                      +.++.++.+++|+|||||||+++.+..++.|+.++...+.      |.+++||+|++++++....+..|...+++.|+|+
T Consensus        82 ~~~~~a~~~~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lIl  161 (211)
T d2qy9a2          82 DAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITL  161 (211)
T ss_dssp             HHHHHHHHTTCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHSCCCEEEE
T ss_pred             HHHHHHHHcCCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhccCCceEEE
Confidence            9888877789999999999999999999999999987764      7899999999999988888888877899999999


Q ss_pred             cCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          330 TKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       330 nKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      ||+|++.++|.++++...+++||.|+++||+++||++|+|+++++++||
T Consensus       162 TKlDe~~~~G~~l~~~~~~~~Pi~~i~~Gq~v~Dl~~~~~~~~~~~llg  210 (211)
T d2qy9a2         162 TKLDGTAKGGVIFSVADQFGIPIRYIGVGERIEDLRPFKADDFIEALFA  210 (211)
T ss_dssp             ECCTTCTTTTHHHHHHHHHCCCEEEEECSSSGGGEEECCHHHHHHHHHC
T ss_pred             eecCCCCCccHHHHHHHHHCCCEEEEeCCCCcccCccCCHHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999999987

>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=100.00  E-value=2.6e-39  Score=305.11  Aligned_cols=199  Identities=55%  Similarity=0.868  Sum_probs=183.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++|++++|++|||||||++|||++++++|++|++|++|+||+++++|++.|++..+++++......++.+..+.+....
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~   88 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA   88 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcCCccccccccchhhHHHHHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999999998887788888877776666


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHH
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAA  341 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~  341 (481)
                      +..++|+|||||+|+.+.+...+.++.++.+...|++++||++++++++..++++.|...+++.|+|+||+|++.++|.+
T Consensus        89 ~~~~~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~~~~~~I~TKlDe~~~~G~~  168 (207)
T d1ls1a2          89 RLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAA  168 (207)
T ss_dssp             HHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHTCCCEEEEECGGGCSSCHHH
T ss_pred             hhccCcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhCCCCeeEEeecCccccchHH
Confidence            66799999999999999999999999999999999999999999999999999999988899999999999999999999


Q ss_pred             HHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcCCc
Q 011624          342 LSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG  380 (481)
Q Consensus       342 ~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lGlg  380 (481)
                      +++...+++||.|+|.||..+||++|+|+++++++||+|
T Consensus       169 l~~~~~~~~Pi~~i~~Gq~pedl~~~~~~~l~~~lLG~g  207 (207)
T d1ls1a2         169 LSARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMG  207 (207)
T ss_dssp             HHHHHHHCCCEEEEC------CCEECCHHHHHHHHTTCC
T ss_pred             HHHHHHHCCCEEEEeCCCChhhcccCCHHHHHHHHhCCC
Confidence            999999999999999999889999999999999999996

>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=100.00  E-value=2.4e-39  Score=306.15  Aligned_cols=203  Identities=44%  Similarity=0.718  Sum_probs=187.8

Q ss_pred             ccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHH
Q 011624          176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAK  255 (481)
Q Consensus       176 ~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~  255 (481)
                      +++...+|.||+++|++||||||+++|||+++.++|++|++|++|+||+++.+|++.|++..|++++......++...+.
T Consensus         4 l~~~~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~   83 (213)
T d1vmaa2           4 LNVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAF   83 (213)
T ss_dssp             CCCCSSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHH
T ss_pred             CcCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHH
Confidence            44566789999999999999999999999999999999999999999999999999999999999998888888888877


Q ss_pred             HHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccC------CceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEE
Q 011624          256 QGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAIL  329 (481)
Q Consensus       256 ~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~------p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIl  329 (481)
                      ......+.+++|+|||||||+.+.+...+.++.++.....      |++++||++++.+++....+..|...+++.|+|+
T Consensus        84 ~~~~~~~~~~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~  163 (213)
T d1vmaa2          84 DAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEAVNVTGIIL  163 (213)
T ss_dssp             HHHHHHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHHHHSCCCEEEE
T ss_pred             HHHHHHHHcCCCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhhhccccCCceEEE
Confidence            7666655679999999999999999999999999988765      7899999999999888888877777899999999


Q ss_pred             cCCCCCCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          330 TKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       330 nKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      ||+|++.++|.++++...+++||.|+++||+++||++|+|+++++++||
T Consensus       164 TKlDe~~~~G~~l~~~~~~~~Pi~~i~~Gq~v~Dl~~~~~~~l~~~llg  212 (213)
T d1vmaa2         164 TKLDGTAKGGITLAIARELGIPIKFIGVGEKAEDLRPFDPEAFVEVLLS  212 (213)
T ss_dssp             ECGGGCSCTTHHHHHHHHHCCCEEEEECSSSGGGEEECCHHHHHHHHTC
T ss_pred             ecccCCCcccHHHHHHHHHCCCEEEEeCCCCcccCccCCHHHHHHHHhC
Confidence            9999999999999999999999999999999999999999999999987

>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=100.00  E-value=1.4e-38  Score=300.49  Aligned_cols=202  Identities=44%  Similarity=0.714  Sum_probs=183.1

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHH
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQ  256 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~  256 (481)
                      ....++|.||+++|++|||||||++|||+++.++|++|.+|++|+||+++.+|++.|++..|++++......++...+.+
T Consensus         6 ~~~~k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~   85 (211)
T d1j8yf2           6 VIPDKIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKR   85 (211)
T ss_dssp             CSCSSSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHH
T ss_pred             cCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHH
Confidence            34456799999999999999999999999999999999999999999999999999999999999998888888888888


Q ss_pred             HHHHHHcCCCcEEEEcCCCCcccc--HHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          257 GLEEAKKKNVDVVIVDTAGRLQID--KAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       257 ~l~~~~~~~~D~VIIDt~G~~~~d--~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      ++..++..++|+|||||||+.+.+  ...+.++..+.....|++++||+++.++++....+..|....++.|+|+||+|+
T Consensus        86 a~~~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~TKlDe  165 (211)
T d1j8yf2          86 GVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDG  165 (211)
T ss_dssp             HHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHHCTTEEEEEECTTS
T ss_pred             HHHHhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhhcccCcceEEEecccC
Confidence            888777789999999999998765  355789999999999999999999999988888888787788999999999999


Q ss_pred             CCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhcC
Q 011624          335 DSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG  378 (481)
Q Consensus       335 ~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~lG  378 (481)
                      +.++|.++++...+++||.|++.||+++||++|+|+++++++||
T Consensus       166 t~~~G~~l~~~~~~~lPi~~it~Gq~v~DL~~~~~~~l~~~ll~  209 (211)
T d1j8yf2         166 TAKGGGALSAVAATGATIKFIGTGEKIDELEVFNPRRFVARLHH  209 (211)
T ss_dssp             CSCHHHHHHHHHTTTCCEEEEECSSSTTCEEECCHHHHHHTTCT
T ss_pred             CCcccHHHHHHHHHCcCEEEEeCCCCcccCccCCHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999998

>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=100.00  E-value=1.9e-38  Score=298.93  Aligned_cols=197  Identities=40%  Similarity=0.695  Sum_probs=183.7

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      .+|+|++++|++|||||||++|||+++.++|++|.+|++|+||+++++||+.|++..|++++......++.+.+++....
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~~~   83 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQA   83 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeccccccchhhHhhcccccCceEEeccCCccHHHHHHHHHHH
Confidence            36789999999999999999999999999999999999999999999999999999999999888888999988887776


Q ss_pred             HHcCCCcEEEEcCCCCccccHHHHHHHHhhhhcc------CCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          261 AKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVL------NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       261 ~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~------~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      .+.+++|+|||||||+.+.+..++.++.++.+..      .|++++||+|++++++....+..|...+++.|+|+||+|+
T Consensus        84 ~~~~~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~~~~lI~TKlDe  163 (207)
T d1okkd2          84 MKARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDG  163 (207)
T ss_dssp             HHHHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHHCCSEEEEECTTS
T ss_pred             HHHCCCCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhccCCceEEEeccCC
Confidence            6667899999999999999999999998887764      5799999999999988888888887789999999999999


Q ss_pred             CCchhHHHHHHHHhCCCeEEeecCCCCCCCCCcChhhHhhhhc
Q 011624          335 DSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRIL  377 (481)
Q Consensus       335 ~~~~g~~~~~~~~~glPV~~ig~g~~v~dl~~f~~~~~~~r~l  377 (481)
                      +.++|.++++...+++||.|+++||+.+||++|+|+++++++|
T Consensus       164 t~~~G~~l~~~~~~~~Pi~~i~~Gq~p~Dl~~~~~~~l~~~ll  206 (207)
T d1okkd2         164 TAKGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPEAFVEALL  206 (207)
T ss_dssp             SCCCTTHHHHHHHHCCCEEEEECSSSTTCEEECCHHHHHHHHT
T ss_pred             CCCccHHHHHHHHHCCCEEEEeCCCChHhCccCCHHHHHHHHh
Confidence            9999999999999999999999999999999999999998876

>d1ls1a1 a.24.13.1 (A:1-88) Signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Domain of the SRP/SRP receptor G-proteins
family: Domain of the SRP/SRP receptor G-proteins
domain: Signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=99.69  E-value=3.8e-17  Score=131.19  Aligned_cols=88  Identities=38%  Similarity=0.687  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHH
Q 011624           84 MFGQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRD  163 (481)
Q Consensus        84 ~~~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  163 (481)
                      ||++|+++|++++++++++..+++++|++++++|+.+|++|||+.+++++|++++++++.+.+++++++|++++++++++
T Consensus         1 MF~~L~~~l~~a~~~l~g~~~i~E~~i~~~l~eir~ALLeADV~l~vvk~f~~~ik~k~~g~~v~~~~~p~~~iikiV~d   80 (88)
T d1ls1a1           1 MFQQLSARLQEAIGRLRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEALGKQVLESLTPAEVILATVYE   80 (88)
T ss_dssp             CCHHHHHHHHHHHHTTTTSCSCCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTTTTCSCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHhHHHhhcCCCHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcC
Q 011624          164 ELVKLMGG  171 (481)
Q Consensus       164 ~L~~~l~~  171 (481)
                      ||.++||+
T Consensus        81 ELv~lLGG   88 (88)
T d1ls1a1          81 ALKEALGG   88 (88)
T ss_dssp             HHHHHTTS
T ss_pred             HHHHHhCc
Confidence            99999985

>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=99.65  E-value=3.6e-16  Score=152.48  Aligned_cols=170  Identities=18%  Similarity=0.241  Sum_probs=97.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH------------HHHHHHhhhh-------------cC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA------------IDQLVILGEQ-------------VG  238 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a------------idql~~~~~~-------------~g  238 (481)
                      ++|+++|||||||||++.+||.+|+++|+||++||+|+|.+..            .+........             .+
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~DpQ~~st~~~l~~~~~~~~~~~~~~~~~~~d~~~~~v~~~~~~~   82 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCDPKADSTRLILHSKAQNTIMEMAAEAGTVEDLELEDVLKAGYGG   82 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEECSSSCSSHHHHCCSSCCBHHHHHHTTSSGGGCCHHHHCEECGGG
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCCCCCcchhhcCCCCCCchhhhhhccCcccccccceeEeccccc
Confidence            5677899999999999999999999999999999999985432            1111100000             11


Q ss_pred             CCeecCCC---CCCHHH---HHHHHHHH-H--HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCc-ch
Q 011624          239 VPVYTAGT---EVKPSQ---IAKQGLEE-A--KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAM-TG  308 (481)
Q Consensus       239 v~v~~~~~---~~~~~~---~l~~~l~~-~--~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~-~~  308 (481)
                      +..++...   ......   .....+.. +  ...+||+|+|||||......  ...+   ......+.+++++... .+
T Consensus        83 i~~i~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~D~iiiD~pp~~~~~~--~~~~---~~~~~a~~vlv~~~~~~~s  157 (289)
T d2afhe1          83 VKCVESGGPEPGVGCAGRGVITAINFLEEEGAYEDDLDFVFYDVLGDVVCGG--FAMP---IRENKAQEIYIVCSGEMMA  157 (289)
T ss_dssp             CEEEECCCCCTTTCCHHHHHHHHHHHHHHTTCSSTTCSEEEEEEECSSCCTT--TTHH---HHTTCCCEEEEEECSSHHH
T ss_pred             ceeeccCCchhhhhhhhcchHHHHHHHHHHHHhhccCCeEeeccCCccCHHH--HHHH---HHhhccceeecccchhHHH
Confidence            22222221   111111   11111111 1  12579999999998763211  1111   1111235666666652 22


Q ss_pred             -H---HHHHHHHHh--hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCC
Q 011624          309 -Q---EAAALVTTF--NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       309 -~---~~~~~~~~f--~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                       .   .....+..+  ...+.+.|+|+|+.+..........+++.+|.++  ++..|+
T Consensus       158 ~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~~~~~~~~~~~~~g~~v--l~~IP~  213 (289)
T d2afhe1         158 MYAANNISKGIVKYANSGSVRLGGLICNSRNTDREDELIIALANKLGTQM--IHFVPR  213 (289)
T ss_dssp             HHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTTHHHHHHHHHHHHTSCE--EEEECC
T ss_pred             HHHHHHHHHHHHhhhhcccccccceeehhhcchhhHHHHHHHHHHcCCeE--EEEEec
Confidence             2   222223333  3356678999999987666555677888899998  565543

>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=99.64  E-value=1.8e-15  Score=145.72  Aligned_cols=170  Identities=17%  Similarity=0.201  Sum_probs=100.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH------------HHHHHHhhhh-----------cCCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA------------IDQLVILGEQ-----------VGVP  240 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a------------idql~~~~~~-----------~gv~  240 (481)
                      +.|+++|||||||||++++||.+|+++|++|++||+|++.+..            .+.+......           .++.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~q~~~t~~ll~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   81 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADSTRLLLGGLAQKSVLDTLREEGEDVELDSILKEGYGGIR   81 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECTTSCSSHHHHTSCCCCCHHHHHHHHGGGCCHHHHCEECGGGCE
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecCCCCCchhhhhCCCcccchhhhhhhcccccccceEEEecCCceE
Confidence            5788899999999999999999999999999999999985322            1111110000           1122


Q ss_pred             eecCCCCC---CHH--H-----HHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcc-h-
Q 011624          241 VYTAGTEV---KPS--Q-----IAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMT-G-  308 (481)
Q Consensus       241 v~~~~~~~---~~~--~-----~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~-~-  308 (481)
                      +.+.+...   ...  .     .+.+.+..+ .+.||+|+||||+...... ....+.    ...++.+++|+.+.. + 
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~l-~~~~D~viiD~p~~~~~~~-~~~~~~----~~~ad~vliv~~~~~~sl  155 (269)
T d1cp2a_          82 CVESGGPEPGVGCAGRGIITSINMLEQLGAY-TDDLDYVFYDVLGDVVCGG-FAMPIR----EGKAQEIYIVASGEMMAL  155 (269)
T ss_dssp             EEECCCCCTTSSCHHHHHHHHHHHHHHTTCC-CTTCSEEEEEEECSSCSTT-TTHHHH----TTSCCEEEEEECSSHHHH
T ss_pred             EeccCcchhhhhhcccchHHHHHHHHHHHHh-hccCCEEEeccCCccchhH-HHHHHH----hhccCceeeccchhhhHH
Confidence            22222111   101  0     111122222 3579999999998664321 111111    112367777777632 1 


Q ss_pred             ---HHHHHHHHHhh--hcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCCC
Q 011624          309 ---QEAAALVTTFN--IEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERM  361 (481)
Q Consensus       309 ---~~~~~~~~~f~--~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~v  361 (481)
                         ......++.+.  ....+.|+|+|+.+.......+..+.+.+|.|+  ++..|..
T Consensus       156 ~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~~~~~~~~~~~~~~~~~--~~~IP~d  211 (269)
T d1cp2a_         156 YAANNISKGIQKYAKSGGVRLGGIICNSRKVANEYELLDAFAKELGSQL--IHFVPRS  211 (269)
T ss_dssp             HHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSCCHHHHHHHHHHHTCCE--EEEECCC
T ss_pred             HHHHHHHHHHHhhccccceeccceEEeeecCCCccchhhhhHhhcCCeE--EEEEecC
Confidence               22333344443  344568999999987776666677888899998  6655443

>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=99.63  E-value=1.4e-15  Score=142.38  Aligned_cols=166  Identities=19%  Similarity=0.274  Sum_probs=102.2

Q ss_pred             EEEEE-EcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH----------Hhhh-----------hcCCCe
Q 011624          184 TVILL-AGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV----------ILGE-----------QVGVPV  241 (481)
Q Consensus       184 ~VI~i-~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~----------~~~~-----------~~gv~v  241 (481)
                      +||++ +++||+||||++++||.+|+++|++|++||+|++.+.....+.          ....           ..++.+
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIVDADITMANLELILGMEGLPVTLQNVLAGEARIDEAIYVGPGGVKV   81 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECCCSSSSHHHHTTCCCCCCCHHHHHTTSSCGGGGCEECGGGCEE
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCCCCCCCHHHHhCCCcCcchhhhhhccccccccccccCCcccee
Confidence            46666 4889999999999999999999999999999998764321110          0000           112233


Q ss_pred             ecCCCCCCH-----HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHH
Q 011624          242 YTAGTEVKP-----SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAAL  314 (481)
Q Consensus       242 ~~~~~~~~~-----~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~  314 (481)
                      ++.+.....     .+.+++.++.++ +.||+||||+|+....  .....+.      ..+.+++|+.+...  ....+.
T Consensus        82 l~~~~~~~~~~~~~~~~l~~~l~~l~-~~~D~viiD~~~~~~~--~~~~~l~------~ad~v~~v~~~~~~~~~~~~~~  152 (232)
T d1hyqa_          82 VPAGVSLEGLRKANPEKLEDVLTQIM-ESTDILLLDAPAGLER--SAVIAIA------AAQELLLVVNPEISSITDGLKT  152 (232)
T ss_dssp             EECCSCHHHHHHHCHHHHHHHHHHHH-HTCSEEEEECCSSSSH--HHHHHHH------HSSEEEEEECSSHHHHHHHHHH
T ss_pred             EeeecccccccccchhhHHHHHHHHh-hccceeeecccccccc--hhHHHhh------hhheeeeeccccccchhhhhhh
Confidence            333221111     123456676664 6899999999987642  2222211      13788888887322  223333


Q ss_pred             HHHh-hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCC
Q 011624          315 VTTF-NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       315 ~~~f-~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                      ...+ ..+.++.|+|+||++.....-....+.+.++.|+  ++..|.
T Consensus       153 ~~~~~~~~~~~~~iv~N~~~~~~~~~~~~~i~~~~~~~~--~~~IP~  197 (232)
T d1hyqa_         153 KIVAERLGTKVLGVVVNRITTLGIEMAKNEIEAILEAKV--IGLIPE  197 (232)
T ss_dssp             HHHHHHHTCEEEEEEEEEECTTTHHHHHHHHHHHTTSCE--EEEEEC
T ss_pred             hhhhhhcccccccccccccccccccchhhhHHhhcCCeE--EEECCC
Confidence            2222 2235678999999975443333356777789998  665543

>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=99.59  E-value=2.3e-15  Score=141.06  Aligned_cols=165  Identities=22%  Similarity=0.309  Sum_probs=100.2

Q ss_pred             CEEEEEE-cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHH----------Hhhhhc------------CC
Q 011624          183 PTVILLA-GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLV----------ILGEQV------------GV  239 (481)
Q Consensus       183 ~~VI~i~-G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~----------~~~~~~------------gv  239 (481)
                      .+||+++ ++||+||||++++||.+|+++|++|++||+|++.+.....+.          ......            +.
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D~~~~~l~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~   81 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANVEDAIYMTQFDNV   81 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTTSCCHHHHTTCCCCSSCHHHHHTTSSCGGGGCEECSSTTE
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEeCCCCCCChhHHhCCCCcccchhhhccCCCcHHHhhhccccccc
Confidence            3677776 779999999999999999999999999999987655322110          000000            00


Q ss_pred             CeecCCCCCCHH-------HHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HH
Q 011624          240 PVYTAGTEVKPS-------QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QE  310 (481)
Q Consensus       240 ~v~~~~~~~~~~-------~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~  310 (481)
                      ....  ......       +.+.+.+..++ +.||+|||||++....  .....+    .  ..+.+++|+.+...  ..
T Consensus        82 ~~~~--~~~~~~~~~~~~~~~~~~~~~~l~-~~~d~IiiD~~~~~~~--~~~~~l----~--~aD~viiv~~~~~~s~~~  150 (237)
T d1g3qa_          82 YVLP--GAVDWEHVLKADPRKLPEVIKSLK-DKFDFILIDCPAGLQL--DAMSAM----L--SGEEALLVTNPEISCLTD  150 (237)
T ss_dssp             EEEC--CCCSHHHHHHCCGGGHHHHHHTTG-GGCSEEEEECCSSSSH--HHHHHH----T--TCSEEEEEECSCHHHHHH
T ss_pred             cccc--cccchhhhhhhhhHHHHHHHHHHH-hcCCEEEEcccccccc--cchhhh----h--hhhcccccccccceecch
Confidence            0111  111111       12344555543 7899999999987642  222221    1  24888888887322  34


Q ss_pred             HHHHHHHh-hhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeEEeecCCC
Q 011624          311 AAALVTTF-NIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER  360 (481)
Q Consensus       311 ~~~~~~~f-~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~~ig~g~~  360 (481)
                      +.+.+..+ ..++++.|+|+||++...+.-.........+.|+  ++..|.
T Consensus       151 ~~~~~~~~~~~~~~~~giv~N~~~~~~~~~~~~~~~~~~~~~~--~~~IP~  199 (237)
T d1g3qa_         151 TMKVGIVLKKAGLAILGFVLNRYGRSDRDIPPEAAEDVMEVPL--LAVIPE  199 (237)
T ss_dssp             HHHHHHHHHHTTCEEEEEEEEEETSCTTCCCHHHHHHHHCSCE--EEEEEC
T ss_pred             hhHHHHHHhhhhhhhhhhhhcccccccchhhhHHHHhhcCceE--EEEeCC
Confidence            44444333 3356678999999987655433344455668887  665543

>d1qzxa2 a.36.1.1 (A:295-432) Signal sequence binding protein Ffh {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.58  E-value=9.4e-17  Score=139.60  Aligned_cols=102  Identities=24%  Similarity=0.404  Sum_probs=85.0

Q ss_pred             chhHHHHHHHHHhhchhHHHHHHHhhh--cccccHHHHHHHHhhhhccCCccccccCCCCCCCccccc----cchhhhcc
Q 011624          380 GDVLSFVEKAQEVMQQEDAEEMQKKIM--SANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQ----VREAEKSL  453 (481)
Q Consensus       380 gd~~~lve~a~e~~~~~~~~~~~~k~~--~~~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~----~~d~a~~f  453 (481)
                      ||+.+|+|++++..++++..+...++.  +++||++||++|++++.+||+++++++++||+++...+.    ....+..|
T Consensus         1 GDv~sLvEk~~~~~~~e~~~~~~~~~~~~~G~Ftl~Df~~Q~~~i~kmG~l~~im~miPG~~~~~~~~~~~~~~~~e~~l   80 (138)
T d1qzxa2           1 GDIESILEKVKGLEEYDKIQKKMEDVMEGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKI   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHC-------CCCSTTHHHHHHHHHSCSSHHHHTTCCCSSCSCSCSTTSCSSCCSSTH
T ss_pred             CChHHHHHHHHHhhcHHHHHHHHHHHHhccCCccHHHHHHHHHHHHccCcHHHHHHHHHhhcccccchhhhcccccHHHH
Confidence            789999999999988888888888886  479999999999999999999999999999987543221    12245788


Q ss_pred             hhHHHHHHccChhhhccCCcccccccCC
Q 011624          454 KIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       454 ~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      ++|++||+|||++|+.+|.+++.||++|
T Consensus        81 k~~~~Ii~SMT~~Er~~P~il~~SR~~R  108 (138)
T d1qzxa2          81 RRWLAALNSMTYKELENPNIIDKSRMRR  108 (138)
T ss_dssp             HHHTHHHHSCBHHHHHCGGGCCHHHHHH
T ss_pred             HHHHHHHHHccHHHHcCccccchHHHHH
Confidence            9999999999999999999999999876

>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=99.54  E-value=8.1e-14  Score=128.44  Aligned_cols=173  Identities=18%  Similarity=0.209  Sum_probs=104.2

Q ss_pred             EEEEEEcCC-CCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH-------HHHHHHhhhhcCCCee-------cCCCCC
Q 011624          184 TVILLAGLQ-GVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA-------IDQLVILGEQVGVPVY-------TAGTEV  248 (481)
Q Consensus       184 ~VI~i~G~~-GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a-------idql~~~~~~~gv~v~-------~~~~~~  248 (481)
                      +.+.++|.+ ||||||++++||.+|+++|+||+++|+|++....       .+.. .+....+.+..       ......
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~d~~g~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKPVASGSEKTPEGLRNSDAL-ALQRNSSLQLDYATVNPYTFAEPT   80 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECSEEESCBCCTTSCBCHHHH-HHHHTCSSCCCHHHHCSEEESSCS
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECccccCCCCCCCCcchhHHH-HHHHhhccCcccccccccccccch
Confidence            467889995 9999999999999999999999999999764211       1111 11111111110       000011


Q ss_pred             ------------CHHHHHHHHHHHHHcCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcch--HHH
Q 011624          249 ------------KPSQIAKQGLEEAKKKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEA  311 (481)
Q Consensus       249 ------------~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~  311 (481)
                                  .....+...+... ...+|++++|+++....   .......+.....    ..+++|++....  ..+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~v~~V~~~~~~~~~~~  155 (224)
T d1byia_          81 SPHIISAQEGRPIESLVMSAGLRAL-EQQADWVLVEGAGGWFTPLSDTFTFADWVTQEQ----LPVILVVGVKLGCINHA  155 (224)
T ss_dssp             CHHHHHHHHTCCCCHHHHHHHHHHH-HTTCSEEEEECSSSTTCEEETTEEHHHHHHHHT----CCEEEEEECSTTHHHHH
T ss_pred             hhhhhhhhhhhhhhHHHHHHHHhhh-hhccceEeecccccccccccccchhhccccccc----ceeeEEEeeccchhHHH
Confidence                        1112234445444 36899999999866543   1222333333332    677888877333  222


Q ss_pred             HHHHHHh-hhcCCeeEEEEcCCCCCC--chhHHHHHHHHhCCCeEEeecCCCCCCC
Q 011624          312 AALVTTF-NIEIGITGAILTKLDGDS--RGGAALSVKEVSGKPIKLVGRGERMEDL  364 (481)
Q Consensus       312 ~~~~~~f-~~~~~i~GvIlnKvD~~~--~~g~~~~~~~~~glPV~~ig~g~~v~dl  364 (481)
                      ......+ ..+..+.|+|+|+++...  +...+..+.+.+|+|+  +|..|+.++.
T Consensus       156 ~~~~~~~~~~~~~~~gvv~N~~~~~~~~~~~~~~~l~~~~gi~v--lG~IP~~~~~  209 (224)
T d1byia_         156 MLTAQVIQHAGLTLAGWVANDVTPPGKRHAEYMTTLTRMIPAPL--LGEIPWLAEN  209 (224)
T ss_dssp             HHHHHHHHHTTCCEEEEEEECCSSCCTTHHHHHHHHHHHSSSCE--EEEECCCTTC
T ss_pred             HHHHHHHhccCCccEEEEEeCcCCCchHHHHHHHHHHHHhCCCE--EEECCCCCCC
Confidence            2222222 346678999999998643  3334466777889999  7888877553

>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=99.52  E-value=1.6e-14  Score=139.99  Aligned_cols=45  Identities=38%  Similarity=0.571  Sum_probs=41.7

Q ss_pred             ccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       178 ~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +.++.|++|+++|||||||||++++||.+|+++|+||++||+|++
T Consensus         3 ~~~~~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~Dp~   47 (296)
T d1ihua1           3 FLQNIPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTDPA   47 (296)
T ss_dssp             GGSSCCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECCTT
T ss_pred             cCCCCCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCCCC
Confidence            345678999999999999999999999999999999999999985

>d1j8yf1 a.24.13.1 (F:3-86) Signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Domain of the SRP/SRP receptor G-proteins
family: Domain of the SRP/SRP receptor G-proteins
domain: Signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=99.49  E-value=7.5e-14  Score=110.84  Aligned_cols=82  Identities=21%  Similarity=0.340  Sum_probs=77.6

Q ss_pred             HHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHh
Q 011624           90 SGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLM  169 (481)
Q Consensus        90 ~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l  169 (481)
                      ++|+++++++.+...+++++|++.+++|+.+|++|||+.+++++|++++++++.++++.++.+|++++.++++++|.++|
T Consensus         3 ~~l~~a~~kl~~~~~i~E~~i~~~l~eIr~ALLeADVn~~vv~~f~~~ik~k~~~~~v~~g~~~~~~i~kiV~~eLv~lL   82 (84)
T d1j8yf1           3 DNLRDTVRKFLTGSSSYDKAVEDFIKELQKSLISADVNVKLVFSLTNKIKERLKNEKPPTYIERREWFIKIVYDELSNLF   82 (84)
T ss_dssp             HHHHHHHHHHHSCCSCHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCCCCTTCCHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHhhhhhccCCCHHHHHHHHHHHHHHHHh
Confidence            44557888999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cC
Q 011624          170 GG  171 (481)
Q Consensus       170 ~~  171 (481)
                      |+
T Consensus        83 GG   84 (84)
T d1j8yf1          83 GG   84 (84)
T ss_dssp             TC
T ss_pred             Cc
Confidence            85

>d1wgwa_ a.24.13.1 (A:) Signal recognition particle 54 kDa protein, SRP54 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Domain of the SRP/SRP receptor G-proteins
family: Domain of the SRP/SRP receptor G-proteins
domain: Signal recognition particle 54 kDa protein, SRP54
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.42  E-value=1.5e-13  Score=112.50  Aligned_cols=87  Identities=22%  Similarity=0.293  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHHHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHH
Q 011624           86 GQLTSGLEAAWNKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDEL  165 (481)
Q Consensus        86 ~~l~~~l~~~~~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L  165 (481)
                      .+|+++|.+++++|+++..+++++|++++++|+.+|+++||+..++++|.+++++++.+.++..+++|.++++++|++||
T Consensus         8 a~L~~~i~~a~~~l~~~~~i~E~~I~~~l~eI~~ALLeADVn~~vV~~f~~~Ik~k~~~~~~~~g~n~~q~i~kiV~dEL   87 (99)
T d1wgwa_           8 ADLGRKITSALRSLSNATIINEEVLNAMLKEVCTALLEADVNIKLVKQLRENVKSAIDLEEMASGLNKRKMIQHAVFKEL   87 (99)
T ss_dssp             SHHHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTTSCCSSCCCCHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHhccccccCCCHHHHHHHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCc
Q 011624          166 VKLMGGE  172 (481)
Q Consensus       166 ~~~l~~~  172 (481)
                      +++++++
T Consensus        88 v~ll~~~   94 (99)
T d1wgwa_          88 VKVKVYS   94 (99)
T ss_dssp             HHSSCSS
T ss_pred             HHHcCCC
Confidence            9999854

>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=99.37  E-value=5.7e-13  Score=128.14  Aligned_cols=43  Identities=35%  Similarity=0.434  Sum_probs=40.0

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      ++.+||+++|||||||||++++||.+|+++|++|++||+|++.
T Consensus        18 ~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~Dp~~   60 (279)
T d1ihua2          18 NEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSDPAA   60 (279)
T ss_dssp             TSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESCCC-
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCCCCC
Confidence            4578999999999999999999999999999999999999874

>d1hq1a_ a.36.1.1 (A:) Signal sequence binding protein Ffh {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Escherichia coli [TaxId: 562]

Probab=99.25  E-value=3.1e-13  Score=111.27  Aligned_cols=72  Identities=40%  Similarity=0.591  Sum_probs=42.2

Q ss_pred             ccHHHHHHHHhhhhccCCccccccCCCCCCCcccc-ccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          410 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA-QVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       410 ~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~-~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      |||+||++|++++.+||+++++++++||++++... ....++..|+++++||+|||.+|+.+|.++++||++|
T Consensus         2 Ftl~Df~~Q~~~i~kMG~l~~im~miPG~~~~~~~~~~~~~e~~lk~~~aIi~SMT~~Er~~p~~l~~SR~~R   74 (104)
T d1hq1a_           2 FDLNDFLEQLRQMKNMGGMASLMGKLPGMGQIPDNVKSQMDDKVLVRMEAIINSMTMKERAKPEIIKGSRKRR   74 (104)
T ss_dssp             CCHHHHHHHHTC----------------------------CCSSHHHHHHHHHTSCHHHHHCGGGCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHhccCHHHHHHHhhcccchhhhhhhhhHHHHHHHHHHHHHhcCHHHhhccccccccHHHH
Confidence            89999999999999999999999999998765422 2223467789999999999999999999999999876

>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=99.23  E-value=3.6e-11  Score=118.87  Aligned_cols=151  Identities=18%  Similarity=0.196  Sum_probs=92.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH-----H--HHHHhhhhcCCCeecCCCCCCHH--
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI-----D--QLVILGEQVGVPVYTAGTEVKPS--  251 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai-----d--ql~~~~~~~gv~v~~~~~~~~~~--  251 (481)
                      ++..+|.++|++|+||||++.+|+.++.+.|++|+++..||..+-.-     +  .+..+....++.+.+........  
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~gg~llgdr~rm~~~~~~~~~~ir~~~~~~~~gg~  128 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGGSILGDKTRMARLAIDRNAFIRPSPSSGTLGGV  128 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCCCSSCCGGGSTTGGGCTTEEEECCCCCSSHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccccHHHHhccccchhhHHHHhcccceeeccccccccccch
Confidence            35689999999999999999999999999999999999999865210     1  11122222233344333322222  


Q ss_pred             -HHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEc
Q 011624          252 -QIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILT  330 (481)
Q Consensus       252 -~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIln  330 (481)
                       ....+.+.-+...+||+|||+|.|..+.+... ..   +     .|-+++|+.+..|.+....-...-+-.  +-+|+|
T Consensus       129 ~~~~~~~i~~~~~~g~d~iiiETVG~gq~e~~~-~~---~-----~D~~v~v~~p~~GD~iQ~~k~gilE~a--Di~vvN  197 (323)
T d2qm8a1         129 AAKTRETMLLCEAAGFDVILVETVGVGQSETAV-AD---L-----TDFFLVLMLPGAGDELQGIKKGIFELA--DMIAVN  197 (323)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEECSSSSCHHHH-HT---T-----SSEEEEEECSCC------CCTTHHHHC--SEEEEE
T ss_pred             hHHHHHHHHhhccCCCCeEEEeehhhhhhhhhh-hc---c-----cceEEEEeeccchhhhhhhhhhHhhhh--heeeEe
Confidence             23344555555578999999999987632221 11   1     367788888877754422111111112  448999


Q ss_pred             CCCCCCchhHHH
Q 011624          331 KLDGDSRGGAAL  342 (481)
Q Consensus       331 KvD~~~~~g~~~  342 (481)
                      |.|.........
T Consensus       198 KaD~~~~~~~~~  209 (323)
T d2qm8a1         198 KADDGDGERRAS  209 (323)
T ss_dssp             CCSTTCCHHHHH
T ss_pred             ccccccchHHHH
Confidence            999665544443

>d2ffha2 a.36.1.1 (A:319-418) Signal sequence binding protein Ffh {Thermus aquaticus [TaxId: 271]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=99.20  E-value=1.5e-12  Score=106.21  Aligned_cols=69  Identities=33%  Similarity=0.545  Sum_probs=61.3

Q ss_pred             cccHHHHHHHHhhhhccCCccccccCCCCCCCccccccchhhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          409 NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       409 ~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~~~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      +||++||++|++++.+||++.++++++||+++.   . ..++..|+++++||+|||.+|+.+|.++++||++|
T Consensus         1 eFtl~Df~~Ql~~i~kmG~l~~i~~miPG~~~~---~-~~~e~~lkr~~~Ii~SMT~~Er~~p~ll~~sR~~R   69 (100)
T d2ffha2           1 ELSLEDFLKQMQNLKRLGPFSEILGLLPGVPQG---L-KVDEKAIKRLEAIVLSMTPEERKDPRILNGSRRKR   69 (100)
T ss_dssp             CCCHHHHHHHHHHHHHTCCCTTGGGTSCSCSCC---T-TSCHHHHHHHHHHHHTSCHHHHHCGGGCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhhcCHHHHHhhCcccchh---h-hhhHHHHHHHHHHHHHcCHhhccCchhccHHHHHH
Confidence            699999999999999999999999999997642   1 23356789999999999999999999999999876

>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=99.14  E-value=6.1e-11  Score=117.36  Aligned_cols=146  Identities=21%  Similarity=0.195  Sum_probs=85.9

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHH-----HHHH--HhhhhcCCCeecCCCC---CCH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAI-----DQLV--ILGEQVGVPVYTAGTE---VKP  250 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~ai-----dql~--~~~~~~gv~v~~~~~~---~~~  250 (481)
                      ++..+|.++|++|+||||++.+|+.++..+|++|.+++.||..|-.-     |..+  .+....++.+.+....   ...
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgdr~rm~~~~~~~~~~ir~~~~~g~lgg~  131 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTRMNDLARAEAAFIRPVPSSGHLGGA  131 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC---------------CTTTTCTTEEEEEECC-----CH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCCceeeeccccccchhHHHHhcccccccccccccccccccc
Confidence            35789999999999999999999999999999999999999875431     2221  1122222333332221   122


Q ss_pred             HHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEc
Q 011624          251 SQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILT  330 (481)
Q Consensus       251 ~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIln  330 (481)
                      .....+.+.-+...+||++||+|.|....+..       +..  ..+.+++|+.+..|.+....-....+-.  ..+|+|
T Consensus       132 ~~~~~~~~~~~~~~g~d~iliEtvG~gq~e~~-------i~~--~aD~~l~v~~P~~Gd~iq~~k~gi~e~a--Di~VvN  200 (327)
T d2p67a1         132 SQRARELMLLCEAAGYDVVIVETVGVGQSETE-------VAR--MVDCFISLQIAGGGDDLQGIKKGLMEVA--DLIVIN  200 (327)
T ss_dssp             HHHHHHHHHHHHHTTCSEEEEEEECCTTHHHH-------HHT--TCSEEEEEECC------CCCCHHHHHHC--SEEEEC
T ss_pred             hhhhhHHHHHHHhcCCCeEEEeeccccccchh-------hhh--ccceEEEEecCCCchhhhhhchhhhccc--cEEEEE
Confidence            33445566666667999999999998763221       111  1367788887766644321111111112  348999


Q ss_pred             CCCCCCc
Q 011624          331 KLDGDSR  337 (481)
Q Consensus       331 KvD~~~~  337 (481)
                      |.|....
T Consensus       201 KaD~~~~  207 (327)
T d2p67a1         201 KDDGDNH  207 (327)
T ss_dssp             CCCTTCH
T ss_pred             eecccch
Confidence            9997654

>d1qb2a_ a.36.1.1 (A:) SRP54M {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: SRP54M
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=4.8e-12  Score=104.84  Aligned_cols=73  Identities=23%  Similarity=0.392  Sum_probs=60.9

Q ss_pred             cccHHHHHHHHhhhhccCCccccccCCCCCCCc--cccccchhhhcchhHHHHHHccChhhhccCCc-----ccccccCC
Q 011624          409 NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKI--TPAQVREAEKSLKIMEAMIEAMTPGIFFFSII-----IIGLTFKR  481 (481)
Q Consensus       409 ~~dl~~l~~~~~~~~~~g~~~~~~~~~p~~~~~--~~~~~~d~a~~f~~~~~li~sm~~e~~~~~~l-----~~~~~~~~  481 (481)
                      +|||+||++|++++.+||+++++++++||++..  ..+...+....|+++++||+|||.+|+.+|.+     +++||++|
T Consensus         1 qFtl~Df~~Q~~~i~KMG~l~~ll~miPG~~~~~~~~~~~~~~~~~lk~~~~ii~SMT~~Er~~p~~~~~~~~~~sR~~R   80 (107)
T d1qb2a_           1 QFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQELDSTDGAKVFSKQPGRIQR   80 (107)
T ss_dssp             CCCHHHHHHHHHHHHHTHHHHHHHHHSTTSCTTTTCTTCHHHHHHHHHHHHHHHTTSCHHHHHSTTTHHHHHHSTHHHHH
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHhhccHhhcCCCchhhhhccChHHHHH
Confidence            699999999999999999999999999998642  22333334567899999999999999999974     37888776

>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=98.91  E-value=6e-09  Score=100.24  Aligned_cols=222  Identities=17%  Similarity=0.149  Sum_probs=110.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      |-|+++|+.|+||||++-.|.+....- .+..=++-..   ...|.. ......|+.+...             +..+.+
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g~~-~~~g~v~~~~---~~~D~~-~~E~~r~~si~~~-------------~~~~~~   68 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTGRI-HKIGEVHEGA---ATMDFM-EQERERGITITAA-------------VTTCFW   68 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTSS-CC-----------------------CCCCCCCS-------------EEEEEE
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcCcc-ccccceecCc---eEEecc-HHHHhcCCccccc-------------eeeecc
Confidence            568999999999999999996544321 1111000000   000000 0011122222111             011235


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-HHHHHHHHhhhcCCe-eEEEEcCCCC-CCchhH
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-EAAALVTTFNIEIGI-TGAILTKLDG-DSRGGA  340 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-~~~~~~~~f~~~~~i-~GvIlnKvD~-~~~~g~  340 (481)
                      +++.+.||||||....-    .++...+.+.  +.+++|+|+..|- .....+..+....++ .-+++||+|. .+....
T Consensus        69 ~~~~~n~iDtPG~~dF~----~e~~~~l~~~--D~avlVvda~~Gv~~~T~~~w~~a~~~~lP~i~fINKmDr~~ad~~~  142 (276)
T d2bv3a2          69 KDHRINIIDAPGHVDFT----IEVERSMRVL--DGAIVVFDSSQGVEPQSETVWRQAEKYKVPRIAFANKMDKTGADLWL  142 (276)
T ss_dssp             TTEEEEEECCCSSSSCS----TTHHHHHHHC--CEEEEEEETTTSSCHHHHHHHHHHHTTTCCEEEEEECTTSTTCCHHH
T ss_pred             CCeEEEEecCCchhhhH----HHHHHHHHhh--hheEEeccccCCcchhHHHHHHHHHHcCCCEEEEEecccccccccch
Confidence            78889999999998643    3332233332  7889999997662 222333333222232 5588999995 445544


Q ss_pred             H-HHHHHHhCCCeE--Eee--cCCCC---CCCCCcChhhHhhh-------hcCCchhHHHHHHHHHhhc---hhHHHHHH
Q 011624          341 A-LSVKEVSGKPIK--LVG--RGERM---EDLEPFYPDRMAGR-------ILGMGDVLSFVEKAQEVMQ---QEDAEEMQ  402 (481)
Q Consensus       341 ~-~~~~~~~glPV~--~ig--~g~~v---~dl~~f~~~~~~~r-------~lGlgd~~~lve~a~e~~~---~~~~~~~~  402 (481)
                      + .++...++.++.  .++  .+...   -|+..-....+...       .--..+..+..+.+++.+.   .+..++++
T Consensus       143 ~l~ei~~~l~~~~vp~~~Pig~~~~f~GvvDl~~~~a~~~~~~~g~~~~~~~ip~~~~~~~~~~~~~l~e~vae~Dd~L~  222 (276)
T d2bv3a2         143 VIRTMQERLGARPVVMQLPIGREDTFSGIIDVLRMKAYTYGNDLGTDIREIPIPEEYLDQAREYHEKLVEVAADFDENIM  222 (276)
T ss_dssp             HHHHHHHTTCCCEEECEEEESCGGGCCEEEETTTTEEEEESSSSSCCEEEECCCGGGHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHhCCCeEEEEecccCCCceeEEeeccceEEEEecCCCCccceeccCchHHHHHHHHHHHHHhhhhhcccHHHH
Confidence            4 566677887665  233  22221   11110000000000       0001123333333333331   13345677


Q ss_pred             Hhhhcc-cccHHHHHHHHhhhhccCCcc
Q 011624          403 KKIMSA-NFDFNDFLKQTRTVARMGSMS  429 (481)
Q Consensus       403 ~k~~~~-~~dl~~l~~~~~~~~~~g~~~  429 (481)
                      .+++++ +++-+++...++....-|.+-
T Consensus       223 e~yle~~e~~~eel~~~l~~a~~~g~i~  250 (276)
T d2bv3a2         223 LKYLEGEEPTEEELVAAIRKGTIDLKIT  250 (276)
T ss_dssp             HHHHHTCCCCHHHHHHHHHHHHHTTSCE
T ss_pred             HHHhcCCCCCHHHHHHHHHHHHhcCcEE
Confidence            788876 899999999888765444443

>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=98.89  E-value=8.9e-09  Score=98.64  Aligned_cols=160  Identities=16%  Similarity=0.140  Sum_probs=86.5

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-HHHHHHHHhhhcC-CeeEEEEcCCCCCCchhH
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-EAAALVTTFNIEI-GITGAILTKLDGDSRGGA  340 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-~~~~~~~~f~~~~-~i~GvIlnKvD~~~~~g~  340 (481)
                      ++++.+.+|||||...    +..++...+.+.  +.+++|+|+..|- .....+..+.... -...+++||+|.......
T Consensus        64 ~~~~~~n~iDtPGh~d----F~~e~~~al~~~--D~avlvvda~~Gv~~~t~~~~~~~~~~~~p~~i~iNk~D~~~~~~~  137 (267)
T d2dy1a2          64 FRGHRVFLLDAPGYGD----FVGEIRGALEAA--DAALVAVSAEAGVQVGTERAWTVAERLGLPRMVVVTKLDKGGDYYA  137 (267)
T ss_dssp             ETTEEEEEEECCCSGG----GHHHHHHHHHHC--SEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEECGGGCCCHHH
T ss_pred             ccccceeEEccCchhh----hhhhhhhhhccc--CceEEEeeccCCccchhHHHHHhhhhcccccccccccccccccchh
Confidence            5677899999999875    555554444443  8899999996552 1112222221122 235678999997554443


Q ss_pred             -HHHHHHHhCCCeE----EeecCCCC---CCCCC-----cChhhHhhhhcCCchhHHHHHHHHHhhch---hHHHHHHHh
Q 011624          341 -ALSVKEVSGKPIK----LVGRGERM---EDLEP-----FYPDRMAGRILGMGDVLSFVEKAQEVMQQ---EDAEEMQKK  404 (481)
Q Consensus       341 -~~~~~~~~glPV~----~ig~g~~v---~dl~~-----f~~~~~~~r~lGlgd~~~lve~a~e~~~~---~~~~~~~~k  404 (481)
                       +..+.+.++ ++.    -++.+...   -|+-.     +...... ..--.++..+.++..++.+-+   +..++++.+
T Consensus       138 ~l~~~~~~lg-~~vp~~~Pi~~~~~f~GvvDl~~~~a~~~~~~~~~-~~~ip~~~~~~~~~~r~~L~E~vae~Dd~Lle~  215 (267)
T d2dy1a2         138 LLEDLRSTLG-PILPIDLPLYEGGKWVGLIDVFHGKAYRYENGEER-EAEVPPEERERVQRFRQEVLEAIVETDEGLLEK  215 (267)
T ss_dssp             HHHHHHHHHC-SEEECEEEEEETTEEEEEEETTTTEEEEEETTEEE-EECCCGGGHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhhhHHHHhc-cCcCeEeeeccCCceeEEeecCcceEEEecCCCCc-eeeCCHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence             356667777 443    12222221   11110     0000000 001122333334444433321   334567888


Q ss_pred             hhcc-cccHHHHHHHHhhhhccCCccc
Q 011624          405 IMSA-NFDFNDFLKQTRTVARMGSMSR  430 (481)
Q Consensus       405 ~~~~-~~dl~~l~~~~~~~~~~g~~~~  430 (481)
                      ++++ +++.+++.+.++..-..|.+-+
T Consensus       216 yle~~~l~~eel~~~l~~ai~~g~i~P  242 (267)
T d2dy1a2         216 YLEGEEVTGEALEKAFHEAVRRGLLYP  242 (267)
T ss_dssp             HHHTCCCCHHHHHHHHHHHHHTTSCEE
T ss_pred             HhCCCcccHHHHHHHHHHHHHcCcEEE
Confidence            8876 8999999998887765565544

>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=98.74  E-value=3.7e-09  Score=95.94  Aligned_cols=99  Identities=21%  Similarity=0.271  Sum_probs=62.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCC---CH----HHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEV---KP----SQIAK  255 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~---~~----~~~l~  255 (481)
                      |.+|+++|.+||||||++.+||.++...|.++.++++|.+|.......      ........+...   ..    .+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D~~r~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQYRRDMVKTY------KSFEFFLPDNEEGLKIRKQCALAALN   75 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHCSC------CCGGGGCTTCHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEcccceehhhcccc------ccccccccccccchhhHHHHHHHHHH
Confidence            789999999999999999999999999999999999998875432211      001111000000   00    11223


Q ss_pred             HHHHHHHcCCCcEEEEcCCCCccccHHHHHHH
Q 011624          256 QGLEEAKKKNVDVVIVDTAGRLQIDKAMMDEL  287 (481)
Q Consensus       256 ~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el  287 (481)
                      +.+..+...+.+++|+|+......+.....++
T Consensus        76 ~~~~~~~~~~~~~vi~d~~~~~~~~r~~~~~~  107 (213)
T d1bifa1          76 DVRKFLSEEGGHVAVFDATNTTRERRAMIFNF  107 (213)
T ss_dssp             HHHHHHHTTCCSEEEEESCCCSHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCEEEeecCCccHHHHHHHHHH
Confidence            33444444667899999987655444444443

>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=98.59  E-value=2.6e-08  Score=92.23  Aligned_cols=37  Identities=27%  Similarity=0.491  Sum_probs=32.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ||+++|+.|+||||++.+|..++. .++++++|+.|+.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~-~~~~~~ivn~d~~   38 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLE-DNYKVAYVNLDTG   38 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT-TTSCEEEEECCSS
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHh-hCCeEEEEecCcc
Confidence            788999999999999999987764 5789999998874

>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=98.56  E-value=1.2e-09  Score=96.67  Aligned_cols=37  Identities=32%  Similarity=0.507  Sum_probs=33.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      +||++.|++||||||++.+|+..|..+|.++.++..+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~~   38 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFG   38 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEEHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEecC
Confidence            5999999999999999999999999999988876544

>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=98.53  E-value=1.8e-07  Score=85.69  Aligned_cols=128  Identities=20%  Similarity=0.209  Sum_probs=67.3

Q ss_pred             CEE-EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          183 PTV-ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       183 ~~V-I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      |.| |++.|+.++||||++.+|.........+.-.-  |....+..+.    ....|+.+-....             .+
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~--~~~~~d~~~e----E~~rgiTi~~~~~-------------~~   62 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVK--DYGDIDKAPE----ERARGITINTAHV-------------EY   62 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCC--CHHHHSCSHH----HHHHTCCCSCEEE-------------EE
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchh--hhhhcccchH----HhcCCeEEEeeEE-------------EE
Confidence            545 77889999999999999987665432111100  0000010000    0111222111000             11


Q ss_pred             HcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH-HHHHHHhhhcCCee--EEEEcCCCCC
Q 011624          262 KKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA-AALVTTFNIEIGIT--GAILTKLDGD  335 (481)
Q Consensus       262 ~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~-~~~~~~f~~~~~i~--GvIlnKvD~~  335 (481)
                      .++++.+.||||||...    ++.++..-+.  ..+.++||+||..|... ......+....++.  -|++||+|..
T Consensus        63 ~~~~~~i~iiDtPGh~d----f~~~~~~~~~--~aD~avlVvda~~Gv~~qt~~~~~~~~~~gi~~iiv~iNK~D~~  133 (204)
T d2c78a3          63 ETAKRHYSHVDCPGHAD----YIKNMITGAA--QMDGAILVVSAADGPMPQTREHILLARQVGVPYIVVFMNKVDMV  133 (204)
T ss_dssp             ECSSCEEEEEECCCSGG----GHHHHHHHHT--TCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCCEEEEEECGGGC
T ss_pred             EeCCeEEEEEeCCCchh----hHHHHHHHHH--HCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCeEEEEEEecccC
Confidence            24678899999999764    4455433333  34889999999655211 11122222233442  2458999964

>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=98.43  E-value=3.3e-07  Score=85.02  Aligned_cols=169  Identities=18%  Similarity=0.209  Sum_probs=90.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCC-------eecCCCCCCHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVP-------VYTAGTEVKPSQIAKQ  256 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~-------v~~~~~~~~~~~~l~~  256 (481)
                      .|.+++|.-|+||||+..+|...  ..|+|+++|-.|.-..+.-..+   ....+..       +..........+.+..
T Consensus         4 Pv~iitGFLGaGKTTll~~lL~~--~~~~riaVI~Ne~g~~~iD~~~---~~~~~~~~~el~~gcicc~~~~~~~~~l~~   78 (222)
T d1nija1           4 AVTLLTGFLGAGKTTLLRHILNE--QHGYKIAVIENEFGEVSVDDQL---IGDRATQIKTLTNGCICCSRSNELEDALLD   78 (222)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHS--CCCCCEEEECSSCCSCCEEEEE---ECTTSCEEEEETTSCEEECTTSCHHHHHHH
T ss_pred             CEEEEeeCCCCCHHHHHHHHHhc--CCCCcEEEEEecccchhhhhhh---hcccccceEEecCCcceeccchhHHHHHHH
Confidence            48899999999999998887653  4589999999884221110000   0001111       1111112233344444


Q ss_pred             HHHHHH--cCCCcEEEEcCCCCccccHHHHHHHH---hhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCC-eeEEEEc
Q 011624          257 GLEEAK--KKNVDVVIVDTAGRLQIDKAMMDELK---DVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIG-ITGAILT  330 (481)
Q Consensus       257 ~l~~~~--~~~~D~VIIDt~G~~~~d~~~~~el~---~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~-i~GvIln  330 (481)
                      .+..+.  ...+|+++|++.|..+.. .++..+.   ........+.++.|+|+............+...+. -.-||+|
T Consensus        79 ~~~~~~~~~~~~d~iiIE~sG~~~p~-~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~AD~ivlN  157 (222)
T d1nija1          79 LLDNLDKGNIQFDRLVIECTGMADPG-PIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLT  157 (222)
T ss_dssp             HHHHHHHTSCCCSEEEEEEETTCCHH-HHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHHTCSEEEEE
T ss_pred             HHHHHhhccCCcceeEEeecccchhh-HHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhhHHHHHHHHhCCccccc
Confidence            444432  236899999999986432 2222211   01112223677889999766433222111211111 2348999


Q ss_pred             CCCCCCchhHHHHHHHHh--CCCeEEeecC
Q 011624          331 KLDGDSRGGAALSVKEVS--GKPIKLVGRG  358 (481)
Q Consensus       331 KvD~~~~~g~~~~~~~~~--glPV~~ig~g  358 (481)
                      |+|.......+.......  +.||....+|
T Consensus       158 K~Dl~~~~~~~~~~l~~lNP~a~Ii~~~~g  187 (222)
T d1nija1         158 KTDVAGEAEKLHERLARINARAPVYTVTHG  187 (222)
T ss_dssp             CTTTCSCTHHHHHHHHHHCSSSCEEECCSS
T ss_pred             ccccccHHHHHHHHHHHHhCCCeEEEeeCC
Confidence            999765555555555554  4566433333

>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=98.36  E-value=3e-07  Score=80.63  Aligned_cols=42  Identities=21%  Similarity=0.136  Sum_probs=36.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~  225 (481)
                      +|+.++|.+||||||++.+|+.+|.++|++|.+|..|.+...
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik~d~~~~~   43 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGGE   43 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEECCC----
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEEeccCccc
Confidence            488999999999999999999999999999999999987543

>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=98.34  E-value=7.5e-09  Score=91.84  Aligned_cols=35  Identities=34%  Similarity=0.583  Sum_probs=32.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      ++|++.|.+||||||++..|+.+|..+|.++..+.
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~~   36 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINNKIIN   36 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence            58999999999999999999999999999987665

>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=98.25  E-value=1.5e-06  Score=75.58  Aligned_cols=40  Identities=33%  Similarity=0.377  Sum_probs=36.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +.|+++|++|+||||++..++..|...|.+|.++.+++..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~~~~v~~~~~~~~~   41 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPVDGFYTEEVR   41 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHTTCCCEEEECCEEE
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEecccc
Confidence            3688999999999999999999999999999999999764

>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=98.20  E-value=6.9e-07  Score=77.42  Aligned_cols=40  Identities=28%  Similarity=0.253  Sum_probs=36.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      |++++|++||||||++.+|+.+|.++|++|.++..|....
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~~d~~~~   43 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHHDM   43 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEeccccccc
Confidence            8999999999999999999999999999999999998753

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [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: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=98.14  E-value=4.5e-06  Score=75.68  Aligned_cols=124  Identities=19%  Similarity=0.222  Sum_probs=69.2

Q ss_pred             CEE-EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHh--hhhcCCCeecCCCCCCHHHHHHHHHH
Q 011624          183 PTV-ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVIL--GEQVGVPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       183 ~~V-I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~--~~~~gv~v~~~~~~~~~~~~l~~~l~  259 (481)
                      |.| |++.|..++||||++..|...+.+.|....       +-.  ......  ....|+.+.....             
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~-------~~~--~~~~~~~~Er~rgiTi~~~~~-------------   59 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKF-------KKY--EEIDNAPEERARGITINAAHV-------------   59 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCC-------CCH--HHHHSCCEEEETTEEEECEEE-------------
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchh-------hhh--hhcccchhhcCCCccCCcceE-------------
Confidence            545 788999999999999999776665542211       111  111111  1122332221100             


Q ss_pred             HHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HH--HHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          260 EAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QE--AAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~--~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      .+.+.++.+.+|||||...    ++.++.....  ..+.++||+|+..|   |+  ....+..+  ..+..-|++||+|.
T Consensus        60 ~~~~~~~~~~~iDtPGh~~----f~~~~~~~~~--~aD~allVVda~~G~~~QT~~~~~~a~~~--~~~~iIv~iNK~D~  131 (196)
T d1d2ea3          60 EYSTAARHYAHTDCPGHAD----YVKNMITGTA--PLDGCILVVAANDGPMPQTREHLLLARQI--GVEHVVVYVNKADA  131 (196)
T ss_dssp             EEECSSCEEEEEECSSHHH----HHHHHHHTSS--CCSEEEEEEETTTCSCHHHHHHHHHHHHT--TCCCEEEEEECGGG
T ss_pred             EEEeceeeEEeecCcchHH----HHHHHHHHHh--hcCeEEEEEEcCCCCchhHHHHHHHHHHh--cCCcEEEEEecccc
Confidence            0113567899999999643    5555533333  34889999999655   22  12222222  23334456899996


Q ss_pred             CC
Q 011624          335 DS  336 (481)
Q Consensus       335 ~~  336 (481)
                      ..
T Consensus       132 ~~  133 (196)
T d1d2ea3         132 VQ  133 (196)
T ss_dssp             CS
T ss_pred             cc
Confidence            44

>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=98.14  E-value=4e-06  Score=73.88  Aligned_cols=122  Identities=20%  Similarity=0.203  Sum_probs=64.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      .+|+++|.+||||||+...|.      |.++..+..-   +..          ........                ...
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~------~~~~~~~~~~---~~t----------t~~~~~~~----------------~~~   50 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLL------GVKVAPISPR---PQT----------TRKRLRGI----------------LTE   50 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH------TSCCSCCCSS---SCC----------CCSCEEEE----------------EEE
T ss_pred             cEEEEECCCCCCHHHHHHHHh------CCCceeeccc---CCc----------ccccccce----------------eee
Confidence            379999999999999998875      4443321111   110          00000000                012


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHh-h-hhccCCceEEEEEeCcchH-----HHHHHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKD-V-KRVLNPTEVLLVVDAMTGQ-----EAAALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~-i-~~~~~p~~vvLVvda~~~~-----~~~~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      .+..+.++||||........-..+.. . ......+-+++|+|+..+.     .....++......+ .-+|+||+|...
T Consensus        51 ~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~p-iilv~NK~Dl~~  129 (178)
T d1wf3a1          51 GRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVP-ILLVGNKLDAAK  129 (178)
T ss_dssp             TTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSC-EEEEEECGGGCS
T ss_pred             eeeeeeecccccccccccccchhcccccccccccccceeeeechhhhhcccccchhhheeccccchh-hhhhhccccccc
Confidence            45678999999986442222111111 1 1122457889999995431     12223333333333 347899999765


Q ss_pred             chhHH
Q 011624          337 RGGAA  341 (481)
Q Consensus       337 ~~g~~  341 (481)
                      .....
T Consensus       130 ~~~~~  134 (178)
T d1wf3a1         130 YPEEA  134 (178)
T ss_dssp             SHHHH
T ss_pred             CHHHH
Confidence            54433

>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=98.13  E-value=7.7e-06  Score=75.24  Aligned_cols=52  Identities=23%  Similarity=0.374  Sum_probs=45.1

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .|.++++++..       +..++++.|++|+||||++..+|..+.++|.+|++++.+--
T Consensus        14 ~LD~~l~GGi~-------~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          14 RLDEMCGGGFF-------KDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEES   65 (242)
T ss_dssp             HHHHHTTSSEE-------SSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSC
T ss_pred             HHHHhhcCCCc-------CCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeeccCC
Confidence            56777777654       46799999999999999999999999999999999999854

>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=98.11  E-value=7e-06  Score=78.01  Aligned_cols=99  Identities=24%  Similarity=0.375  Sum_probs=68.7

Q ss_pred             HHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc-CCchhHHHHHHHhhhhcCCCe
Q 011624          164 ELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD-VYRPAAIDQLVILGEQVGVPV  241 (481)
Q Consensus       164 ~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D-~~rp~aidql~~~~~~~gv~v  241 (481)
                      .|..+|| ++..       .++|+.+.|++|+||||++..++....+.|.+|++||+. .++|...+.       .|++.
T Consensus        44 ~lD~~Lg~GGip-------~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~-------~Gvd~  109 (268)
T d1xp8a1          44 SLDLALGVGGIP-------RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARA-------LGVNT  109 (268)
T ss_dssp             HHHHHTSSSSEE-------TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHH-------TTCCG
T ss_pred             HHHHHhcCCCcc-------CceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHH-------hCCCc
Confidence            5677786 5443       467999999999999999999999999999999999999 577754332       34432


Q ss_pred             ---ecCCCCCCHHHHHHHHHHHHH-cCCCcEEEEcCCCCcc
Q 011624          242 ---YTAGTEVKPSQIAKQGLEEAK-KKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       242 ---~~~~~~~~~~~~l~~~l~~~~-~~~~D~VIIDt~G~~~  278 (481)
                         +... ..+..+ ..+.++.+. .+.+++||||+.+.+.
T Consensus       110 d~i~~~~-~~~~E~-~~~~~~~l~~~~~~~liIiDSi~al~  148 (268)
T d1xp8a1         110 DELLVSQ-PDNGEQ-ALEIMELLVRSGAIDVVVVDSVAALT  148 (268)
T ss_dssp             GGCEEEC-CSSHHH-HHHHHHHHHTTTCCSEEEEECTTTCC
T ss_pred             hhEEEEc-CCCHHH-HHHHHHHHHhcCCCcEEEEecccccc
Confidence               1111 122333 334455543 3569999999987664

>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=98.06  E-value=8.3e-06  Score=77.29  Aligned_cols=100  Identities=21%  Similarity=0.393  Sum_probs=67.4

Q ss_pred             HHHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc-CCchhHHHHHHHhhhhcCCC
Q 011624          163 DELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD-VYRPAAIDQLVILGEQVGVP  240 (481)
Q Consensus       163 ~~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D-~~rp~aidql~~~~~~~gv~  240 (481)
                      .+|..+|| ++..       ..+|+.+.|++|+||||++..++....++|.+|+++|+. .|.+...       +..|++
T Consensus        40 ~~lD~~Lg~GGi~-------~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a-------~~~Gvd  105 (263)
T d1u94a1          40 LSLDIALGAGGLP-------MGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYA-------RKLGVD  105 (263)
T ss_dssp             HHHHHHTSSSSEE-------TTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHH-------HHTTCC
T ss_pred             HHHHHHhcCCCcc-------CceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHH-------HHhCCC
Confidence            36777786 5543       457999999999999999999999999999999999998 4555432       233443


Q ss_pred             e---ecCCCCCCHHHHHHHHHHHH-HcCCCcEEEEcCCCCcc
Q 011624          241 V---YTAGTEVKPSQIAKQGLEEA-KKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       241 v---~~~~~~~~~~~~l~~~l~~~-~~~~~D~VIIDt~G~~~  278 (481)
                      .   +...  .+..+...+.++.+ +....++||||+.+.+.
T Consensus       106 ~d~v~~~~--~~~~E~~~~~i~~l~~~~~~~liViDSi~al~  145 (263)
T d1u94a1         106 IDNLLCSQ--PDTGEQALEICDALARSGAVDVIVVDSVAALT  145 (263)
T ss_dssp             GGGCEEEC--CSSHHHHHHHHHHHHHHTCCSEEEEECGGGCC
T ss_pred             HHHEEEec--CCCHHHHHHHHHHHHhcCCCCEEEEECccccc
Confidence            2   1111  12233233334433 23568899999987653

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) 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: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.05  E-value=3.8e-05  Score=71.50  Aligned_cols=66  Identities=14%  Similarity=0.293  Sum_probs=40.6

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH-H--------HHHHHHHhhhcCCe--eEEEEcC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ-E--------AAALVTTFNIEIGI--TGAILTK  331 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~-~--------~~~~~~~f~~~~~i--~GvIlnK  331 (481)
                      +.++.+.||||||...    ++.++..-.  ...+.++|||||..|. +        ..+.+ .....+++  .-|++||
T Consensus        81 ~~~~~i~iiDtPGH~d----f~~~~~~g~--~~~D~ailvvda~~G~~e~g~~~~~QT~eh~-~~~~~~gv~~iiv~iNK  153 (239)
T d1f60a3          81 TPKYQVTVIDAPGHRD----FIKNMITGT--SQADCAILIIAGGVGEFEAGISKDGQTREHA-LLAFTLGVRQLIVAVNK  153 (239)
T ss_dssp             CSSEEEEEEECCCCTT----HHHHHHHSS--SCCSEEEEEEECSHHHHHHHTCTTSHHHHHH-HHHHHTTCCEEEEEEEC
T ss_pred             cCCEEEEEEECCCcHH----HHHHHHHHH--HHhCEEEEEEECCCCccccccCchHhHHHHH-HHHHHcCCCeEEEEEEC
Confidence            3578899999999865    556654333  3458899999996551 1        11111 11223444  3457999


Q ss_pred             CCCC
Q 011624          332 LDGD  335 (481)
Q Consensus       332 vD~~  335 (481)
                      +|..
T Consensus       154 mD~~  157 (239)
T d1f60a3         154 MDSV  157 (239)
T ss_dssp             GGGG
T ss_pred             CCCC
Confidence            9953

>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=98.02  E-value=1.8e-05  Score=75.05  Aligned_cols=102  Identities=21%  Similarity=0.300  Sum_probs=69.2

Q ss_pred             HHHHHhc-CccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC-CchhHHHHHHHhhhhcCCCe
Q 011624          164 ELVKLMG-GEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV-YRPAAIDQLVILGEQVGVPV  241 (481)
Q Consensus       164 ~L~~~l~-~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~-~rp~aidql~~~~~~~gv~v  241 (481)
                      .|..+|| ++..       .++++.+.|++|+||||++..++....+.|..|++||+.- +.+...+++-.  +...+-+
T Consensus        47 ~lD~~lg~gG~~-------~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~Gv--D~d~il~  117 (269)
T d1mo6a1          47 ALDVALGIGGLP-------RGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGV--DTDSLLV  117 (269)
T ss_dssp             HHHHHTSSSSBC-------SSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTC--CGGGCEE
T ss_pred             HHHHhhccCCcc-------cceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCC--CHHHeEE
Confidence            5666776 5443       4679999999999999999999999999999999999986 77776554411  1111112


Q ss_pred             ecCCCCCCHHHHHHHHHHHH-HcCCCcEEEEcCCCCcc
Q 011624          242 YTAGTEVKPSQIAKQGLEEA-KKKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       242 ~~~~~~~~~~~~l~~~l~~~-~~~~~D~VIIDt~G~~~  278 (481)
                      +.   . +..+.+.+.++.+ +.+..+++|||+.+.+.
T Consensus       118 ~~---~-~~~E~~~~~~~~l~~~~~~~liIiDSi~al~  151 (269)
T d1mo6a1         118 SQ---P-DTGEQALEIADMLIRSGALDIVVIDSVAALV  151 (269)
T ss_dssp             EC---C-SSHHHHHHHHHHHHHTTCEEEEEEECSTTCC
T ss_pred             ec---C-CCHHHHHHHHHHHHhcCCCCEEEEecccccc
Confidence            21   1 2233333444444 23568999999987764

>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=97.99  E-value=5e-06  Score=76.80  Aligned_cols=65  Identities=14%  Similarity=0.124  Sum_probs=37.2

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHHh-hhcCCeeEEEEcCCCC
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTTF-NIEIGITGAILTKLDG  334 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~f-~~~~~i~GvIlnKvD~  334 (481)
                      .+++.+.+|||||....    ..+.  ......++.+++|+||..+  ......+... ..+.+ .-+++||+|.
T Consensus        67 ~~~~~~~~iDtPGh~~f----~~~~--~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p-~iivlNK~D~  134 (227)
T d1g7sa4          67 ETLPGLFFIDTPGHEAF----TTLR--KRGGALADLAILIVDINEGFKPQTQEALNILRMYRTP-FVVAANKIDR  134 (227)
T ss_dssp             GTCCEEEEECCCTTSCC----TTSB--CSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCC-EEEEEECGGG
T ss_pred             ccccccccccccceecc----cccc--hhcccccceEEEEEecccCcccchhHHHHHhhcCCCe-EEEEEECccC
Confidence            35677999999996432    1111  1112235889999999544  2222222222 12333 4588999995

>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=97.90  E-value=1.7e-05  Score=74.57  Aligned_cols=118  Identities=19%  Similarity=0.203  Sum_probs=67.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      +--|++.|.+|+||||+...|.      |.++..++.-+  +.      +     .......                ..
T Consensus        32 ~l~I~LvG~tg~GKSSliN~il------g~~~~~vs~~~--~~------T-----~~~~~~~----------------~~   76 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSII------GERVVSISPFQ--SE------G-----PRPVMVS----------------RS   76 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH------TSCCSCCCSSS--CC------C-----SSCEEEE----------------EE
T ss_pred             CcEEEEECCCCCcHHHHHHHHh------CCCceeecCCC--Cc------c-----eeEEEEE----------------EE
Confidence            4567788999999999998886      55554332111  10      0     0000000                01


Q ss_pred             cCCCcEEEEcCCCCccc---cHHHHHHHHhhhhccCCceEEEEEeCcc---hHH---HHHHH-HHhhhcC-CeeEEEEcC
Q 011624          263 KKNVDVVIVDTAGRLQI---DKAMMDELKDVKRVLNPTEVLLVVDAMT---GQE---AAALV-TTFNIEI-GITGAILTK  331 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~---d~~~~~el~~i~~~~~p~~vvLVvda~~---~~~---~~~~~-~~f~~~~-~i~GvIlnK  331 (481)
                      ..+..++||||||....   +...+..+........++.+++|++...   ...   ....+ ..|.+.+ +..-||+||
T Consensus        77 ~~g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~  156 (257)
T d1h65a_          77 RAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTH  156 (257)
T ss_dssp             ETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEEC
T ss_pred             eccEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEEC
Confidence            24667999999998643   4455555555555445677788877632   222   22222 3343332 335689999


Q ss_pred             CCCC
Q 011624          332 LDGD  335 (481)
Q Consensus       332 vD~~  335 (481)
                      .|..
T Consensus       157 ~D~~  160 (257)
T d1h65a_         157 AQFS  160 (257)
T ss_dssp             CSCC
T ss_pred             cccC
Confidence            9964

>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=97.82  E-value=6.5e-05  Score=72.51  Aligned_cols=42  Identities=29%  Similarity=0.453  Sum_probs=38.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHH--cCCeEEEEeccCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKK--QGKSCMLVAGDVY  222 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~--~G~kVlLId~D~~  222 (481)
                      +.|.||.++|.+||||||++..|+..|.+  .|.+|.+|..|-|
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeee
Confidence            57899999999999999999999999875  3789999999987

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

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: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=97.81  E-value=8.1e-05  Score=68.43  Aligned_cols=67  Identities=18%  Similarity=0.166  Sum_probs=39.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--HHHHHHHHH-hhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--QEAAALVTT-FNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~~~~~~~~~-f~~~~~i~GvIlnKvD~~~  336 (481)
                      .+..+.||||||...    ++.++..-.  ...|.++||+|+..|  ....+.+.. ...+++-.-|++||+|...
T Consensus        87 ~~~~~~iiD~PGH~d----fv~~~~~g~--~~aD~ailVvda~~G~~~Qt~e~~~~~~~~gv~~iiv~vNK~D~~~  156 (222)
T d1zunb3          87 AKRKFIIADTPGHEQ----YTRNMATGA--STCDLAIILVDARYGVQTQTRRHSYIASLLGIKHIVVAINKMDLNG  156 (222)
T ss_dssp             SSEEEEEEECCCSGG----GHHHHHHHH--TTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCEEEEEEECTTTTT
T ss_pred             cceEEEEEeccchhh----hhhhhcccc--ccCceEEEEeccccCcccchHHHHHHHHHcCCCEEEEEEEcccccc
Confidence            456799999999865    444443322  345889999999544  222222211 1112333456799999764

>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=97.79  E-value=1.2e-05  Score=70.97  Aligned_cols=43  Identities=30%  Similarity=0.350  Sum_probs=39.0

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+|.||.++|++||||||+|..|+..|...|..+..++.|.|.
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~~~~~~   62 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDDHI   62 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhccccccceeccccccc
Confidence            4688999999999999999999999999999999988888664

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) 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: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=97.78  E-value=3.9e-05  Score=70.47  Aligned_cols=40  Identities=23%  Similarity=0.329  Sum_probs=30.0

Q ss_pred             cCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch
Q 011624          263 KKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG  308 (481)
Q Consensus       263 ~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~  308 (481)
                      ..++.+.||||||...    ++.++..-...  .|.++||||+..|
T Consensus        78 ~~~~~i~iiDtPGH~d----f~~~~~~g~~~--~D~allVVda~~G  117 (224)
T d1jnya3          78 TKKYFFTIIDAPGHRD----FVKNMITGASQ--ADAAILVVSAKKG  117 (224)
T ss_dssp             CSSCEEEECCCSSSTT----HHHHHHHTSSC--CSEEEEEEECSTT
T ss_pred             cCCceeEEeeCCCcHH----HHHHHHHHHHh--hceEEEEEecccC
Confidence            3567899999999864    66666544443  4889999999665

>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=97.77  E-value=1.1e-05  Score=69.74  Aligned_cols=42  Identities=31%  Similarity=0.493  Sum_probs=34.6

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcC-CeEEEEeccCC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQG-KSCMLVAGDVY  222 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G-~kVlLId~D~~  222 (481)
                      .++.+|.++|++||||||++..||..|..++ ..+.+++.|..
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~~~~~~   46 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGDTV   46 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhhhhhHHh
Confidence            4678999999999999999999999998765 45666666643

>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=97.76  E-value=9.9e-05  Score=68.28  Aligned_cols=61  Identities=26%  Similarity=0.475  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          156 QLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       156 ~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      ++...+.+.+..+..+..     ....|+.|++.|++|+||||++..||..+   +.....|++|.|+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~-----~~~~P~~ilL~GpPGtGKT~la~~la~~~---~~~~~~i~~d~~~~   70 (273)
T d1gvnb_          10 QFENRLNDNLEELIQGKK-----AVESPTAFLLGGQPGSGKTSLRSAIFEET---QGNVIVIDNDTFKQ   70 (273)
T ss_dssp             HHHHHHHHHHHHHHTTCC-----CCSSCEEEEEECCTTSCTHHHHHHHHHHT---TTCCEEECTHHHHT
T ss_pred             HHHHHHHHHHHHHHhccc-----CCCCCEEEEEECCCCCCHHHHHHHHHHHh---hcceEEEecHHHHH
Confidence            345556666666554322     23468999999999999999998888655   56688899998763

>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=97.74  E-value=9.2e-06  Score=74.20  Aligned_cols=45  Identities=29%  Similarity=0.390  Sum_probs=39.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchh
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~  225 (481)
                      +++.||.++|.+|+||||++..|+..|. ..+..+.++|.|.+|..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR~~   67 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIRFG   67 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHTTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHHHh
Confidence            4788999999999999999999998885 46899999999977643

>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=97.72  E-value=2.7e-05  Score=74.46  Aligned_cols=40  Identities=23%  Similarity=0.556  Sum_probs=34.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +.||.++|.+||||||++..|+..|.+.|.++++|..|.|
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsf   43 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAF   43 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGG
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCC
Confidence            3499999999999999999999999999999999999987

>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=97.69  E-value=0.00016  Score=67.59  Aligned_cols=59  Identities=20%  Similarity=0.184  Sum_probs=42.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEEeccCCchhHHHHHHHhhhhcCCCee
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK-KQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVY  242 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~-~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~  242 (481)
                      +..+++++|.+|+||||++..+|..++ .+|.+|++++.+.-......  +..+...+++..
T Consensus        34 ~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E~~~~~~~~--r~~~~~~~~~~~   93 (277)
T d1cr2a_          34 GGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEETAE--DLIGLHNRVRLR   93 (277)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSCHHHHHH--HHHHHHTTCCGG
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeeccchhhHHh--HHHHHhhcCCch
Confidence            356999999999999999999998765 67999999999854322222  233444555543

>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=97.66  E-value=0.00063  Score=59.96  Aligned_cols=28  Identities=36%  Similarity=0.576  Sum_probs=25.2

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +.+|.+|++.|++||||||++..||..|
T Consensus         3 ~~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           3 KSKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4578999999999999999999998766

>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=97.62  E-value=9.6e-05  Score=66.56  Aligned_cols=52  Identities=17%  Similarity=0.163  Sum_probs=41.3

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHH-HHcCCeEEEEeccCC
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYL-KKQGKSCMLVAGDVY  222 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L-~~~G~kVlLId~D~~  222 (481)
                      .|.++++++..       ++.++++.|++|+|||+++..++... ...+.+|++++++.-
T Consensus        14 ~LD~~l~GGi~-------~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~   66 (242)
T d1tf7a1          14 GFDDISHGGLP-------IGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEET   66 (242)
T ss_dssp             THHHHTTSSEE-------TTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSC
T ss_pred             HHHHhhcCCCc-------CCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCC
Confidence            46667766543       46799999999999999999988754 455789999998854

>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=97.61  E-value=1.1e-05  Score=71.11  Aligned_cols=43  Identities=44%  Similarity=0.671  Sum_probs=36.9

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .++.+|+++|++||||||++..||..|...+.....++.|.++
T Consensus        17 ~~g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~~d~~~   59 (195)
T d1x6va3          17 FRGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNIR   59 (195)
T ss_dssp             CCCEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEECHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccchhHHhhh
Confidence            3678999999999999999999999999888888777666443

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

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: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.60  E-value=2.3e-05  Score=73.29  Aligned_cols=64  Identities=20%  Similarity=0.282  Sum_probs=34.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH------------HHHHHHHHhhhcCCeeEEEEcC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ------------EAAALVTTFNIEIGITGAILTK  331 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~------------~~~~~~~~f~~~~~i~GvIlnK  331 (481)
                      .++.+.+|||||...    ++.++..  .....+.++||+|+..|.            +....+..+  +++..-+++||
T Consensus       100 ~~~~i~~iDtPGH~d----f~~~~~~--g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~--~i~~iiv~iNK  171 (245)
T d1r5ba3         100 EHRRFSLLDAPGHKG----YVTNMIN--GASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ--GINHLVVVINK  171 (245)
T ss_dssp             SSEEEEECCCCC-----------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT--TCSSEEEEEEC
T ss_pred             ccceeeeeccccccc----chhhhhh--hhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc--CCCeEEEEEEc
Confidence            456799999999864    4444422  223458899999996541            112222222  23334578899


Q ss_pred             CCCC
Q 011624          332 LDGD  335 (481)
Q Consensus       332 vD~~  335 (481)
                      +|..
T Consensus       172 mD~~  175 (245)
T d1r5ba3         172 MDEP  175 (245)
T ss_dssp             TTST
T ss_pred             CCCC
Confidence            9964

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) 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: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.57  E-value=2.2e-05  Score=76.96  Aligned_cols=61  Identities=23%  Similarity=0.378  Sum_probs=38.2

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---H--HHHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---Q--EAAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~--~~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      +|-+-||||||....    ..|+...+++  .|.+++|||+..|   +  ....++.  ..+++ .-+++||+|.
T Consensus        95 ~~~inliDtPGh~dF----~~ev~~al~~--~D~allVVda~eGv~~qT~~~~~~a~--~~~~p-~i~viNKiDr  160 (341)
T d1n0ua2          95 SFLINLIDSPGHVDF----SSEVTAALRV--TDGALVVVDTIEGVCVQTETVLRQAL--GERIK-PVVVINKVDR  160 (341)
T ss_dssp             EEEEEEECCCCCCSS----CHHHHHHHHT--CSEEEEEEETTTBSCHHHHHHHHHHH--HTTCE-EEEEEECHHH
T ss_pred             ceEEEEEcCCCcHHH----HHHHHHHHhh--cCceEEEEecccCcchhHHHHHHHHH--HcCCC-eEEEEECccc
Confidence            455779999998764    3444334443  3889999999655   1  2233333  22333 4578999994

>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=97.56  E-value=5.2e-05  Score=64.12  Aligned_cols=35  Identities=23%  Similarity=0.326  Sum_probs=25.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +++|+++|++||||||++..|+.    .......++.|.
T Consensus         2 kklIii~G~pGsGKTTla~~L~~----~~~~~~~~~~d~   36 (152)
T d1ly1a_           2 KKIILTIGCPGSGKSTWAREFIA----KNPGFYNINRDD   36 (152)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH----HSTTEEEECHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH----hCCCCEEechHH
Confidence            36889999999999999877643    334566666663

>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=97.51  E-value=0.00041  Score=64.47  Aligned_cols=42  Identities=19%  Similarity=0.201  Sum_probs=35.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHH----------cCCeEEEEeccCCch
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKK----------QGKSCMLVAGDVYRP  224 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~----------~G~kVlLId~D~~rp  224 (481)
                      ..+.+++|.+|+||||++..||..++.          .+.+|++++++....
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~~~   80 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPT   80 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccchHH
Confidence            458889999999999999999998774          234899999987643

>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=97.50  E-value=7.2e-05  Score=65.86  Aligned_cols=38  Identities=26%  Similarity=0.424  Sum_probs=28.1

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+|.+|+++|++||||||++.+|+.   ..|+  ..|+.|.++
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~---~~~~--~~i~~D~~~   49 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV---SAGY--VHVNRDTLG   49 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG---GGTC--EEEEHHHHC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH---hcCC--EEEchHHHH
Confidence            4689999999999999999987753   2233  456666543

>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=97.49  E-value=1.7e-05  Score=68.71  Aligned_cols=39  Identities=31%  Similarity=0.434  Sum_probs=31.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+++|+++|++||||||++..|+.   +.|.++..++.|.++
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~---~lg~~~~~~~~d~~~   41 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN---LPGVPKVHFHSDDLW   41 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT---CSSSCEEEECTTHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH---HhCCCEEEecHHHHH
Confidence            478999999999999999877753   237888888888654

>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=97.48  E-value=3.5e-05  Score=69.60  Aligned_cols=41  Identities=27%  Similarity=0.488  Sum_probs=35.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-----CCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-----GKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-----G~kVlLId~D~~  222 (481)
                      .|.||+++|++||||||++..|+..|...     +.+|.++..|-|
T Consensus         1 ~P~iIgI~G~~gSGKSTla~~L~~~l~~~~~~~~~~~~~vi~~D~y   46 (213)
T d1uj2a_           1 EPFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSF   46 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhchhccccCCCceEEEecccc
Confidence            38899999999999999999999988754     457999999975

>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=97.46  E-value=2.5e-05  Score=67.31  Aligned_cols=39  Identities=21%  Similarity=0.259  Sum_probs=32.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      ++||+++|++||||||++..|+..|   |..+..++.|.+..
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l---~~~~~~~~~d~~~~   41 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL---PEPWLAFGVDSLIE   41 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS---SSCEEEEEHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc---CCCeEEeecchhhc
Confidence            5699999999999999999998765   56777778887653

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {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: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.46  E-value=0.00021  Score=71.32  Aligned_cols=66  Identities=11%  Similarity=0.125  Sum_probs=36.0

Q ss_pred             CCcEEEEcCCCCcccc---HHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          265 NVDVVIVDTAGRLQID---KAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d---~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      ...++|+||||.....   ...+.+.    .....+-+++|.|......-...++.....-...-+|+||+|.
T Consensus       106 ~~~~~l~DtPG~~~~~~~~~~~~~~~----~~~~~d~~l~~~~~~~~~~d~~l~~~l~~~~k~~~~V~nK~D~  174 (400)
T d1tq4a_         106 IPNVVFWDLPGIGSTNFPPDTYLEKM----KFYEYDFFIIISATRFKKNDIDIAKAISMMKKEFYFVRTKVDS  174 (400)
T ss_dssp             CTTEEEEECCCGGGSSCCHHHHHHHT----TGGGCSEEEEEESSCCCHHHHHHHHHHHHTTCEEEEEECCHHH
T ss_pred             CCeEEEEeCCCcccccccHHHHHHHh----hhhcceEEEEecCCCCCHHHHHHHHHHHHcCCCEEEEEeCccc
Confidence            4469999999976432   2222221    1222355666666643333334444433222345689999984

>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=97.46  E-value=0.00012  Score=64.11  Aligned_cols=19  Identities=26%  Similarity=0.485  Sum_probs=16.9

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||+...|.
T Consensus         4 VaivG~~nvGKSTLin~L~   22 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMT   22 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6788999999999998874

>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=97.45  E-value=0.0043  Score=56.31  Aligned_cols=42  Identities=29%  Similarity=0.366  Sum_probs=35.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc-CCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ-GKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~kVlLId~D~~r  223 (481)
                      .|..++++|++|+||||++..|+..+... +.++..+.+..+.
T Consensus        42 ~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~   84 (276)
T d1fnna2          42 HYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYR   84 (276)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCC
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhh
Confidence            46789999999999999999999998754 5777777776655

>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=97.41  E-value=0.00024  Score=61.41  Aligned_cols=20  Identities=40%  Similarity=0.630  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      .|+++|.+||||||++.+|.
T Consensus         2 ~V~liG~~n~GKSsLi~~L~   21 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLV   21 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            57899999999999999886

>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=97.33  E-value=0.00021  Score=68.07  Aligned_cols=43  Identities=30%  Similarity=0.388  Sum_probs=37.1

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc---CCeEEEEeccCC
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYLKKQ---GKSCMLVAGDVY  222 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~---G~kVlLId~D~~  222 (481)
                      .++|.+|.++|.+||||||++..|...|.++   +.+|.++..|-|
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~Ddf   69 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDF   69 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGG
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCC
Confidence            3468999999999999999999999888764   467999999976

>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=97.31  E-value=0.00026  Score=62.13  Aligned_cols=67  Identities=21%  Similarity=0.327  Sum_probs=38.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchH--HHHHHHHHh-hhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQ--EAAALVTTF-NIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~--~~~~~~~~f-~~~~~i~GvIlnKvD~~~~  337 (481)
                      .++.+.++|+||...    +..++.....  ..+.+++|+|+..+.  ......... ..+++ ..+++||+|....
T Consensus        57 ~~~~~~~~d~~g~~~----~~~~~~~~l~--~~d~~ilv~d~~~g~~~~~~~~~~~~~~~~~p-~iiv~NKiD~~~~  126 (179)
T d1wb1a4          57 ENYRITLVDAPGHAD----LIRAVVSAAD--IIDLALIVVDAKEGPKTQTGEHMLILDHFNIP-IIVVITKSDNAGT  126 (179)
T ss_dssp             TTEEEEECCCSSHHH----HHHHHHHHTT--SCCEEEEEEETTTCSCHHHHHHHHHHHHTTCC-BCEEEECTTSSCH
T ss_pred             CCccccccccccccc----cccchhhhhh--hccccccccccccccchhhhhhhhhhhhcCCc-ceeccccccccCH
Confidence            456688999998642    3444433333  347889999996541  112222211 12233 4588999997543

>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=97.29  E-value=0.00028  Score=60.95  Aligned_cols=25  Identities=44%  Similarity=0.691  Sum_probs=22.3

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQ  210 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~  210 (481)
                      |+++|++|+||||++..++..+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCC
Confidence            7889999999999999999888654

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {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: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=97.25  E-value=0.00015  Score=65.27  Aligned_cols=63  Identities=19%  Similarity=0.155  Sum_probs=36.8

Q ss_pred             cEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch--H----HHHHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          267 DVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG--Q----EAAALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       267 D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~--~----~~~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+|||||...    +..++..-  ....+.+++|+|+..+  +    +....+..+  .....-|++||+|....
T Consensus        87 ~~~iiD~PGH~d----f~~~~~~~--~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~--~i~~iIV~vNK~Dl~~~  155 (205)
T d2qn6a3          87 RISFIDAPGHEV----LMATMLSG--AALMDGAILVVAANEPFPQPQTREHFVALGII--GVKNLIIVQNKVDVVSK  155 (205)
T ss_dssp             EEEEEECSCHHH----HHHHHHHT--SSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT--TCCCEEEEEECGGGSCH
T ss_pred             EEEEeccchHHH----HHhhhhcc--eeccccccccccccccccchhHHHHHHHHHHc--CCceeeeccccCCCccc
Confidence            488999999753    44444222  2345889999999544  1    122222222  22223456899997543

>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=97.24  E-value=0.00075  Score=58.50  Aligned_cols=20  Identities=40%  Similarity=0.642  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+||||||+...|.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~   21 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLT   21 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47889999999999998885

>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=97.23  E-value=0.00033  Score=63.22  Aligned_cols=54  Identities=22%  Similarity=0.297  Sum_probs=41.4

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH------HcCCeEEEEeccCCc
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLK------KQGKSCMLVAGDVYR  223 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~------~~G~kVlLId~D~~r  223 (481)
                      ..|.++++++..       +.+++.++|++|+||||++..++....      ..|.++++++.....
T Consensus        21 ~~LD~ll~GGi~-------~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~   80 (251)
T d1szpa2          21 KNLDTLLGGGVE-------TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTF   80 (251)
T ss_dssp             HHHHHHHTSSEE-------SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCC
T ss_pred             HHHHhhhCCCCc-------CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchH
Confidence            356677776554       457999999999999999999986543      346789999888643

>d1vmaa1 a.24.13.1 (A:1-81) Signal recognition particle receptor, FtsY {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Domain of the SRP/SRP receptor G-proteins
family: Domain of the SRP/SRP receptor G-proteins
domain: Signal recognition particle receptor, FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.20  E-value=0.00014  Score=56.07  Aligned_cols=56  Identities=20%  Similarity=0.368  Sum_probs=43.4

Q ss_pred             HHHHHHHHHHHHHHHHHh-------hCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHH
Q 011624           82 AEMFGQLTSGLEAAWNKL-------KGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQ  141 (481)
Q Consensus        82 ~~~~~~l~~~l~~~~~~~-------~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~  141 (481)
                      +++|++|.++|.++-+++       .+.+.+++    +.+++|++.|+.+||+++++.+|+++++++
T Consensus         1 Mg~f~klk~gL~KTr~~~~~~l~~lf~~~~iDe----~~leeLEe~LI~aDvGv~tt~~Ii~~lr~~   63 (81)
T d1vmaa1           1 MGLFDFLKKGLQKTKETFFGRVVKLLKGKKLDD----ETREELEELLIQADVGVETTEYILERLEEK   63 (81)
T ss_dssp             -CHHHHHHHHHHHHHHHTHHHHHHHHTTCCCCH----HHHHHHHHHHHHTTCCHHHHHHHHHHHTTC
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            357888888888776554       33444553    468899999999999999999999999653

>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=97.20  E-value=0.0027  Score=56.60  Aligned_cols=40  Identities=28%  Similarity=0.414  Sum_probs=33.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++.|++-|..||||||.+..|+.+|.+.|.++.++.-.|.
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~~ep~   41 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFTREPG   41 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEecCCC
Confidence            4688999999999999999999999999987665654443

>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=97.20  E-value=0.00012  Score=62.82  Aligned_cols=40  Identities=28%  Similarity=0.552  Sum_probs=31.6

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~  225 (481)
                      +.++|++++|++||||||++..|+..|   |.  ..++.|.++..
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l---~~--~~~~~d~~~~~   43 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL---HA--AFLDGDFLHPR   43 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH---TC--EEEEGGGGCCH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh---CC--CeechhhhhHH
Confidence            468899999999999999999999877   33  33566766544

>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=97.19  E-value=8.9e-05  Score=63.28  Aligned_cols=19  Identities=32%  Similarity=0.597  Sum_probs=17.3

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||+...|.
T Consensus         3 I~liG~~n~GKSSLin~l~   21 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLL   21 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6889999999999998885

>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=97.17  E-value=0.00058  Score=60.48  Aligned_cols=20  Identities=40%  Similarity=0.567  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      .|+++|.+||||||+..+|.
T Consensus         5 ~V~lvG~~n~GKTSLln~l~   24 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLT   24 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            56788999999999998885

>d1dula_ a.36.1.1 (A:) Signal sequence binding protein Ffh {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Signal peptide-binding domain
superfamily: Signal peptide-binding domain
family: Signal peptide-binding domain
domain: Signal sequence binding protein Ffh
species: Escherichia coli [TaxId: 562]

Probab=97.15  E-value=1.9e-05  Score=58.77  Aligned_cols=33  Identities=36%  Similarity=0.268  Sum_probs=29.9

Q ss_pred             hhhcchhHHHHHHccChhhhccCCcccccccCC
Q 011624          449 AEKSLKIMEAMIEAMTPGIFFFSIIIIGLTFKR  481 (481)
Q Consensus       449 ~a~~f~~~~~li~sm~~e~~~~~~l~~~~~~~~  481 (481)
                      ++..|+++++||+|||.+|+.+|.+++.||++|
T Consensus         8 dek~l~r~eaiI~SMT~~ER~~P~ll~~SR~~R   40 (69)
T d1dula_           8 EQKVLVRMEAIINSMTMKERAKPEIIKGSRKRR   40 (69)
T ss_dssp             HCCHHHHHHHHHHTSCHHHHHCGGGCCHHHHHH
T ss_pred             CHHHHHHHHHHHHcCCHHHHhChHhhchhHHHH
Confidence            356789999999999999999999999998876

>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=97.09  E-value=0.00012  Score=62.46  Aligned_cols=35  Identities=31%  Similarity=0.602  Sum_probs=27.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ++|+++|++||||||++..|+..+   +. ..+++.|.+
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~---~~-~~~~~~d~~   37 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL---DN-SAYIEGDII   37 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS---SS-EEEEEHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc---CC-CEEEehHHH
Confidence            689999999999999999998655   33 345666654

>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=97.09  E-value=0.00032  Score=59.68  Aligned_cols=70  Identities=20%  Similarity=0.309  Sum_probs=36.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHH-HHhh-hhccCCceEEEEEeCcch-----HHH-HHHHHHhhhcCCeeEEEEcCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDE-LKDV-KRVLNPTEVLLVVDAMTG-----QEA-AALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~e-l~~i-~~~~~p~~vvLVvda~~~-----~~~-~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      .+..+.++|+||........... +... ......+.+++++|+...     ... ....+......++ -+|+||+|.
T Consensus        47 ~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~i-ilv~NK~Dl  124 (161)
T d2gj8a1          47 DGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPI-TVVRNKADI  124 (161)
T ss_dssp             TTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCCE-EEEEECHHH
T ss_pred             cCceeeeccccccccccccchhHHHHHHHHHHHhccccceeeccccccchhhhhhhhhhhhhcccccce-eeccchhhh
Confidence            45678899999976542221111 1111 112235677888887432     121 2233333334444 489999994

>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=97.07  E-value=0.00026  Score=64.08  Aligned_cols=37  Identities=35%  Similarity=0.495  Sum_probs=33.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      ++.+|+|.|+-||||||.+..|+.+|..+|++|.++.
T Consensus         2 rG~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           2 RGALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            4578999999999999999999999999999998665

>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=97.06  E-value=0.00012  Score=62.99  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=23.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++.|+++|++||||||++..||..|
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            5789999999999999999999866

>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=97.05  E-value=0.00011  Score=61.83  Aligned_cols=31  Identities=35%  Similarity=0.513  Sum_probs=24.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .|+++|++||||||++..||..|   |..+  ++.|
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L---~~~~--id~~   34 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQL---NMEF--YDSD   34 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT---TCEE--EEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh---CCCe--Eeec
Confidence            57888999999999999999766   5554  4555

>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=97.02  E-value=0.00016  Score=62.18  Aligned_cols=26  Identities=35%  Similarity=0.548  Sum_probs=22.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ++..|+++|++||||||++..||..|
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            45678999999999999999988665

>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=97.01  E-value=0.00048  Score=62.54  Aligned_cols=86  Identities=23%  Similarity=0.281  Sum_probs=55.9

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCC
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKN  265 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~  265 (481)
                      +.+.|++|+|||.++.+++..+.++|++|.++++.-+.....+.+..     +          ...    +..+.+  ..
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~----------~~~----~~~~~~--~~   97 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKK-----G----------TIN----EFRNMY--KS   97 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHH-----T----------CHH----HHHHHH--HT
T ss_pred             EEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHc-----c----------chh----hHHHHH--hh
Confidence            67899999999999999999999999999988877543322222100     0          011    222233  47


Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhh
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKR  292 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~  292 (481)
                      +|+++||-..........-.++-.+.+
T Consensus        98 ~dll~iDDi~~i~~~~~~~~~lf~lin  124 (213)
T d1l8qa2          98 VDLLLLDDVQFLSGKERTQIEFFHIFN  124 (213)
T ss_dssp             CSEEEEECGGGGTTCHHHHHHHHHHHH
T ss_pred             ccchhhhhhhhhcCchHHHHHHHHHHH
Confidence            899999998776544333333333333

>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=96.96  E-value=0.0017  Score=56.41  Aligned_cols=21  Identities=24%  Similarity=0.385  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      --|+++|.+||||||+..+|.
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~   29 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAIL   29 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            457888999999999998885

>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=96.93  E-value=0.00037  Score=62.79  Aligned_cols=53  Identities=23%  Similarity=0.359  Sum_probs=41.0

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcC----------------CeEEEEeccCC
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQG----------------KSCMLVAGDVY  222 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G----------------~kVlLId~D~~  222 (481)
                      ..|.++++++..       +..+++++|.+|+||||++..+|..++..|                .+|++++++..
T Consensus        21 ~~LD~ll~GGl~-------~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~   89 (258)
T d2i1qa2          21 SELDSVLGGGLE-------SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGT   89 (258)
T ss_dssp             HHHHHHTTSSEE-------TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSC
T ss_pred             HHHHHhcCCCcc-------CCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCC
Confidence            356777776543       468999999999999999999998876543                46778887643

>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=96.92  E-value=0.0011  Score=56.70  Aligned_cols=82  Identities=16%  Similarity=0.135  Sum_probs=47.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH------HHHHHHhhhcCCeeEEEEcCCCCCC--
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA------AALVTTFNIEIGITGAILTKLDGDS--  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~------~~~~~~f~~~~~i~GvIlnKvD~~~--  336 (481)
                      .+.+.+.||+|...... +...   .  ....+.+++|.|.....+.      ...+..+..+.++ -+|.||+|...  
T Consensus        50 ~~~~~i~d~~g~~~~~~-~~~~---~--~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~i-ilVgnK~Dl~~~~  122 (164)
T d1z2aa1          50 DVRLMLWDTAGQEEFDA-ITKA---Y--YRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIPT-ALVQNKIDLLDDS  122 (164)
T ss_dssp             EEEEEEECCTTGGGTTC-CCHH---H--HTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCCE-EEEEECGGGGGGC
T ss_pred             eeeeeeeccCCccchhh-hhhh---h--hccCceEEEEEeccchhhhhhcccccccccccCCCceE-EEeeccCCcccce
Confidence            46788999998653211 1111   1  1134778899998654332      2233344444444 46779999532  


Q ss_pred             --chhHHHHHHHHhCCCeE
Q 011624          337 --RGGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 --~~g~~~~~~~~~glPV~  353 (481)
                        ....+...+...+.|+.
T Consensus       123 ~v~~~~~~~~~~~~~~~~~  141 (164)
T d1z2aa1         123 CIKNEEAEGLAKRLKLRFY  141 (164)
T ss_dssp             SSCHHHHHHHHHHHTCEEE
T ss_pred             eeeehhhHHHHHHcCCEEE
Confidence              23445677788888763

>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=96.91  E-value=0.00024  Score=60.75  Aligned_cols=28  Identities=46%  Similarity=0.631  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEE
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCM  215 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVl  215 (481)
                      .|+++|++||||||++..||..|   |+.+.
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l---~~~~i   33 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKS---GLKYI   33 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHH---CCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH---CCcEE
Confidence            35588999999999999998655   66654

>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=96.89  E-value=0.0012  Score=56.91  Aligned_cols=83  Identities=14%  Similarity=0.169  Sum_probs=46.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.+.||||.-.. .    .+... ....++.+++|.|....++....      .......-...-+|.||.|.... 
T Consensus        53 ~~~l~~wDt~G~e~~-~----~~~~~-~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~  126 (169)
T d3raba_          53 RIKLQIWDTAGQERY-R----TITTA-YYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDER  126 (169)
T ss_dssp             EEEEEEEEECCSGGG-H----HHHHT-TTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGC
T ss_pred             eEEEEEEECCCchhh-H----HHHHH-HHhcCCEEEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeeccccccc
Confidence            456788999996421 1    11111 12245888999998665433222      12222222234467799996432 


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+...+...+.|+.
T Consensus       127 ~v~~~~~~~~~~~~~~~~~  145 (169)
T d3raba_         127 VVSSERGRQLADHLGFEFF  145 (169)
T ss_dssp             CSCHHHHHHHHHHHTCEEE
T ss_pred             ccchhhhHHHHHHcCCEEE
Confidence               2344566777888763

>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=96.88  E-value=0.0029  Score=58.92  Aligned_cols=38  Identities=24%  Similarity=0.379  Sum_probs=30.6

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ..|+-+++.||+|+|||+++..||..+   |..+..+++..
T Consensus        43 ~~~~~iLL~GppGtGKT~la~~iA~~~---~~~~~~i~~~~   80 (256)
T d1lv7a_          43 KIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPFFTISGSD   80 (256)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCEEEECSCS
T ss_pred             CCCCeEEeeCCCCCCccHHHHHHHHHc---CCCEEEEEhHH
Confidence            357789999999999999999998766   66777666643

>d2qy9a1 a.24.13.1 (A:201-284) Signal recognition particle receptor, FtsY {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Domain of the SRP/SRP receptor G-proteins
family: Domain of the SRP/SRP receptor G-proteins
domain: Signal recognition particle receptor, FtsY
species: Escherichia coli [TaxId: 562]

Probab=96.88  E-value=0.001  Score=51.31  Aligned_cols=67  Identities=18%  Similarity=0.331  Sum_probs=51.3

Q ss_pred             HHhhCCCCCChhhhHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhcC
Q 011624           97 NKLKGEETLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGG  171 (481)
Q Consensus        97 ~~~~~~~~~~~~~i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~~  171 (481)
                      ..+.+.+.++    ++.+++|++.|+.+||+++++.+|++.+++.....+    ....+.+...+.+++.++|.+
T Consensus        15 ~~l~~~~~id----~~~leeLEe~LI~aDvG~~tt~~ii~~lk~~~~~~~----~~~~~~l~~~L~~~i~~iL~~   81 (84)
T d2qy9a1          15 ISLFRGKKID----DDLFEELEEQLLIADVGVETTRKIITNLTEGASRKQ----LRDAEALYGLLKEEMGEILAK   81 (84)
T ss_dssp             HHHHTTCBCS----HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT----CCBGGGHHHHHHHHHHHHHHT
T ss_pred             HHHHCCCCCC----HHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHhhcC----CCCHHHHHHHHHHHHHHHhch
Confidence            3333334565    356889999999999999999999999998875543    344566788899999988853

>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=96.82  E-value=0.00038  Score=61.37  Aligned_cols=37  Identities=35%  Similarity=0.601  Sum_probs=28.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      |.+|++.|++||||||.+..||..|   |... +-..|.+|
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~---g~~~-i~~g~llR   37 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY---GYTH-LSAGELLR   37 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH---CCEE-EEHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh---CCce-EcHHHHHH
Confidence            6789999999999999999999766   6544 34445444

>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=96.80  E-value=0.00069  Score=61.60  Aligned_cols=52  Identities=25%  Similarity=0.362  Sum_probs=40.6

Q ss_pred             HHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc------CCeEEEEeccCC
Q 011624          164 ELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ------GKSCMLVAGDVY  222 (481)
Q Consensus       164 ~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~------G~kVlLId~D~~  222 (481)
                      .|..+++++..       +.++++++|++|+||||++..+|...+.+      |.++..+++..-
T Consensus        24 ~LD~ll~GGlp-------~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (254)
T d1pzna2          24 SLDKLLGGGIE-------TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENT   81 (254)
T ss_dssp             HHHHHHTSSEE-------SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSC
T ss_pred             HHHHhhcCCcc-------CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccch
Confidence            56667777654       56899999999999999999999877632      567887777643

>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=96.79  E-value=0.0015  Score=56.16  Aligned_cols=84  Identities=18%  Similarity=0.147  Sum_probs=46.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH------HHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA------AALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~------~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.+.++||||.-..     ..+... .....+.+++|.|.....+.      ...+........+..+|.||.|....
T Consensus        52 ~~~~l~i~Dt~G~e~~-----~~~~~~-~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~  125 (171)
T d2ew1a1          52 EKVKLQIWDTAGQERF-----RSITQS-YYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAER  125 (171)
T ss_dssp             EEEEEEEEEECCSGGG-----HHHHGG-GSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGG
T ss_pred             EEEEEEEEECCCchhh-----HHHHHH-HHhccceEEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccc
Confidence            3567889999996321     111111 12245778889887554322      12222222223345678899995432


Q ss_pred             ----hhHHHHHHHHhCCCeE
Q 011624          338 ----GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV~  353 (481)
                          ...+...+...+.|+.
T Consensus       126 ~~v~~~~~~~~~~~~~~~~~  145 (171)
T d2ew1a1         126 REVSQQRAEEFSEAQDMYYL  145 (171)
T ss_dssp             CSSCHHHHHHHHHHHTCCEE
T ss_pred             cchhhhHHHHHHHhCCCEEE
Confidence                2345667777888873

>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=96.77  E-value=0.00038  Score=60.95  Aligned_cols=41  Identities=27%  Similarity=0.312  Sum_probs=33.1

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHc
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQ  210 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~  210 (481)
                      ..|.++++++..       +..++.++|++|+||||++..+|...+..
T Consensus        10 ~~LD~ll~GGi~-------~G~v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          10 KELDKLLQGGIE-------TGSITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             HHHHHHTTTSEE-------TTSEEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             HHHHHhhcCCCc-------CCEEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            356777876654       45799999999999999999999877654

>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=96.75  E-value=0.00067  Score=60.22  Aligned_cols=37  Identities=30%  Similarity=0.476  Sum_probs=33.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +|+|.|.-||||||.+..|+..|..+|.+|.++.-..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~~P~   38 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAFPR   38 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecCC
Confidence            6888999999999999999999999999998775543

>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=96.75  E-value=0.0012  Score=56.25  Aligned_cols=67  Identities=13%  Similarity=0.161  Sum_probs=35.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HHHHHHHHHh----hhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QEAAALVTTF----NIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~~~~~~~~f----~~~~~i~GvIlnKvD~~~  336 (481)
                      +++.+.++|+||.-.    ........  ....+.+++|+|....   .++.......    ...-.+.-+|.||.|...
T Consensus        44 ~~~~~~~~D~~G~~~----~~~~~~~~--~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~  117 (165)
T d1ksha_          44 RGFKLNIWDVGGQKS----LRSYWRNY--FESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG  117 (165)
T ss_dssp             TTEEEEEEEECCSHH----HHTTGGGG--CTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             cccceeeeecCcchh----hhhHHHhh--hhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCceEEEEecccccc
Confidence            567799999998531    11111111  1235788999998543   2322222211    111224557889999653

>d2akab1 c.37.1.8 (B:6-304) Dynamin G 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: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.74  E-value=0.0016  Score=61.38  Aligned_cols=72  Identities=19%  Similarity=0.220  Sum_probs=39.3

Q ss_pred             CcEEEEcCCCCcccc-----HHHHHHHHhhh--hccCCceE-EEEEeCcc---hHHHHHHHHHhhhcCCeeEEEEcCCCC
Q 011624          266 VDVVIVDTAGRLQID-----KAMMDELKDVK--RVLNPTEV-LLVVDAMT---GQEAAALVTTFNIEIGITGAILTKLDG  334 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d-----~~~~~el~~i~--~~~~p~~v-vLVvda~~---~~~~~~~~~~f~~~~~i~GvIlnKvD~  334 (481)
                      .+++||||||.....     ......+..+.  ....++.+ ++|.++..   .......++.+++...-.-+|+||+|.
T Consensus       125 ~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~~~~r~i~Vltk~D~  204 (299)
T d2akab1         125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQRTIGVITKLDL  204 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSSEEEEEECGGG
T ss_pred             CCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCcCCCceeeEEecccc
Confidence            468999999986431     11111111111  11234444 55666632   244556677776655455678999996


Q ss_pred             CCc
Q 011624          335 DSR  337 (481)
Q Consensus       335 ~~~  337 (481)
                      ...
T Consensus       205 ~~~  207 (299)
T d2akab1         205 MDE  207 (299)
T ss_dssp             SCT
T ss_pred             ccc
Confidence            544

>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=96.71  E-value=0.0058  Score=53.43  Aligned_cols=20  Identities=40%  Similarity=0.498  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      .|+++|.+||||||+...|.
T Consensus        25 ~I~lvG~~n~GKSTLin~L~   44 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLI   44 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHhc
Confidence            58888999999999999886

>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=96.68  E-value=0.00089  Score=64.13  Aligned_cols=38  Identities=32%  Similarity=0.539  Sum_probs=28.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      +|+-+++.||+|||||.++..||..+   +.....+++-.|
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~---~~~~~~i~~s~~   85 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKF   85 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHH---TCCEEEEEGGGG
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhcc---ccchhccccccc
Confidence            45678889999999999999999765   344555555443

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=96.67  E-value=0.0027  Score=51.73  Aligned_cols=37  Identities=16%  Similarity=0.128  Sum_probs=27.7

Q ss_pred             CEEEEEEcCCCCCHHHHHH-HHHHHHHHcCCeEEEEec
Q 011624          183 PTVILLAGLQGVGKTTVSA-KLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~-~LA~~L~~~G~kVlLId~  219 (481)
                      .+..++.+++|+|||+++. .+...+.+.+.+++++..
T Consensus         7 ~~~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~p   44 (140)
T d1yksa1           7 GMTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAP   44 (140)
T ss_dssp             TCEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCcEEEEcCCCCChhHHHHHHHHHHhhhcCceeeeeec
Confidence            4577888999999998775 444566677888887763

>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=96.64  E-value=0.00055  Score=60.50  Aligned_cols=26  Identities=35%  Similarity=0.450  Sum_probs=23.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +..||++.|++||||||++..||..|
T Consensus         7 ~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           7 QVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998766

>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=96.61  E-value=0.0075  Score=51.53  Aligned_cols=27  Identities=33%  Similarity=0.500  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCML  216 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlL  216 (481)
                      .+|++.|.+||||||+..+|.      |.++..
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~------~~~~~~   32 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLL------GQKISI   32 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHH------TCSEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHh------CCCcee
Confidence            368899999999999999886      556653

>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=96.61  E-value=0.00045  Score=60.84  Aligned_cols=26  Identities=19%  Similarity=0.351  Sum_probs=22.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .|..|++.|++||||||++..||..+
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            36678899999999999999998776

>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=96.58  E-value=0.0034  Score=57.39  Aligned_cols=40  Identities=20%  Similarity=0.148  Sum_probs=28.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHc----C--CeEEEEeccCCc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQ----G--KSCMLVAGDVYR  223 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~----G--~kVlLId~D~~r  223 (481)
                      .++.++|++|+||||++..++..|.+.    .  ..+..+++...+
T Consensus        47 ~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   92 (287)
T d1w5sa2          47 MIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAP   92 (287)
T ss_dssp             EEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCC
T ss_pred             eEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecccccc
Confidence            355668999999999999999988643    2  344555554443

>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=96.57  E-value=0.00056  Score=58.92  Aligned_cols=32  Identities=44%  Similarity=0.786  Sum_probs=25.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      |+||++ |++||||||++..||..|   |..  ++|+|
T Consensus         2 p~Ivli-G~~G~GKSTig~~La~~l---~~~--fiD~D   33 (165)
T d2iyva1           2 PKAVLV-GLPGSGKSTIGRRLAKAL---GVG--LLDTD   33 (165)
T ss_dssp             CSEEEE-CSTTSSHHHHHHHHHHHH---TCC--EEEHH
T ss_pred             CcEEEE-CCCCCCHHHHHHHHHHHh---CCC--eEeec
Confidence            566655 999999999999999777   444  56777

>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=96.53  E-value=0.0054  Score=52.19  Aligned_cols=86  Identities=19%  Similarity=0.175  Sum_probs=47.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH------HHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA------LVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~------~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.+.|.||||.-... .+...   .  ....+.+++|.|.....+...      ..........+.-++.||.|....
T Consensus        49 ~~~~~~i~Dt~G~~~~~-~~~~~---~--~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~  122 (166)
T d1g16a_          49 KKVKLQIWDTAGQERFR-TITTA---Y--YRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMETR  122 (166)
T ss_dssp             CEEEEEEECCTTGGGTS-CCCHH---H--HTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTC
T ss_pred             EEEEEEEEECCCchhhH-HHHHH---H--HhcCCEEEEEEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhhh
Confidence            34667889999963221 11111   1  113477899999865533211      112222233445567888875432


Q ss_pred             ---hhHHHHHHHHhCCCeEEe
Q 011624          338 ---GGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~~i  355 (481)
                         ...+...+...+.|+..+
T Consensus       123 ~~~~~~~~~~~~~~~~~~~~~  143 (166)
T d1g16a_         123 VVTADQGEALAKELGIPFIES  143 (166)
T ss_dssp             CSCHHHHHHHHHHHTCCEEEC
T ss_pred             hhhHHHHHHHHHhcCCeEEEE
Confidence               344566777888888444

>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=96.50  E-value=0.00067  Score=58.41  Aligned_cols=30  Identities=33%  Similarity=0.584  Sum_probs=24.5

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      |+++|++||||||++..||..|   |+  -++|+|
T Consensus         3 I~liG~~GsGKsTi~k~La~~l---~~--~~~d~d   32 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL---DL--VFLDSD   32 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH---TC--EEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---CC--CEEecC
Confidence            5667999999999999999887   44  455776

>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=96.50  E-value=0.0047  Score=52.91  Aligned_cols=22  Identities=45%  Similarity=0.628  Sum_probs=18.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKL  203 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~L  203 (481)
                      +..-|+++|.+||||||++..|
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l   36 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQL   36 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHH
T ss_pred             CEEEEEEECCCCCCHHHHHHHH
Confidence            3456889999999999999776

>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=96.47  E-value=0.0063  Score=51.80  Aligned_cols=84  Identities=18%  Similarity=0.114  Sum_probs=46.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH------HHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA------AALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~------~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.+.+.|++|..... .+....   .  ..++.+++|.|....++.      ...++.......+.-++.||.|....
T Consensus        51 ~~~~l~i~D~~g~~~~~-~~~~~~---~--~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~  124 (166)
T d1z0fa1          51 QKIKLQIWDTAGQERFR-AVTRSY---Y--RGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQ  124 (166)
T ss_dssp             EEEEEEEEECTTGGGTC-HHHHHH---H--HTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGG
T ss_pred             EEEEEEEeccCCchhHH-HHHHHH---h--cCCcEEEEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhh
Confidence            34678899999964322 121111   1  134778888888554322      22222223233445577899995332


Q ss_pred             ----hhHHHHHHHHhCCCeE
Q 011624          338 ----GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV~  353 (481)
                          ...+...+...+.|..
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~  144 (166)
T d1z0fa1         125 RDVTYEEAKQFAEENGLLFL  144 (166)
T ss_dssp             CCSCHHHHHHHHHHTTCEEE
T ss_pred             cccHHHHHHHHHHHcCCEEE
Confidence                2345666677777663

>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=96.46  E-value=0.00064  Score=60.09  Aligned_cols=38  Identities=32%  Similarity=0.548  Sum_probs=27.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +|++|++.|++||||||.+..||..+   |... +-..|..|
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~---g~~~-is~g~llr   44 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY---GYTH-LSTGDLLR   44 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT---CCEE-EEHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh---CCee-EeccHHHH
Confidence            56799999999999999999998654   5543 23344444

>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=96.44  E-value=0.0049  Score=58.99  Aligned_cols=37  Identities=35%  Similarity=0.476  Sum_probs=29.1

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      ..+++++||+|||||.++..||..+   +.+...+|+=.|
T Consensus        52 ~~~~lf~Gp~GvGKT~lak~la~~l---~~~~i~~d~s~~   88 (315)
T d1r6bx3          52 VGSFLFAGPTGVGKTEVTVQLSKAL---GIELLRFDMSEY   88 (315)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHH---TCEEEEEEGGGC
T ss_pred             ceEEEEECCCcchhHHHHHHHHhhc---cCCeeEeccccc
Confidence            3588899999999999999999876   455555565544

>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=96.43  E-value=0.0012  Score=57.97  Aligned_cols=35  Identities=34%  Similarity=0.511  Sum_probs=27.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .|.||.++|..||||||+|-    +|.+.|..|.  ++|..
T Consensus         2 ~p~IIgitG~~gSGKstva~----~l~~~g~~~~--~~D~~   36 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAA----LLRSWGYPVL--DLDAL   36 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHH----HHHHTTCCEE--EHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHH----HHHHCCCeEE--EccHH
Confidence            48899999999999999874    4567798764  56643

>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=96.43  E-value=0.0018  Score=58.62  Aligned_cols=53  Identities=23%  Similarity=0.297  Sum_probs=40.9

Q ss_pred             HHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH------cCCeEEEEeccCC
Q 011624          163 DELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK------QGKSCMLVAGDVY  222 (481)
Q Consensus       163 ~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~------~G~kVlLId~D~~  222 (481)
                      ..|.++|+++..       +.+++.++|++|+|||+++..+|+....      .+..|..++.+.-
T Consensus        24 ~~LD~~lgGGip-------~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (258)
T d1v5wa_          24 QEFDKLLGGGIE-------SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENT   82 (258)
T ss_dssp             HHHHHHTTSSBC-------SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSC
T ss_pred             HHHHHhhcCCCc-------CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHH
Confidence            357778887654       5689999999999999999999976543      2357888887753

>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=96.40  E-value=0.0056  Score=54.45  Aligned_cols=32  Identities=38%  Similarity=0.519  Sum_probs=25.5

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      .||.++|..||||||++    ..|.+.|..|  +|+|.
T Consensus         3 ~iIgITG~igSGKStv~----~~l~~~G~~v--idaD~   34 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIA----NLFTDLGVPL--VDADV   34 (205)
T ss_dssp             EEEEEECSTTSCHHHHH----HHHHTTTCCE--EEHHH
T ss_pred             EEEEEECCCCCCHHHHH----HHHHHCCCeE--EEchH
Confidence            68899999999999986    4556778765  57873

>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=96.40  E-value=0.0026  Score=58.82  Aligned_cols=35  Identities=31%  Similarity=0.456  Sum_probs=28.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      .|+-+++.|++|+|||+++..||..+   |.++..+++
T Consensus        41 ~~~giLl~GppGtGKT~la~aia~~~---~~~~~~i~~   75 (247)
T d1ixza_          41 IPKGVLLVGPPGVGKTHLARAVAGEA---RVPFITASG   75 (247)
T ss_dssp             CCSEEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEH
T ss_pred             CCceEEEecCCCCChhHHHHHHHHHc---CCCEEEEEh
Confidence            45678999999999999999998644   777776665

>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=96.40  E-value=0.0046  Score=53.06  Aligned_cols=67  Identities=19%  Similarity=0.193  Sum_probs=38.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH---HHHHHHHh----hhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE---AAALVTTF----NIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~---~~~~~~~f----~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+.+.|+||......    ...  ......+.+++|+|.+....   +.......    ...-.+.-++.||.|...
T Consensus        54 ~~~~~~i~D~~g~~~~~~----~~~--~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~  127 (173)
T d1e0sa_          54 KNVKFNVWDVGGQDKIRP----LWR--HYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD  127 (173)
T ss_dssp             TTEEEEEEEESCCGGGHH----HHG--GGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT
T ss_pred             cceeeEEecCCCcchhhh----HHH--hhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccc
Confidence            457789999999754211    111  11224588999999854432   22222111    112235568899999653

>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=96.39  E-value=0.0096  Score=54.77  Aligned_cols=33  Identities=27%  Similarity=0.320  Sum_probs=25.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      +++-+++.||+|+|||+++..||..+   |..+.-+
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~~---~~~~~~i   71 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEES---NFPFIKI   71 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHH---TCSEEEE
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhcc---ccccccc
Confidence            45678899999999999999998654   5555544

>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=96.36  E-value=0.0058  Score=59.59  Aligned_cols=39  Identities=31%  Similarity=0.325  Sum_probs=29.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHH----cCCeEEEEeccCCc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKK----QGKSCMLVAGDVYR  223 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~----~G~kVlLId~D~~r  223 (481)
                      ++.+++|++|+||||++..+...+.+    .|.+|+++. -+.+
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~A-pTgk  206 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAA-PTGK  206 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEB-SSHH
T ss_pred             CeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEec-CcHH
Confidence            38899999999999999888776654    466777544 3443

>d1s1ma2 c.37.1.10 (A:1-266) CTP synthase PyrG, 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: CTP synthase PyrG, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.34  E-value=0.0086  Score=55.14  Aligned_cols=167  Identities=19%  Similarity=0.299  Sum_probs=92.4

Q ss_pred             CEEEEEE-cC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc---hhHHHH------------------HHHhhhhcCC
Q 011624          183 PTVILLA-GL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR---PAAIDQ------------------LVILGEQVGV  239 (481)
Q Consensus       183 ~~VI~i~-G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r---p~aidq------------------l~~~~~~~gv  239 (481)
                      .+.|+++ |. +|.||-.+++.|+..|+.+|++|..+-.|||=   |+...+                  +-.|.+-.++
T Consensus         3 tkyifvtGGV~S~lGKGi~~aSig~llk~~g~~V~~~K~DPYlNvD~GtmsP~eHGEvfVt~DG~EtDlDlG~YERFl~~   82 (266)
T d1s1ma2           3 TNYIFVTGGVVSSLGKGIAAASLAAILEARGLNVTIMKLDPYINVDPGTMSPIQHGEVFVTEDGAETDLDLGHYERFIRT   82 (266)
T ss_dssp             CEEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECCSCSCGGGSCTTTSCCCEECTTSCEECTHHHHHHHHCSS
T ss_pred             ceEEEEeCCcccccchHHHHHHHHHHHHhCCceeEEEecccceecCCCCCCchhhceeEEeccccccccCccceeccCCC
Confidence            3456665 55 99999999999999999999999999999983   332211                  1122222222


Q ss_pred             CeecC----------------------CCCCC--H--HHHHHHHHHHHHcCCCcEEEEcCCCCccc--cHHHHHHHHhhh
Q 011624          240 PVYTA----------------------GTEVK--P--SQIAKQGLEEAKKKNVDVVIVDTAGRLQI--DKAMMDELKDVK  291 (481)
Q Consensus       240 ~v~~~----------------------~~~~~--~--~~~l~~~l~~~~~~~~D~VIIDt~G~~~~--d~~~~~el~~i~  291 (481)
                      ..-..                      +....  |  .+.+++.+... ..++|++|++-.|....  ..-.++.+.++.
T Consensus        83 ~l~~~~niTtGkiy~~Vi~kER~G~yLG~TVQvIPHiTdeIk~~I~~~-~~~~Di~ivEiGGTVGDIEs~pFlEAiRQl~  161 (266)
T d1s1ma2          83 KMSRRNNFTTGRIYSDVLRKERRGDYLGATVQVIPHITNAIKERVLEG-GEGHDVVLVEIGGTVGDIESLPFLEAIRQMA  161 (266)
T ss_dssp             CCCGGGEEEHHHHHHHHHHHHHTTTTTTCCCCHHHHHHHHHHHHHHHH-HTTCSEEEEEECSCTTSSTTHHHHHHHHHHH
T ss_pred             CCcCccccchhHHHHHHHHHhhccccccCcccccCchHHHHHHHHHhc-CCCCCEEEEeccceechhhcchHHHHHHHHH
Confidence            21100                      00000  0  12234444444 36899999988776543  345667777776


Q ss_pred             hccCCceEEEEE-------eCc----c--hHHHHHHHHHhhhcCCeeEEEEcCCCCCCchhHHHHHHHHhCCCeE
Q 011624          292 RVLNPTEVLLVV-------DAM----T--GQEAAALVTTFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIK  353 (481)
Q Consensus       292 ~~~~p~~vvLVv-------da~----~--~~~~~~~~~~f~~~~~i~GvIlnKvD~~~~~g~~~~~~~~~glPV~  353 (481)
                      ....+..+++|-       .+.    +  .|..+..++...  +.+. +++-+.+..-....-..++-.+++|..
T Consensus       162 ~e~g~~n~~~iHvtlvP~l~~~gE~KTKPTQhSVkeLrs~G--IqPD-ilvcRse~~l~~~~k~KIslFcnV~~~  233 (266)
T d1s1ma2         162 VEIGREHTLFMHLTLVPYMAASGEVKTKPTQHSVKELLSIG--IQPD-ILICRSDRAVPANERAKIALFCNVPEK  233 (266)
T ss_dssp             HHHCTTSEEEEEEEECCEETTTTEECCHHHHHHHHHHHTTT--CCCS-EEEEEESSCCCHHHHHHHHHTTCCCSS
T ss_pred             HhcCCCCEEEEeeccceeeccccccccchHHHHHHHHHhcC--CCCC-eEeeccccCCCHHHHHHHHhhcCCChh
Confidence            655555554432       211    1  144444444332  2223 455555544333333445555677664

>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=96.34  E-value=0.0036  Score=58.16  Aligned_cols=32  Identities=19%  Similarity=0.398  Sum_probs=24.6

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      .+.-.+..+++++|++|+||||++..|+..+.
T Consensus        35 sl~i~~Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          35 NLKIPAGKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             EEEECTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             EEEEcCCCEEEEECCCCChHHHHHHHHhcccC
Confidence            33334567999999999999999987765444

>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=96.33  E-value=0.0057  Score=58.57  Aligned_cols=40  Identities=28%  Similarity=0.356  Sum_probs=32.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .+++++|++|+|||.++..||..|...+.++.-+++-.|.
T Consensus        54 ~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~   93 (315)
T d1qvra3          54 GSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYM   93 (315)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCC
T ss_pred             eEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccc
Confidence            4788999999999999999999986555566666665554

>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=96.32  E-value=0.0066  Score=52.11  Aligned_cols=82  Identities=13%  Similarity=0.103  Sum_probs=39.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+-|.||||.-..     ..+... ....++.+++|+|.+...+....      +......-....+|.||.|.... 
T Consensus        54 ~~~l~i~D~~G~e~~-----~~~~~~-~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~  127 (173)
T d2fu5c1          54 RIKLQIWDTAGQERF-----RTITTA-YYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKR  127 (173)
T ss_dssp             EEEEEEEEC--------------CCT-TTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCC
T ss_pred             EEEEEEEECCCchhh-----HHHHHH-hccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhc
Confidence            466778999985321     111111 12245888999998665433222      12122222345678899996532 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.|+
T Consensus       128 ~~~~~~~~~~~~~~~~~~  145 (173)
T d2fu5c1         128 QVSKERGEKLALDYGIKF  145 (173)
T ss_dssp             CSCHHHHHHHHHHHTCEE
T ss_pred             ccHHHHHHHHHHhcCCEE
Confidence               223445556667765

>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=96.32  E-value=0.0058  Score=56.64  Aligned_cols=33  Identities=39%  Similarity=0.513  Sum_probs=25.3

Q ss_pred             ccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       176 ~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      +.+.-.+..+++++|++|+||||++..|+..+.
T Consensus        33 isl~i~~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          33 LTFTLRPGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            334444567999999999999999988875443

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon 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: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=96.30  E-value=0.0029  Score=55.84  Aligned_cols=64  Identities=14%  Similarity=0.083  Sum_probs=37.7

Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcch---HH---HHHHHHHhhhcCCeeEEEEcCCCCCCc
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTG---QE---AAALVTTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~---~~---~~~~~~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      +.+.+|||||..    .+..++..-..  ..+.+++|+|+..+   +.   ....++..  ..+..-|++||+|....
T Consensus        78 ~~~~~iDtPGh~----~f~~~~~~~~~--~~d~~ilvvda~~g~~~~~t~e~~~~~~~~--~~~~iiv~inK~D~~d~  147 (195)
T d1kk1a3          78 RRVSFIDAPGHE----ALMTTMLAGAS--LMDGAILVIAANEPCPRPQTREHLMALQII--GQKNIIIAQNKIELVDK  147 (195)
T ss_dssp             EEEEEEECSSHH----HHHHHHHHCGG--GCSEEEEEEETTSCSSCHHHHHHHHHHHHH--TCCCEEEEEECGGGSCH
T ss_pred             eeEeeeccchhh----hhhHHhhcccc--cccccccccchhhhhhhhhhHHHHHHHHHh--cCccceeeeecccchhh
Confidence            458999999964    34444433333  34888999998544   22   22233332  23334577999996543

>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=96.30  E-value=0.0075  Score=56.81  Aligned_cols=48  Identities=15%  Similarity=0.280  Sum_probs=32.8

Q ss_pred             cccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH-cC-----CeEEEEeccCC
Q 011624          175 ELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK-QG-----KSCMLVAGDVY  222 (481)
Q Consensus       175 ~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~-~G-----~kVlLId~D~~  222 (481)
                      .+.+.-.+..+++++|++|+||||+...|+..+.- .|     -++.++.-+++
T Consensus        54 ~isl~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~~p~~G~I~~~g~i~~v~Q~~~  107 (281)
T d1r0wa_          54 NINLNIEKGEMLAITGSTGSGKTSLLMLILGELEASEGIIKHSGRVSFCSQFSW  107 (281)
T ss_dssp             EEEEEECTTCEEEEEESTTSSHHHHHHHHHTSSCCSEEEEECCSCEEEECSSCC
T ss_pred             CeEEEEcCCCEEEEECCCCChHHHHHHHHhCCCcCCCcEEEECCEEEEEecccc
Confidence            34444456679999999999999999888754432 22     25666655543

>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=96.29  E-value=0.0012  Score=59.15  Aligned_cols=40  Identities=33%  Similarity=0.483  Sum_probs=31.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      +-+|++.||+||||||.|..||..|   |.. .+-++|.||..+
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~~l---g~~-~istGdl~R~~a   42 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAKDF---GFT-YLDTGAMYRAAT   42 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHH---CCE-EEEHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh---CCc-EECHHHHHHHHH
Confidence            4577888999999999999999877   443 556788888544

>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=96.27  E-value=0.003  Score=58.28  Aligned_cols=31  Identities=23%  Similarity=0.404  Sum_probs=24.4

Q ss_pred             ccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       178 ~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      +.-.+..+++++|++|+||||++..|+..+.
T Consensus        24 l~i~~Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          24 LSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             EEEETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3334567999999999999999988876554

>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=96.25  E-value=0.0039  Score=57.79  Aligned_cols=36  Identities=39%  Similarity=0.545  Sum_probs=27.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      .|+-+++.||+|+|||+++..+|..+   |..+..+++.
T Consensus        37 ~~~giLL~GppGtGKT~l~~ala~~~---~~~~~~i~~~   72 (258)
T d1e32a2          37 PPRGILLYGPPGTGKTLIARAVANET---GAFFFLINGP   72 (258)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHT---TCEEEEECHH
T ss_pred             CCceeEEecCCCCCchHHHHHHHHHh---CCeEEEEEch
Confidence            46678999999999999998887643   6677766543

>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=96.24  E-value=0.0012  Score=58.68  Aligned_cols=38  Identities=37%  Similarity=0.541  Sum_probs=30.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      ||++.||+||||||.+..||..|   |.. .+-++|.||..+
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~---gl~-~iStGdLlR~~a   42 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEAL---QWH-LLDSGAIYRVLA   42 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH---TCE-EEEHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh---CCc-EECHHHHHHHHH
Confidence            89999999999999999999877   333 345688887543

>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=96.24  E-value=0.0011  Score=57.33  Aligned_cols=33  Identities=39%  Similarity=0.660  Sum_probs=25.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY  222 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~  222 (481)
                      .|+++|++||||||++..||..|   |+.  ++|+|.+
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L---g~~--~id~D~~   36 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL---GYE--FVDTDIF   36 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH---TCE--EEEHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh---CCC--EEehhhh
Confidence            35577999999999999999776   554  6687743

>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=96.23  E-value=0.0016  Score=57.01  Aligned_cols=37  Identities=32%  Similarity=0.470  Sum_probs=26.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +.+|| +.|++||||||++..||..|   |.... -..|.+|
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~---g~~~i-~~gdllr   39 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF---CVCHL-ATGDMLR   39 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH---TCEEE-EHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh---CCeEE-eHHHHHH
Confidence            34566 57999999999999999766   54432 2235555

>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=96.20  E-value=0.012  Score=50.07  Aligned_cols=83  Identities=7%  Similarity=-0.089  Sum_probs=42.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHH---HHhhhcCC-eeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALV---TTFNIEIG-ITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~---~~f~~~~~-i~GvIlnKvD~~~  336 (481)
                      ..+++.+.|++|.-. ...+...   .  ....+.+++|.|.+...+..   ...   ........ +.-+|.||+|...
T Consensus        46 ~~~~l~i~D~~g~e~-~~~~~~~---~--~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~  119 (168)
T d2gjsa1          46 EEASLMVYDIWEQDG-GRWLPGH---C--MAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR  119 (168)
T ss_dssp             EEEEEEEEECC--------CHHH---H--HTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGG
T ss_pred             cccceeeeecccccc-cceeccc---c--hhhhhhhceeccccccccccccccccchhhcccccccceEEEeecccchhh
Confidence            457888999998632 1111111   1  12347889999986543322   221   22221112 2346779999543


Q ss_pred             c----hhHHHHHHHHhCCCe
Q 011624          337 R----GGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV  352 (481)
                      .    ...+...+...+.|.
T Consensus       120 ~~~v~~~~~~~~~~~~~~~~  139 (168)
T d2gjsa1         120 SREVSVDEGRACAVVFDCKF  139 (168)
T ss_dssp             GCCSCHHHHHHHHHHHTSEE
T ss_pred             hcchhHHHHHHHHHhcCCEE
Confidence            2    334466677778765

>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=96.16  E-value=0.0072  Score=53.34  Aligned_cols=20  Identities=35%  Similarity=0.537  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|++||||||+..+|.
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~   21 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLL   21 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58899999999999998775

>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=96.14  E-value=0.0014  Score=56.56  Aligned_cols=22  Identities=36%  Similarity=0.598  Sum_probs=20.1

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L  207 (481)
                      |++.|++||||||++..||..|
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999998876

>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=96.09  E-value=0.0071  Score=51.21  Aligned_cols=83  Identities=13%  Similarity=0.037  Sum_probs=44.7

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+-+.|++|.-... .....     ....++.+++|.|.....+....      .......-...-+|.||.|.... 
T Consensus        48 ~~~~~i~d~~g~~~~~-~~~~~-----~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~  121 (164)
T d1yzqa1          48 TIRLQLWDTAGQERFR-SLIPS-----YIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKR  121 (164)
T ss_dssp             EEEEEEEEECCSGGGG-GGHHH-----HHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGC
T ss_pred             ceeeeecccCCcchhc-cchHH-----HhhccceEEEeeccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhh
Confidence            4567789999864321 11111     11235778899998655433222      12222122234577799995422 


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+...+...+.+..
T Consensus       122 ~~~~~~~~~~~~~~~~~~~  140 (164)
T d1yzqa1         122 QVSIEEGERKAKELNVMFI  140 (164)
T ss_dssp             CSCHHHHHHHHHHTTCEEE
T ss_pred             hhhHHHHHHHHHHcCCEEE
Confidence               2344566677777653

>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=96.09  E-value=0.0089  Score=50.86  Aligned_cols=84  Identities=20%  Similarity=0.100  Sum_probs=46.2

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH------HHhhhcCCeeEEEEcCCCCCC-
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV------TTFNIEIGITGAILTKLDGDS-  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~------~~f~~~~~i~GvIlnKvD~~~-  336 (481)
                      ..+.+.+.|++|....     ..+. -.....++.+++|.|.+...+.....      ........+.-++.||.|... 
T Consensus        50 ~~~~~~~~d~~g~~~~-----~~~~-~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~  123 (167)
T d1z08a1          50 KRVNLAIWDTAGQERF-----HALG-PIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKE  123 (167)
T ss_dssp             CEEEEEEEECCCC-------------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGG
T ss_pred             ccceeeeeccCCccee-----cccc-hhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccc
Confidence            3467889999986431     1111 01122457889999987654332221      222222334456789999532 


Q ss_pred             ---chhHHHHHHHHhCCCeE
Q 011624          337 ---RGGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 ---~~g~~~~~~~~~glPV~  353 (481)
                         ....+...+...+.|..
T Consensus       124 ~~v~~~e~~~~a~~~~~~~~  143 (167)
T d1z08a1         124 RHVSIQEAESYAESVGAKHY  143 (167)
T ss_dssp             CCSCHHHHHHHHHHTTCEEE
T ss_pred             cccchHHHHHHHHHcCCeEE
Confidence               23455677777887763

>d2vo1a1 c.37.1.10 (A:1-273) CTP synthase PyrG, 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: Nitrogenase iron protein-like
domain: CTP synthase PyrG, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.08  E-value=0.024  Score=52.30  Aligned_cols=39  Identities=28%  Similarity=0.481  Sum_probs=34.8

Q ss_pred             EEEEE-cC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          185 VILLA-GL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       185 VI~i~-G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      .|+++ |. +|.||-.+++.|+..|+.+|++|.++-.|||=
T Consensus         3 yifVtGGV~S~lGKGi~~aSig~ll~~~g~~V~~~K~DPYl   43 (273)
T d2vo1a1           3 YILVTGGVISGIGKGIIASSVGTILKSCGLHVTSIKIDPYI   43 (273)
T ss_dssp             EEEEEECSSSSSSHHHHHHHHHHHHHHTTCCEEEEEEECSS
T ss_pred             EEEEeCCcccccchHHHHHHHHHHHHhCCceeEEEecccce
Confidence            45555 55 99999999999999999999999999999984

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=96.06  E-value=0.013  Score=48.07  Aligned_cols=34  Identities=24%  Similarity=0.248  Sum_probs=26.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      .-++.++.+++|+|||+++..   ++.+.|++|+++.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~---~~~~~~~~vli~~   40 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPA---AYAAQGYKVLVLN   40 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHH---HHHTTTCCEEEEE
T ss_pred             CCCEEEEEeCCCCCHHHHHHH---HHHHcCCcEEEEc
Confidence            347889999999999987643   3567788888664

>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=96.04  E-value=0.0068  Score=55.02  Aligned_cols=40  Identities=28%  Similarity=0.295  Sum_probs=31.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCch
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRP  224 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp  224 (481)
                      .+..+++.||+|+||||++..||..+   |..+..+++...+.
T Consensus        51 ~~~~lll~GPpG~GKTt~a~~la~~~---~~~~~~~~~~~~~~   90 (253)
T d1sxja2          51 VFRAAMLYGPPGIGKTTAAHLVAQEL---GYDILEQNASDVRS   90 (253)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHT---TCEEEEECTTSCCC
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHH---Hhhhhccccccchh
Confidence            34588999999999999999888644   67888887766653

>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=96.01  E-value=0.002  Score=56.11  Aligned_cols=23  Identities=35%  Similarity=0.564  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .|++.|++||||||.+..||..|
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            36788999999999999999876

>d1okkd1 a.24.13.1 (D:21-78) Signal recognition particle receptor, FtsY {Thermus aquaticus [TaxId: 271]}

class: All alpha proteins
fold: Four-helical up-and-down bundle
superfamily: Domain of the SRP/SRP receptor G-proteins
family: Domain of the SRP/SRP receptor G-proteins
domain: Signal recognition particle receptor, FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=95.99  E-value=0.0047  Score=43.99  Aligned_cols=50  Identities=28%  Similarity=0.470  Sum_probs=41.6

Q ss_pred             hHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHhhccccCCCChhHHHHHHHHHHHHHHhc
Q 011624          110 IVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMG  170 (481)
Q Consensus       110 i~~~l~~i~~~Ll~~dv~~~~v~~l~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~L~~~l~  170 (481)
                      .++.+++|+..|+.+||+.+++.+++++++++..           +.+..++++++.++|.
T Consensus         8 ~d~~leeLEe~Li~ADvGv~tt~~ii~~Lr~~~~-----------~~l~~~Lke~l~~~L~   57 (58)
T d1okkd1           8 LEEVLEELEMALLAADVGLSATEEILQEVRASGR-----------KDLKEAVKEKLVGMLE   57 (58)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHTTCC-----------SCHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHhC
Confidence            3568899999999999999999999999976531           2367788888888774

>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=95.96  E-value=0.002  Score=55.92  Aligned_cols=22  Identities=50%  Similarity=0.667  Sum_probs=20.0

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L  207 (481)
                      |++.|++||||||++..||..|
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6777999999999999999877

>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=95.95  E-value=0.018  Score=49.16  Aligned_cols=82  Identities=17%  Similarity=0.075  Sum_probs=44.3

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHH------HHHHHHhhhcCCeeEEEEcCCCCCC--
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEA------AALVTTFNIEIGITGAILTKLDGDS--  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~------~~~~~~f~~~~~i~GvIlnKvD~~~--  336 (481)
                      ...+.+.|++|........-..      ...++.+++|.|.....+.      ...+......-.+.-+|.||+|...  
T Consensus        51 ~~~~~i~d~~g~~~~~~~~~~~------~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~  124 (173)
T d2a5ja1          51 QIKLQIWDTAGQESFRSITRSY------YRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRR  124 (173)
T ss_dssp             EEEEEEECCTTGGGTSCCCHHH------HTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGC
T ss_pred             EEEEEeecccCccchhhHHHHH------hhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhh
Confidence            4567889999875322110111      1234778899997544322      2222233222224557789999532  


Q ss_pred             --chhHHHHHHHHhCCCe
Q 011624          337 --RGGAALSVKEVSGKPI  352 (481)
Q Consensus       337 --~~g~~~~~~~~~glPV  352 (481)
                        ....+...+...+.|.
T Consensus       125 ~~~~~~~~~~a~~~~~~~  142 (173)
T d2a5ja1         125 DVKREEGEAFAREHGLIF  142 (173)
T ss_dssp             CSCHHHHHHHHHHHTCEE
T ss_pred             hhHHHHHHHHHHHcCCEE
Confidence              2334556667777776

>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=95.93  E-value=0.01  Score=52.02  Aligned_cols=83  Identities=16%  Similarity=0.190  Sum_probs=43.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH------HHhhhcCCeeEEEEcCCCCCCc
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV------TTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~------~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ..+.+.|+||||.-... .+..     ......+.+++|.|.+.........      ......-.+..+|.||.|....
T Consensus        53 ~~~~l~i~Dt~G~e~~~-~~~~-----~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~  126 (194)
T d2bcgy1          53 KTVKLQIWDTAGQERFR-TITS-----SYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDK  126 (194)
T ss_dssp             EEEEEEEECCTTTTTTT-CCCG-----GGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTT
T ss_pred             EEEEEEEEECCCchhhH-HHHH-----HHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccc
Confidence            45678889999964211 0000     1112357889999986543322221      2222222356688999985432


Q ss_pred             ----hhHHHHHHHHhCCCe
Q 011624          338 ----GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV  352 (481)
                          ...........+.+.
T Consensus       127 ~~~~~~~~~~~~~~~~~~~  145 (194)
T d2bcgy1         127 RVVEYDVAKEFADANKMPF  145 (194)
T ss_dssp             CCSCHHHHHHHHHHTTCCE
T ss_pred             cchhHHHHhhhhhccCcce
Confidence                223344555566665

>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=95.91  E-value=0.023  Score=48.32  Aligned_cols=85  Identities=14%  Similarity=0.159  Sum_probs=44.9

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+-|.||||.-..     ..+... .....+.+++|.|.....+....      .........+.-+|.||.|...+ 
T Consensus        55 ~~~l~i~Dt~G~e~~-----~~~~~~-~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~  128 (170)
T d2g6ba1          55 KVKLQMWDTAGQERF-----RSVTHA-YYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHER  128 (170)
T ss_dssp             EEEEEEEECCCC-------------C-CGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCC
T ss_pred             EEEEEEEECCCchhh-----HHHHHH-hhcCCceeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcc
Confidence            456789999996321     111111 12235788999998654332211      11222223345567799996543 


Q ss_pred             ---hhHHHHHHHHhCCCeEEe
Q 011624          338 ---GGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~~i  355 (481)
                         ...+...+...+.|+..+
T Consensus       129 ~v~~~~~~~~~~~~~~~~~e~  149 (170)
T d2g6ba1         129 VVKREDGEKLAKEYGLPFMET  149 (170)
T ss_dssp             CSCHHHHHHHHHHHTCCEEEC
T ss_pred             cccHHHHHHHHHHcCCEEEEE
Confidence               234566677778877433

>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=95.90  E-value=0.0043  Score=53.65  Aligned_cols=21  Identities=48%  Similarity=0.703  Sum_probs=17.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKL  203 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~L  203 (481)
                      ..-|+++|.+||||||+...|
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l   37 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRL   37 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHT
T ss_pred             eEEEEEECCCCCCHHHHHHHH
Confidence            456778999999999999766

>d1vcoa2 c.37.1.10 (A:11-282) CTP synthase PyrG, 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: Nitrogenase iron protein-like
domain: CTP synthase PyrG, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=95.88  E-value=0.052  Score=49.95  Aligned_cols=40  Identities=20%  Similarity=0.437  Sum_probs=35.2

Q ss_pred             EEEEEE-cC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          184 TVILLA-GL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       184 ~VI~i~-G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +.|+++ |. +|.||-.+++.|+..|+.+|++|.++-.|||=
T Consensus         3 kyifvtGGV~S~lGKGi~~asig~ll~~~g~~v~~~K~DpYl   44 (272)
T d1vcoa2           3 KYVFITGGVVSSLGKGILTSSLGALLRARGYRVTAIKIDPYV   44 (272)
T ss_dssp             EEEEEEECSSSCSCHHHHHHHHHHHHHTTTCCEEEEEEECSS
T ss_pred             eEEEEeCCcccccccHHHHHHHHHHHHhCCCceeEEeeccce
Confidence            455565 55 99999999999999999999999999999983

>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=95.87  E-value=0.0055  Score=52.10  Aligned_cols=67  Identities=13%  Similarity=0.118  Sum_probs=35.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH---HHHHHh----hhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA---ALVTTF----NIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~---~~~~~f----~~~~~i~GvIlnKvD~~~  336 (481)
                      +++.+.++|+||.....    ......  ...++.+++|+|........   .....+    ...-.+.-+|.||.|...
T Consensus        45 ~~~~~~i~D~~G~~~~~----~~~~~~--~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~  118 (164)
T d1zd9a1          45 GNVTIKLWDIGGQPRFR----SMWERY--CRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG  118 (164)
T ss_dssp             TTEEEEEEEECCSHHHH----TTHHHH--HTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT
T ss_pred             eeEEEEEeecccccccc----cccccc--ccccchhhcccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccch
Confidence            45668899999863211    111111  12458889999985433222   222212    111223457889999643

>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=95.85  E-value=0.0013  Score=57.83  Aligned_cols=28  Identities=32%  Similarity=0.535  Sum_probs=23.8

Q ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          180 KSRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       180 ~~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      ..+|.+|++.|..||||||++..|+..|
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999998877544

>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=95.85  E-value=0.0034  Score=56.74  Aligned_cols=31  Identities=35%  Similarity=0.503  Sum_probs=23.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      -++++||+|+||||++..||..+   |.....++
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~~---~~~~~~~~   67 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASEL---QTNIHVTS   67 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHH---TCCEEEEE
T ss_pred             eEEEECCCCCcHHHHHHHHHhcc---CCCccccc
Confidence            47789999999999998888665   44444443

>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=95.81  E-value=0.004  Score=57.96  Aligned_cols=31  Identities=16%  Similarity=0.397  Sum_probs=23.3

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .+.-.+..+++++|++|+||||++..|+..+
T Consensus        38 sl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          38 NLSIEKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             EEEECTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            3333456799999999999999987666433

>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=95.77  E-value=0.016  Score=53.22  Aligned_cols=27  Identities=30%  Similarity=0.383  Sum_probs=22.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .+.-++.+.|++|+||||+...|+..+
T Consensus        27 ~~Ge~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          27 KDGEFMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            345699999999999999998887543

>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=95.74  E-value=0.019  Score=52.78  Aligned_cols=31  Identities=23%  Similarity=0.163  Sum_probs=24.7

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .++-.+.-++++.|++|+||||+...|+..+
T Consensus        25 sl~i~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          25 NINIENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEECCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            3443456799999999999999998888644

>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=95.74  E-value=0.0026  Score=55.11  Aligned_cols=23  Identities=26%  Similarity=0.260  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .|++.|++||||||.+..||..+
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36678999999999999998765

>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=95.73  E-value=0.0024  Score=55.70  Aligned_cols=25  Identities=36%  Similarity=0.509  Sum_probs=21.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +++|+++||+||||||++..|...+
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            3589999999999999988876544

>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=95.70  E-value=0.011  Score=50.55  Aligned_cols=82  Identities=16%  Similarity=0.068  Sum_probs=43.1

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---H---H-HHhhhcCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---L---V-TTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~---~-~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+-+.|++|...........+    .  ..+.+++|.|.....+...   .   + +.....-.+.-+|.||.|....
T Consensus        52 ~~~~~~~d~~g~~~~~~~~~~~~----~--~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~  125 (171)
T d2erya1          52 AARLDILDTAGQEEFGAMREQYM----R--TGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQ  125 (171)
T ss_dssp             EEEEEEEECC----CCHHHHHHH----H--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTS
T ss_pred             ccccccccccccccccccccccc----c--ccceEEEeeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhh
Confidence            46678899998764332221111    1  2377899999865433221   1   1 1122222234478899995432


Q ss_pred             ----hhHHHHHHHHhCCCe
Q 011624          338 ----GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV  352 (481)
                          ...+...+...++|.
T Consensus       126 ~~v~~~~~~~~~~~~~~~~  144 (171)
T d2erya1         126 RQVTQEEGQQLARQLKVTY  144 (171)
T ss_dssp             CSSCHHHHHHHHHHTTCEE
T ss_pred             ccchHHHHHHHHHHcCCEE
Confidence                345567777778775

>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=95.68  E-value=0.0061  Score=55.12  Aligned_cols=33  Identities=33%  Similarity=0.456  Sum_probs=23.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      +.-++++||+|+||||++..+|..+   +.....++
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~~~---~~~~~~~~   67 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAHEL---GVNLRVTS   67 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHH---TCCEEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh---CCCeEecc
Confidence            3456789999999999998887554   44444443

>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=95.67  E-value=0.0029  Score=55.84  Aligned_cols=34  Identities=26%  Similarity=0.426  Sum_probs=24.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec-cCCc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG-DVYR  223 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~-D~~r  223 (481)
                      -|++.|++||||||++..||..|   |..  .|++ |.+|
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~---g~~--~is~gdllr   42 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHF---ELK--HLSSGDLLR   42 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHB---CCE--EEEHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH---CCe--EEcHHHHHH
Confidence            45566999999999999998654   443  3444 4454

>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=95.67  E-value=0.013  Score=53.38  Aligned_cols=31  Identities=16%  Similarity=0.194  Sum_probs=23.3

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .+.-.++-++++.|++||||||+...|+..+
T Consensus        25 sl~i~~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          25 NLNIKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCCcchhhHhccCCC
Confidence            3333456799999999999999987665433

>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=95.66  E-value=0.0031  Score=54.75  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L  207 (481)
                      |++.|++||||||++..||..|
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5566999999999999999776

>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=95.63  E-value=0.009  Score=54.64  Aligned_cols=31  Identities=19%  Similarity=0.307  Sum_probs=23.9

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .++-.+..++++.|++|+||||+...++-.+
T Consensus        20 sl~i~~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          20 NLDIHEGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            3333456799999999999999988776444

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {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: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=95.62  E-value=0.027  Score=52.84  Aligned_cols=73  Identities=21%  Similarity=0.243  Sum_probs=39.4

Q ss_pred             CcEEEEcCCCCccccH--------HHHHHHHhhhhccCCceE-EEEEeCc---chHHHHHHHHHhhhcCCeeEEEEcCCC
Q 011624          266 VDVVIVDTAGRLQIDK--------AMMDELKDVKRVLNPTEV-LLVVDAM---TGQEAAALVTTFNIEIGITGAILTKLD  333 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~--------~~~~el~~i~~~~~p~~v-vLVvda~---~~~~~~~~~~~f~~~~~i~GvIlnKvD  333 (481)
                      .++.||||||......        .....+.. ..+..++.+ ++|+++.   ..+.....++.+++...-.-+|+||+|
T Consensus       131 ~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~-~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~~~~~r~i~Vitk~D  209 (306)
T d1jwyb_         131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVM-AYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKRTIGVITKLD  209 (306)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHH-HHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSSEEEEEECTT
T ss_pred             CCceEecCCCccccccCCcchhHHHHHHHHHH-HHHhCCCceeEEeecccccccccHHHHHHHHhCcCCCeEEEEEeccc
Confidence            4688999999864321        11111111 112234554 4455553   224556677777655545668899999


Q ss_pred             CCCchh
Q 011624          334 GDSRGG  339 (481)
Q Consensus       334 ~~~~~g  339 (481)
                      ......
T Consensus       210 ~~~~~~  215 (306)
T d1jwyb_         210 LMDKGT  215 (306)
T ss_dssp             SSCSSC
T ss_pred             cccchh
Confidence            755443

>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=95.59  E-value=0.0047  Score=53.05  Aligned_cols=66  Identities=15%  Similarity=0.143  Sum_probs=36.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH---HH---HHHHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE---AA---ALVTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~---~~---~~~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+.|.||+|.....     .+.. .....++.+++|.|.+...+   +.   .......+.++ .-+|.||.|...
T Consensus        50 ~~~~l~i~D~~g~~~~~-----~~~~-~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~p-iilvgnK~Dl~~  121 (170)
T d1i2ma_          50 GPIKFNVWDTAGQEKFG-----GLRD-GYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIP-IVLCGNKVDIKD  121 (170)
T ss_dssp             CCEEEEEEECTTHHHHS-----SCGG-GGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHCSCC-EEEEEECCCCSC
T ss_pred             ccccccccccccccccc-----eecc-hhcccccchhhccccccccccchhHHHHHHHhhccCCCc-eeeecchhhhhh
Confidence            45678999999863211     0000 11224578899999854422   22   22222233344 458899999643

>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=95.56  E-value=0.0024  Score=59.04  Aligned_cols=33  Identities=27%  Similarity=0.510  Sum_probs=25.9

Q ss_pred             ccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       176 ~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      +.+.-.+..+++++|++|+||||++..|+..+.
T Consensus        21 isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          21 ISFEAQPNSIIAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             EEEEECTTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            344445678999999999999999988875554

>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=95.54  E-value=0.0093  Score=54.79  Aligned_cols=31  Identities=26%  Similarity=0.344  Sum_probs=24.5

Q ss_pred             ccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       178 ~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      +.-.+..++.+.|++|+||||+...|+-.+.
T Consensus        27 l~v~~Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          27 LTIKDGEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            3334567999999999999999988875544

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal 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: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.51  E-value=0.0059  Score=50.10  Aligned_cols=43  Identities=14%  Similarity=0.148  Sum_probs=37.3

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHH-c-CCeEEEEeccCCc
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKK-Q-GKSCMLVAGDVYR  223 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~-~-G~kVlLId~D~~r  223 (481)
                      ++...|+++|.+|+||+|++..|...|.+ + |++|-+.|.|.-+
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~ni~   48 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHNNKT   48 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCTTCH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecCCCHH
Confidence            35789999999999999999999999987 4 5999999999543

>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=95.50  E-value=0.053  Score=46.09  Aligned_cols=83  Identities=11%  Similarity=-0.017  Sum_probs=44.4

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH------HHhh--hcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV------TTFN--IEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~------~~f~--~~~~i~GvIlnKvD~~  335 (481)
                      ..+.+.++|+++....+ ..   +.. ......+.+++|.|.+...+.....      ....  +.++ .-+|.||+|..
T Consensus        51 ~~~~~~~~d~~~~~g~e-~~---~~~-~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~p-iilvgnK~Dl~  124 (172)
T d2g3ya1          51 ESATIILLDMWENKGEN-EW---LHD-HCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIP-IILVGNKSDLV  124 (172)
T ss_dssp             EEEEEEEECCTTTTHHH-HH---HHH-CCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSC-EEEEEECTTCG
T ss_pred             ceeeeeeeccccccccc-cc---ccc-ccccccceeeeeecccccchhhhhhhhhhhhhhccccCCce-EEEEecccccc
Confidence            45678889987654211 11   111 1122457888998986554332221      1111  1233 44789999953


Q ss_pred             Cc----hhHHHHHHHHhCCCe
Q 011624          336 SR----GGAALSVKEVSGKPI  352 (481)
Q Consensus       336 ~~----~g~~~~~~~~~glPV  352 (481)
                      .+    ...+...+...++|.
T Consensus       125 ~~~~v~~~~~~~~a~~~~~~~  145 (172)
T d2g3ya1         125 RCREVSVSEGRACAVVFDCKF  145 (172)
T ss_dssp             GGCCSCHHHHHHHHHHHTCEE
T ss_pred             ccccccHHHHHHHHHHcCCeE
Confidence            22    234455667777765

>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=95.49  E-value=0.013  Score=52.84  Aligned_cols=27  Identities=33%  Similarity=0.423  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcC
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQG  211 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G  211 (481)
                      -++++|++|+||||++..+|..+...+
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~l~~~~   61 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLESIFGPG   61 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHHHSCTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcCcc
Confidence            367999999999999999998774433

>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=95.45  E-value=0.0072  Score=51.97  Aligned_cols=19  Identities=32%  Similarity=0.681  Sum_probs=16.8

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||++..+.
T Consensus         7 i~vvG~~~vGKTsLi~~~~   25 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFT   25 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            7789999999999997764

>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=95.42  E-value=0.014  Score=50.10  Aligned_cols=83  Identities=16%  Similarity=0.187  Sum_probs=46.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHH---HHHHHHHhh---hc-CCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQE---AAALVTTFN---IE-IGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~---~~~~~~~f~---~~-~~i~GvIlnKvD~~~  336 (481)
                      ..+.+.|.||||.-... .+...     ....++.+++|+|.....+   +......+.   .. ..+..++.||.|...
T Consensus        54 ~~~~~~i~Dt~G~~~~~-~~~~~-----~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~  127 (177)
T d1x3sa1          54 NKAKLAIWDTAGQERFR-TLTPS-----YYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN  127 (177)
T ss_dssp             EEEEEEEEEECSSGGGC-CSHHH-----HHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS
T ss_pred             cccEEEEEECCCchhhH-HHHHH-----HHhcCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeecccccc
Confidence            45678999999964321 11111     1123578899999754432   222222221   11 234568899998644


Q ss_pred             c---hhHHHHHHHHhCCCe
Q 011624          337 R---GGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ~---~g~~~~~~~~~glPV  352 (481)
                      .   ...+...+...+.++
T Consensus       128 ~~v~~~~~~~~~~~~~~~~  146 (177)
T d1x3sa1         128 REVDRNEGLKFARKHSMLF  146 (177)
T ss_dssp             CCSCHHHHHHHHHHTTCEE
T ss_pred             ccccHHHHHHHHHHCCCEE
Confidence            3   234456677777766

>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=95.42  E-value=0.012  Score=54.56  Aligned_cols=70  Identities=20%  Similarity=0.219  Sum_probs=43.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++-|++.|++|+|||+++..+|..+   |..+..+++..        +  ..          .........++..+..+
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~~---~~~~~~~~~~~--------l--~~----------~~~~~~~~~l~~~f~~A   96 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANEC---QANFISIKGPE--------L--LT----------MWFGESEANVREIFDKA   96 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHHT---TCEEEEECHHH--------H--HT----------SCTTTHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHHh---CCcEEEEEHHH--------h--hh----------ccccchHHHHHHHHHHH
Confidence            45678999999999999999998766   56665444321        1  00          00112344556667666


Q ss_pred             HcCCCcEEEEcCC
Q 011624          262 KKKNVDVVIVDTA  274 (481)
Q Consensus       262 ~~~~~D~VIIDt~  274 (481)
                      +....-+++||-.
T Consensus        97 ~~~~p~il~idei  109 (265)
T d1r7ra3          97 RQAAPCVLFFDEL  109 (265)
T ss_dssp             HHTCSEEEEESSG
T ss_pred             HhcCCcceeHHhh
Confidence            5455557777654

>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=95.40  E-value=0.014  Score=58.34  Aligned_cols=38  Identities=32%  Similarity=0.539  Sum_probs=31.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      |.=|+++||+|||||-++..||..+   +-.-..+||-.|.
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l---~VPFv~~daT~fT   86 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA---NAPFIKVEATKFT   86 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEGGGGC
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh---CCCEEEeecceee
Confidence            4568888999999999999998755   7788888888775

>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=95.38  E-value=0.0032  Score=57.03  Aligned_cols=29  Identities=24%  Similarity=0.292  Sum_probs=26.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQ  210 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~  210 (481)
                      +|++|++-|.-||||||++..|+.+|...
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~~   29 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPEW   29 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTTS
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            48999999999999999999999888654

>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=95.36  E-value=0.011  Score=54.40  Aligned_cols=29  Identities=17%  Similarity=0.208  Sum_probs=22.9

Q ss_pred             ccCCCCEEEEEEcCCCCCHHHHHHHHHHH
Q 011624          178 FAKSRPTVILLAGLQGVGKTTVSAKLANY  206 (481)
Q Consensus       178 ~~~~~~~VI~i~G~~GvGKTTta~~LA~~  206 (481)
                      +.-.++.++.+.|++||||||++..|+-.
T Consensus        26 l~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          26 LHVPAGQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEECSSCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            33345679999999999999998777643

>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=95.36  E-value=0.02  Score=48.62  Aligned_cols=84  Identities=19%  Similarity=0.081  Sum_probs=47.5

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH------HHhhhcCCeeEEEEcCCCCCC-
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV------TTFNIEIGITGAILTKLDGDS-  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~------~~f~~~~~i~GvIlnKvD~~~-  336 (481)
                      ..+++.|.|++|..... .+...     ....++.+++|.|.....+.....      ..........-+|.||.|... 
T Consensus        50 ~~~~l~i~d~~g~~~~~-~~~~~-----~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~  123 (170)
T d1ek0a_          50 HTVKFEIWDTAGQERFA-SLAPM-----YYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQE  123 (170)
T ss_dssp             EEEEEEEEEECCSGGGG-GGHHH-----HHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGS
T ss_pred             ccccccccccCCchhHH-HHHHH-----HHhccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccc
Confidence            45778999999875321 12111     112357889999986554332221      222233345667889998421 


Q ss_pred             ------chhHHHHHHHHhCCCeE
Q 011624          337 ------RGGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 ------~~g~~~~~~~~~glPV~  353 (481)
                            ....+...+...+.|..
T Consensus       124 ~~~~~v~~~~~~~~~~~~~~~~~  146 (170)
T d1ek0a_         124 GGERKVAREEGEKLAEEKGLLFF  146 (170)
T ss_dssp             SCCCCSCHHHHHHHHHHHTCEEE
T ss_pred             cchhhhhHHHHHHHHHHcCCEEE
Confidence                  12344667777787763

>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=95.32  E-value=0.007  Score=53.95  Aligned_cols=33  Identities=27%  Similarity=0.461  Sum_probs=26.3

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      +.||.++|..||||||++.    +|.+.|..|  +|+|.
T Consensus         3 k~iIgitG~igSGKStv~~----~l~~~G~~v--idaD~   35 (208)
T d1vhta_           3 RYIVALTGGIGSGKSTVAN----AFADLGINV--IDADI   35 (208)
T ss_dssp             CEEEEEECCTTSCHHHHHH----HHHHTTCEE--EEHHH
T ss_pred             CEEEEEECCCcCCHHHHHH----HHHHCCCcE--EEchH
Confidence            3689999999999999874    567788764  57774

>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=95.30  E-value=0.051  Score=50.38  Aligned_cols=25  Identities=20%  Similarity=0.381  Sum_probs=21.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .++|.+.|.+|+||||+|..+....
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhh
Confidence            5799999999999999999887653

>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=95.29  E-value=0.0035  Score=56.43  Aligned_cols=31  Identities=39%  Similarity=0.480  Sum_probs=27.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCC
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGK  212 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~  212 (481)
                      ++++|++-|.-||||||.+..|+.+|..+|.
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~~~~   32 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQPNCK   32 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTTSEE
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHhCCE
Confidence            5679999999999999999999998876553

>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=95.29  E-value=0.01  Score=55.42  Aligned_cols=25  Identities=40%  Similarity=0.493  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      =++++|++|||||+++..||..+.+
T Consensus        41 n~lLVG~~GvGKTalv~~la~ri~~   65 (268)
T d1r6bx2          41 NPLLVGESGVGKTAIAEGLAWRIVQ   65 (268)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEECCCCCcHHHHHHHHHHHHHh
Confidence            4568999999999999999998875

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {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: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=95.23  E-value=0.046  Score=46.67  Aligned_cols=37  Identities=30%  Similarity=0.303  Sum_probs=30.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      +.|.+.+| .|=||||.|..+|...+-.|+||+++---
T Consensus         3 G~i~vytG-~GKGKTTAAlG~alRA~G~G~rV~ivQFl   39 (157)
T d1g5ta_           3 GIIIVFTG-NGKGKTTAAFGTAARAVGHGKNVGVVQFI   39 (157)
T ss_dssp             CCEEEEES-SSSCHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             cEEEEEeC-CCCCcHHHHHHHHHHHhcCCCEEEEEEEe
Confidence            44666666 57899999999999988899999988653

>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=95.15  E-value=0.059  Score=48.60  Aligned_cols=28  Identities=36%  Similarity=0.477  Sum_probs=23.8

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      .|..+++.|++|+||||++..++..+-.
T Consensus        33 ~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~   60 (239)
T d1njfa_          33 IHHAYLFSGTRGVGKTSIARLLAKGLNC   60 (239)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHC
T ss_pred             CCeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence            3567889999999999999998887753

>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=95.14  E-value=0.025  Score=50.22  Aligned_cols=25  Identities=36%  Similarity=0.461  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      =++++|++|||||+++..||..+..
T Consensus        45 n~lLvG~pGVGKTalv~~LA~ri~~   69 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CeEEEecCCcccHHHHHHHHHHHHh
Confidence            4678999999999999999998874

>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=95.09  E-value=0.049  Score=49.58  Aligned_cols=88  Identities=18%  Similarity=0.124  Sum_probs=54.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC-chhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY-RPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~-rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      .|...++.|..|+|||-++...+.....+|+.|+++.--.- -+...+.++.+-...++.+..........+. .+....
T Consensus        75 ~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~La~Q~~~~~~~~~~~~~~~v~~l~~~~~~~~~-~~~~~~  153 (233)
T d2eyqa3          75 LAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQ-TQILAE  153 (233)
T ss_dssp             SCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHH-HHHHHH
T ss_pred             CccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHHHhHHHHHHHHHHHHhhCCCEEEeccCcccchhH-HHHHHH
Confidence            56788899999999999999999988899999997763321 0222222332223445555433333343332 344555


Q ss_pred             HHcCCCcEEE
Q 011624          261 AKKKNVDVVI  270 (481)
Q Consensus       261 ~~~~~~D~VI  270 (481)
                      +..+..++||
T Consensus       154 ~~~g~~~ivi  163 (233)
T d2eyqa3         154 VAEGKIDILI  163 (233)
T ss_dssp             HHTTCCSEEE
T ss_pred             HhCCCCCEEE
Confidence            5556677665

>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=95.06  E-value=0.0072  Score=54.29  Aligned_cols=25  Identities=48%  Similarity=0.551  Sum_probs=22.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      -++++|++|+||||++..+|..+..
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~l~~   71 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARELFG   71 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHG
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4779999999999999999987753

>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=95.04  E-value=0.038  Score=52.71  Aligned_cols=69  Identities=16%  Similarity=0.250  Sum_probs=42.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      ..+++++|++|+|||.++..||..+..+-.-+.+-..|.+                    . ....+....+++.++.++
T Consensus       123 ~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~--------------------~-~~~G~~e~~~~~~f~~a~  181 (321)
T d1w44a_         123 SGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPL--------------------S-GYNTDFNVFVDDIARAML  181 (321)
T ss_dssp             SEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSS--------------------T-TCBCCHHHHHHHHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhh--------------------h-cccchHHHHHHHHHHHHh
Confidence            3567779999999999999999877532111222222222                    1 112244566778888876


Q ss_pred             cCCCcEEEEcCC
Q 011624          263 KKNVDVVIVDTA  274 (481)
Q Consensus       263 ~~~~D~VIIDt~  274 (481)
                      .  .-+++||--
T Consensus       182 ~--~~ilf~DEi  191 (321)
T d1w44a_         182 Q--HRVIVIDSL  191 (321)
T ss_dssp             H--CSEEEEECC
T ss_pred             h--ccEEEeehh
Confidence            3  348888754

>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=95.02  E-value=0.0086  Score=59.16  Aligned_cols=113  Identities=19%  Similarity=0.223  Sum_probs=61.6

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeec--CCCCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYT--AGTEVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~--~~~~~~~~~~l~~~l~  259 (481)
                      +..+|+++|++|+|||||...+..++.+.++++.-|. ||-     +.     ...|+....  .....+..    .++.
T Consensus       157 ~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiE-dPi-----E~-----~~~~~~q~~v~~~~~~~~~----~~l~  221 (401)
T d1p9ra_         157 PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVE-DPI-----EF-----DIDGIGQTQVNPRVDMTFA----RGLR  221 (401)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEE-SSC-----CS-----CCSSSEEEECBGGGTBCHH----HHHH
T ss_pred             hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEec-cCc-----cc-----ccCCCCeeeecCCcCCCHH----HHHH
Confidence            3469999999999999999999888866677777554 432     00     011111111  11122223    3444


Q ss_pred             HHHcCCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH
Q 011624          260 EAKKKNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV  315 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~  315 (481)
                      .+...+.|+|+|.=.-    |...........  ..-+.|+-.+.+.....+...+
T Consensus       222 ~~lR~dPDvi~igEiR----d~~ta~~a~~aa--~tGhlV~tTlHa~~a~~~~~Rl  271 (401)
T d1p9ra_         222 AILRQDPDVVMVGEIR----DLETAQIAVQAS--LTGHLVMSTLHTNTAVGAVTRL  271 (401)
T ss_dssp             HHGGGCCSEEEESCCC----SHHHHHHHHHHH--HTTCEEEEEECCSSSHHHHHHH
T ss_pred             HHHhhcCCEEEecCcC----ChHHHHHHHHHH--hcCCeEEEEeccCchHhhhhhh
Confidence            4445789999996543    322222221111  1225566666665544444433

>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=94.97  E-value=0.0068  Score=54.26  Aligned_cols=25  Identities=20%  Similarity=0.336  Sum_probs=21.5

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +++++++||+||||||+...|....
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999998887554

>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=94.95  E-value=0.088  Score=46.38  Aligned_cols=39  Identities=21%  Similarity=0.234  Sum_probs=29.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcC---CeEEEEecc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQG---KSCMLVAGD  220 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G---~kVlLId~D  220 (481)
                      .+.-+++.|++|+||||++..|+.++...-   -.+..+..+
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~   55 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPE   55 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCC
Confidence            467899999999999999999998876432   135555543

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase 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: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.93  E-value=0.15  Score=46.97  Aligned_cols=88  Identities=20%  Similarity=0.145  Sum_probs=53.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCC-chhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVY-RPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEE  260 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~-rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~  260 (481)
                      .|..-++.|-.|||||-++...+......|+.|++..--.- -......+..+-...|+.+........+.+ -++.+..
T Consensus       103 ~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~~La~Qh~~~~~~~f~~~~~~v~~l~~~~~~~~-r~~~~~~  181 (264)
T d1gm5a3         103 KPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSE-KEKIKSG  181 (264)
T ss_dssp             SCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCHHHHHHHHHHHHHHHTCSSCCEEECCSSSCHHH-HHHHHHH
T ss_pred             CcceeeeeccccccccHHHHHHHHHHHhcccceeEEeehHhhhHHHHHHHHHhhhhccccceeeccccchHH-HHHHHHH
Confidence            45677889999999999999999888889999986653211 111122233333344666554444444433 2344555


Q ss_pred             HHcCCCcEEE
Q 011624          261 AKKKNVDVVI  270 (481)
Q Consensus       261 ~~~~~~D~VI  270 (481)
                      +..++.++||
T Consensus       182 ~~~g~~~iiI  191 (264)
T d1gm5a3         182 LRNGQIDVVI  191 (264)
T ss_dssp             HHSSCCCEEE
T ss_pred             HHCCCCCEEE
Confidence            5556677655

>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=94.93  E-value=0.0061  Score=53.63  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=19.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      |+++||+||||||++..|+..+.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            77999999999999988876653

>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=94.92  E-value=0.058  Score=45.69  Aligned_cols=87  Identities=15%  Similarity=0.078  Sum_probs=48.6

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH------HHHHHh-hhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA------ALVTTF-NIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~------~~~~~f-~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+-+.|++|...... ....   ..+  ..+.+++|.|.+...+..      ..+... ...-.+.-+|.||.|...
T Consensus        50 ~~~~~~i~d~~g~~~~~~-~~~~---~~~--~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~  123 (169)
T d1x1ra1          50 QWAILDVLDTAGQEEFSA-MREQ---YMR--TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH  123 (169)
T ss_dssp             EEEEEEEEECCSCGGGCS-SHHH---HHH--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCST
T ss_pred             cccccccccccccccccc-chhh---hhh--hccEEEEecccccchhhhccchhhHHHHhhccccCccEEEEecccchhh
Confidence            346678999998754321 1111   111  237889999986543322      222222 221223447789999533


Q ss_pred             c----hhHHHHHHHHhCCCeEEee
Q 011624          337 R----GGAALSVKEVSGKPIKLVG  356 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV~~ig  356 (481)
                      .    ...+...+...+.|...+.
T Consensus       124 ~~~v~~e~~~~~~~~~~~~~~e~S  147 (169)
T d1x1ra1         124 LRKVTRDQGKEMATKYNIPYIETS  147 (169)
T ss_dssp             TCCSCHHHHHHHHHHHTCCEEEEB
T ss_pred             hceeehhhHHHHHHHcCCEEEEEc
Confidence            2    3456778888898874443

>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=94.84  E-value=0.0054  Score=53.69  Aligned_cols=23  Identities=35%  Similarity=0.511  Sum_probs=19.5

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      |+++||+||||||++..|+..+.
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            78999999999999988865543

>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=94.83  E-value=0.02  Score=52.09  Aligned_cols=31  Identities=19%  Similarity=0.294  Sum_probs=24.4

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      .+.-.+.-++++.|++|+||||+...|+-.+
T Consensus        20 s~~i~~Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          20 SLKVESGEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEECTTCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEECCCCEEEEECCCCCcHHHHHHHHhcCc
Confidence            3333456799999999999999998887544

>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=94.73  E-value=0.025  Score=51.81  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      -++++.|++|+||||+...|+-.+.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~   49 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCC
Confidence            3778899999999999988885554

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

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: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=94.71  E-value=0.011  Score=55.36  Aligned_cols=33  Identities=24%  Similarity=0.344  Sum_probs=24.8

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcC----CeEEEEe
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQG----KSCMLVA  218 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G----~kVlLId  218 (481)
                      ++|.|++|+||||+++.-+.+|...+    .++++++
T Consensus        27 ~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt   63 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAIT   63 (318)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEE
T ss_pred             EEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEe
Confidence            55679999999999988766665544    4777774

>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=94.65  E-value=0.0091  Score=53.45  Aligned_cols=35  Identities=26%  Similarity=0.462  Sum_probs=26.4

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc--CCeEEEEecc
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQ--GKSCMLVAGD  220 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~--G~kVlLId~D  220 (481)
                      +++.||+|+||||++..||..+...  +..+..+++-
T Consensus        39 ~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~   75 (224)
T d1sxjb2          39 MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNAS   75 (224)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTT
T ss_pred             EEEECCCCCCchhhHHHHHHHHhcccccccccccccc
Confidence            6789999999999999999887643  2345544443

>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=94.58  E-value=0.041  Score=53.42  Aligned_cols=39  Identities=28%  Similarity=0.340  Sum_probs=29.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +|.-+++.||+|||||-++..||..+   +....-+|+-.|.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~---~~~~ir~D~s~~~  105 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL---DIPIAISDATSLT  105 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT---TCCEEEEEGGGCC
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc---ccceeehhhhhcc
Confidence            45678899999999999999998764   3445556665554

>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=94.57  E-value=0.023  Score=55.23  Aligned_cols=39  Identities=28%  Similarity=0.306  Sum_probs=30.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCc
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYR  223 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~r  223 (481)
                      +++.+++.||+|+|||+++..||..+   |.++.-+++-..|
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~---~~~~i~in~s~~r  191 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELC---GGKALNVNLPLDR  191 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH---CCEEECCSSCTTT
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEECcchh
Confidence            45699999999999999999998766   5677755544333

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {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: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=94.56  E-value=0.015  Score=57.05  Aligned_cols=37  Identities=24%  Similarity=0.360  Sum_probs=32.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGD  220 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D  220 (481)
                      +=+++.|++|+|||+++..+...+.++|..|+++|..
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~k   87 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDPN   87 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            3478889999999999999998888899999988754

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [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: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=94.56  E-value=0.0094  Score=55.33  Aligned_cols=42  Identities=24%  Similarity=0.297  Sum_probs=28.7

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHc-C---CeEEEEeccCCchhHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQ-G---KSCMLVAGDVYRPAAIDQL  230 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~-G---~kVlLId~D~~rp~aidql  230 (481)
                      ++|.|++|+||||+++..+.++.++ |   .+|+++   +|...+.+.+
T Consensus        17 ~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvl---t~tn~a~~~i   62 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAV---TFTNKAAREM   62 (306)
T ss_dssp             EEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEE---ESSHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEE---eCcHHHHHHH
Confidence            5677999999999988776666543 3   478777   4554444443

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {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: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.50  E-value=0.019  Score=51.74  Aligned_cols=54  Identities=24%  Similarity=0.390  Sum_probs=37.1

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHH---HHHHhhhhcCCCe
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAID---QLVILGEQVGVPV  241 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aid---ql~~~~~~~gv~v  241 (481)
                      +++++|+|+|||+++...+..+..+|.+|+++.  |.+.-+.+   .++.+....++.+
T Consensus        61 ~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~--Pt~~La~Q~~~~l~~~~~~~~~~~  117 (237)
T d1gkub1          61 FAATAPTGVGKTSFGLAMSLFLALKGKRCYVIF--PTSLLVIQAAETIRKYAEKAGVGT  117 (237)
T ss_dssp             EECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEE--SCHHHHHHHHHHHHHHHTTTCCSG
T ss_pred             EEEEecCCChHHHHHHHHHHHHHHhcCeEEEEe--ccHHHHHHHHHHHHHHHHHcCCce
Confidence            556789999999988877778888899988776  55544333   3344444455543

>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=94.47  E-value=0.013  Score=56.18  Aligned_cols=112  Identities=15%  Similarity=0.151  Sum_probs=58.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE-eccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV-AGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI-d~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      -|+++|++|+||||+...|+.++-. +.++..| |..-+...         ...++.....+...+..+.++    .+..
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~~-~~rivtiEd~~El~l~---------~~~~~~~~~~~~~~~~~~ll~----~~lR  233 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIPK-EERIISIEDTEEIVFK---------HHKNYTQLFFGGNITSADCLK----SCLR  233 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCT-TCCEEEEESSCCCCCS---------SCSSEEEEECBTTBCHHHHHH----HHTT
T ss_pred             CEEEEeeccccchHHHHHHhhhccc-ccceeeccchhhhhcc---------cccccceeccccchhHHHHHH----HHhc
Confidence            4788999999999999888765543 5566655 22212110         011111222222344444443    3334


Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHH
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVT  316 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~  316 (481)
                      .+.|+|+|.-.-..    ....-+ +....- -..++-.+-+....++...+.
T Consensus       234 ~~pd~iivgEiR~~----ea~~~l-~a~~tG-h~g~~tT~Ha~s~~~a~~Rl~  280 (323)
T d1g6oa_         234 MRPDRIILGELRSS----EAYDFY-NVLCSG-HKGTLTTLHAGSSEEAFIRLA  280 (323)
T ss_dssp             SCCSEEEESCCCST----HHHHHH-HHHHTT-CSCEEEEECCSSHHHHHHHHH
T ss_pred             cCCCcccCCccCch----hHHHHH-HHHHhc-CCcEEEEECCCCHHHHHHHHH
Confidence            68899999765321    111212 122211 124666777766666555443

>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=94.47  E-value=0.012  Score=51.31  Aligned_cols=22  Identities=27%  Similarity=0.600  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLAN  205 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~  205 (481)
                      +.|+++||+|+||||+...|..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            4788899999999999987764

>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=94.45  E-value=0.03  Score=51.20  Aligned_cols=32  Identities=28%  Similarity=0.395  Sum_probs=25.0

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      .+.-.++.++.+.|++|+||||+...|+-.+.
T Consensus        22 s~~v~~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          22 SFEIEEGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             EEEECTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            33434567999999999999999988875443

>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=94.30  E-value=0.02  Score=50.99  Aligned_cols=27  Identities=26%  Similarity=0.492  Sum_probs=24.0

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      -|..+++.|++|+||||++..+|..|.
T Consensus        23 l~h~lLl~Gp~G~GKtt~a~~~a~~l~   49 (207)
T d1a5ta2          23 GHHALLIQALPGMGDDALIYALSRYLL   49 (207)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             cCeEEEEECCCCCcHHHHHHHHHHhcc
Confidence            366899999999999999999998775

>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=94.23  E-value=0.013  Score=52.44  Aligned_cols=38  Identities=24%  Similarity=0.258  Sum_probs=28.9

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH---cCCeEEEEeccCCc
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKK---QGKSCMLVAGDVYR  223 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~---~G~kVlLId~D~~r  223 (481)
                      ++++||+|+||||++..+|..+..   ......-+++...+
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~   76 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDER   76 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCC
T ss_pred             EEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccc
Confidence            778999999999999999987742   24556656665554

>d1e8ca3 c.72.2.1 (A:104-337) UDP-N-acetylmuramyl tripeptide synthetase MurE {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramyl tripeptide synthetase MurE
species: Escherichia coli [TaxId: 562]

Probab=94.20  E-value=0.13  Score=45.21  Aligned_cols=35  Identities=23%  Similarity=0.353  Sum_probs=30.7

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      +.+||+++|..  |||||+.-|+..|...|+++.++.
T Consensus         4 ~~~vI~ITGT~--GKTTt~~~l~~iL~~~g~~~~~~g   38 (234)
T d1e8ca3           4 NLRLVGVTGTN--GKTTTTQLLAQWSQLLGEISAVMG   38 (234)
T ss_dssp             SSEEEEEESSS--CHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCC--cHHHHHHHHHHHHHHCCCCeEEEC
Confidence            45799999875  899999999999999999998764

>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=93.99  E-value=0.0037  Score=56.24  Aligned_cols=29  Identities=21%  Similarity=0.166  Sum_probs=24.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQG  211 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G  211 (481)
                      .++|++-|+-||||||++..|+.+|...|
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~~~~   30 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCEDWE   30 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCTTEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhcCC
Confidence            47899999999999999999998775433

>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=93.98  E-value=0.039  Score=50.45  Aligned_cols=40  Identities=25%  Similarity=0.405  Sum_probs=28.2

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCML  216 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlL  216 (481)
                      .+.-.+..++.+.|++|+||||+...|+-.+.-..-+|.+
T Consensus        26 s~~i~~Gei~~liGpnGaGKSTl~~~i~Gl~~p~~G~I~~   65 (240)
T d1ji0a_          26 DLKVPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKGKIIF   65 (240)
T ss_dssp             EEEEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             eEEECCCCEEEEECCCCCcHHHHHHHHhCCCCCCccEEEe
Confidence            3333456799999999999999998887555432224443

>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=93.96  E-value=0.023  Score=51.23  Aligned_cols=36  Identities=19%  Similarity=0.242  Sum_probs=27.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ++++++.|++|+||||++..++..+   +.....+++..
T Consensus        29 ~~~i~i~G~~G~GKTsLl~~~~~~~---~~~~~~i~~~~   64 (283)
T d2fnaa2          29 APITLVLGLRRTGKSSIIKIGINEL---NLPYIYLDLRK   64 (283)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHH---TCCEEEEEGGG
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHC---CCCeEEEEecc
Confidence            3578899999999999998876543   66677776653

>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=93.81  E-value=0.017  Score=51.48  Aligned_cols=24  Identities=33%  Similarity=0.454  Sum_probs=21.1

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      +++.|++|+||||++..+|..+..
T Consensus        38 lLl~Gp~G~GKttl~~~la~~l~~   61 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAREIYG   61 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCChhHHHHHHHHHhhc
Confidence            668999999999999999987654

>d2g0ta1 c.37.1.10 (A:1-338) Hypothetical protein TM0796 {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: Hypothetical protein TM0796
species: Thermotoga maritima [TaxId: 2336]

Probab=93.50  E-value=0.43  Score=45.18  Aligned_cols=112  Identities=22%  Similarity=0.257  Sum_probs=68.5

Q ss_pred             CCEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHh-hhhcCCCeecCCCCCCHHHHHHHHHH
Q 011624          182 RPTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVIL-GEQVGVPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       182 ~~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~-~~~~gv~v~~~~~~~~~~~~l~~~l~  259 (481)
                      +..+++++|. --+||=||+..|..++.++|.++.++.+-.        .-.. +-..|+++-....... ...+..++.
T Consensus       156 ~~~rvl~vGTDca~GK~tTal~l~~~l~~~G~~a~fiaTGQ--------TGili~g~~Gv~~Dav~~Dfv-aGavE~~v~  226 (338)
T d2g0ta1         156 KIKVVGVFGTDCVVGKRTTAVQLWERALEKGIKAGFLATGQ--------TGILIGADAGYVIDAVPADFV-SGVVEKAVL  226 (338)
T ss_dssp             CSEEEEEEESSSSSSHHHHHHHHHHHHHHTTCCEEEEECSH--------HHHHTTCSEECCGGGSBGGGH-HHHHHHHHH
T ss_pred             CCcEEEEeccCccccHHHHHHHHHHHHHhCCCCeeEEEcCC--------eeEeeccccceecCcchhhhh-HHHHHHHHh
Confidence            3456666666 999999999999999999999999887652        1122 2223555432211111 112233333


Q ss_pred             HHHcCCCcEEEEcCCCCcccc--HHHHHHHHhhhhccCCceEEEEEeC
Q 011624          260 EAKKKNVDVVIVDTAGRLQID--KAMMDELKDVKRVLNPTEVLLVVDA  305 (481)
Q Consensus       260 ~~~~~~~D~VIIDt~G~~~~d--~~~~~el~~i~~~~~p~~vvLVvda  305 (481)
                      +...++.|++||++-|.+...  ....-.   ++.-.+|+.++|+-++
T Consensus       227 ~~~~~~~d~iiIEGQgSL~hP~~s~vtl~---LL~Gs~Pd~lVL~H~p  271 (338)
T d2g0ta1         227 KLEKTGKEIVFVEGQGALRHPAYGQVTLG---LLYGSNPDVVFLVHDP  271 (338)
T ss_dssp             HHHHTTCSEEEEECCSCTTCTTTHHHHHH---HHHHHCCSEEEEECCT
T ss_pred             hhhcCCCCEEEEcccccccccccccccHH---HHhcCCCCEEEEeecC
Confidence            333357899999998776433  222223   4555678888887655

>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=93.47  E-value=0.011  Score=52.57  Aligned_cols=31  Identities=32%  Similarity=0.591  Sum_probs=24.8

Q ss_pred             ccCCCCEEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       178 ~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      +.-.++.++++.|++|+||||+...|+..+.
T Consensus        22 ~~i~~Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          22 MTIEKGNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             EEEETTCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhcccc
Confidence            3334567999999999999999998876554

>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=92.35  E-value=0.074  Score=45.39  Aligned_cols=28  Identities=25%  Similarity=0.424  Sum_probs=24.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      ++-+|.+.|.=|+||||++..++..|.-
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhccc
Confidence            4568889999999999999999988743

>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=92.21  E-value=0.037  Score=45.57  Aligned_cols=19  Identities=53%  Similarity=0.761  Sum_probs=16.9

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||+...|.
T Consensus         3 ivlvG~~~vGKSsLi~~l~   21 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLK   21 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6789999999999998875

>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=92.16  E-value=0.071  Score=46.33  Aligned_cols=27  Identities=30%  Similarity=0.516  Sum_probs=21.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCe
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKS  213 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~k  213 (481)
                      .+-+++.|++|+||||++..    |.++|++
T Consensus        14 g~gvl~~G~sG~GKStlal~----l~~~g~~   40 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALE----LVQRGHR   40 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHH----HHHTTCE
T ss_pred             CEEEEEEeCCCCCHHHHHHH----HHHcCCe
Confidence            46788999999999998855    4567885

>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=91.98  E-value=0.034  Score=51.44  Aligned_cols=31  Identities=23%  Similarity=0.273  Sum_probs=24.4

Q ss_pred             ccccCCCCEEEEEEcCCCCCHHHHHHHHHHH
Q 011624          176 LVFAKSRPTVILLAGLQGVGKTTVSAKLANY  206 (481)
Q Consensus       176 ~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~  206 (481)
                      +.+.-.+.-++.++|++|+||||++..|+-.
T Consensus        21 vs~~i~~GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          21 VSLQARAGDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eeeEEcCCCEEEEECCCCCcHHHHHHHHHcC
Confidence            3344455679999999999999999888743

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {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: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=91.95  E-value=0.22  Score=43.60  Aligned_cols=29  Identities=24%  Similarity=0.307  Sum_probs=21.1

Q ss_pred             EEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          187 LLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       187 ~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      ++..++|+|||.++..++.   +.+.+++++.
T Consensus        89 ll~~~tG~GKT~~a~~~~~---~~~~~~Liv~  117 (206)
T d2fz4a1          89 CIVLPTGSGKTHVAMAAIN---ELSTPTLIVV  117 (206)
T ss_dssp             EEEESSSTTHHHHHHHHHH---HSCSCEEEEE
T ss_pred             EEEeCCCCCceehHHhHHH---HhcCceeEEE
Confidence            3567899999998876654   3467777665

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=91.88  E-value=0.085  Score=45.56  Aligned_cols=32  Identities=31%  Similarity=0.526  Sum_probs=24.1

Q ss_pred             EEEcCCCCCHHHHHHHHHHHH-HHcCCeEEEEe
Q 011624          187 LLAGLQGVGKTTVSAKLANYL-KKQGKSCMLVA  218 (481)
Q Consensus       187 ~i~G~~GvGKTTta~~LA~~L-~~~G~kVlLId  218 (481)
                      ++++++|+|||.++..++... .+.|.+++++.
T Consensus        27 lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~   59 (200)
T d1wp9a1          27 LIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLA   59 (200)
T ss_dssp             EEECCTTSCHHHHHHHHHHHHHHHSCSCEEEEC
T ss_pred             EEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEc
Confidence            466899999999888777644 45677777665

>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=91.82  E-value=0.028  Score=51.06  Aligned_cols=29  Identities=28%  Similarity=0.387  Sum_probs=23.0

Q ss_pred             cccCCCCEEEEEEcCCCCCHHHHHHHHHH
Q 011624          177 VFAKSRPTVILLAGLQGVGKTTVSAKLAN  205 (481)
Q Consensus       177 ~~~~~~~~VI~i~G~~GvGKTTta~~LA~  205 (481)
                      .++-.++-++++.|++|+||||+...|+-
T Consensus        19 sl~I~~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          19 SGEVRAGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EEEEETTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            33333567999999999999999887765

>d1tf5a3 c.37.1.19 (A:1-226,A:349-395) Translocation ATPase SecA, nucleotide-binding domains {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: Tandem AAA-ATPase domain
domain: Translocation ATPase SecA, nucleotide-binding domains
species: Bacillus subtilis [TaxId: 1423]

Probab=91.70  E-value=0.6  Score=42.82  Aligned_cols=61  Identities=21%  Similarity=0.167  Sum_probs=39.6

Q ss_pred             CCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh-HHHHHHHhhhhcCCCeecCCCCCCHH
Q 011624          191 LQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA-AIDQLVILGEQVGVPVYTAGTEVKPS  251 (481)
Q Consensus       191 ~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~-aidql~~~~~~~gv~v~~~~~~~~~~  251 (481)
                      ++|-|||.++.-.|+..+-.|+.|-+|+...|=+. -.+++...-+..|+.+-.......+.
T Consensus       101 ~TGEGKTL~a~l~a~l~al~g~~vhvvTvNdyLA~RDae~m~~iy~~lGlsvg~~~~~~~~~  162 (273)
T d1tf5a3         101 KTGEGKTLTSTLPVYLNALTGKGVHVVTVNEYLASRDAEQMGKIFEFLGLTVGLNLNSMSKD  162 (273)
T ss_dssp             CTTSCHHHHHHHHHHHHHTTSSCEEEEESSHHHHHHHHHHHHHHHHHTTCCEEECCTTSCHH
T ss_pred             cCCCcchhHHHHHHHHHHhcCCCceEEecCccccchhhhHHhHHHHHcCCCccccccccCHH
Confidence            59999998777777666778999999999977321 12233334455677664433344443

>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=91.51  E-value=0.066  Score=46.20  Aligned_cols=27  Identities=30%  Similarity=0.544  Sum_probs=21.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCe
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKS  213 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~k  213 (481)
                      .+-+++.|++|+||||++..    |.++|++
T Consensus        15 g~gvli~G~sg~GKS~la~~----l~~~g~~   41 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALE----LIKRGHR   41 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHH----HHHTTCE
T ss_pred             CEEEEEEeCCCCCHHHHHHH----HHHcCCe
Confidence            45788999999999998754    4567885

>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=91.36  E-value=0.081  Score=45.96  Aligned_cols=27  Identities=26%  Similarity=0.443  Sum_probs=22.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCe
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKS  213 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~k  213 (481)
                      .+-+++.|++|+||||++..|    .++|++
T Consensus        15 g~gvli~G~sG~GKS~lal~l----~~~G~~   41 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDL----INKNHL   41 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHH----HTTTCE
T ss_pred             CEEEEEEcCCCCCHHHHHHHH----HHcCCc
Confidence            457889999999999999665    467885

>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=91.36  E-value=0.052  Score=44.89  Aligned_cols=20  Identities=50%  Similarity=0.765  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+||||||+..++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~   26 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQ   26 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999998764

>d1gg4a4 c.72.2.1 (A:99-312) UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF
species: Escherichia coli [TaxId: 562]

Probab=91.33  E-value=0.57  Score=40.13  Aligned_cols=34  Identities=29%  Similarity=0.397  Sum_probs=28.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      .+||.++|..  |||||+.-|+..|...|++|.+..
T Consensus         2 ~kvI~VTGTn--GKTTt~~mi~~iL~~~g~~~~~~g   35 (214)
T d1gg4a4           2 ARVVALTGSS--GKTSVKEMTAAILSQCGNTLYTAG   35 (214)
T ss_dssp             CEEEEEECSS--CHHHHHHHHHHHHTTTSCEEECCT
T ss_pred             CCEEEEeCCC--cHHHHHHHHHHHHHhCCCCEEEeC
Confidence            3689999875  699999999999999999988543

>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=91.28  E-value=0.12  Score=43.42  Aligned_cols=21  Identities=29%  Similarity=0.588  Sum_probs=18.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .-|+++|.+||||||++..|.
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~   36 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFS   36 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHh
Confidence            457788999999999998774

>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=91.27  E-value=0.056  Score=45.46  Aligned_cols=23  Identities=30%  Similarity=0.483  Sum_probs=18.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +..-|+++|.+||||||+...|.
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~   34 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLK   34 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            34457789999999999987773

>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=91.22  E-value=0.05  Score=49.20  Aligned_cols=21  Identities=33%  Similarity=0.642  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ++.+++|.+||||||++.+|.
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~  116 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAIN  116 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHS
T ss_pred             CeEEEECCCCCCHHHHHHhhc
Confidence            477899999999999998884

>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=91.12  E-value=0.082  Score=51.62  Aligned_cols=24  Identities=42%  Similarity=0.549  Sum_probs=21.0

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      ++++|++|||||+++-.||..+..
T Consensus        46 ~llvG~~GvGKtaiv~~la~~i~~   69 (387)
T d1qvra2          46 PVLIGEPGVGKTAIVEGLAQRIVK   69 (387)
T ss_dssp             CEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CeEECCCCCCHHHHHHHHHHHHHh
Confidence            466799999999999999988765

>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=91.03  E-value=0.059  Score=44.12  Aligned_cols=19  Identities=42%  Similarity=0.623  Sum_probs=16.9

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||+...|.
T Consensus         3 I~liG~~nvGKSSLln~l~   21 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLK   21 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6789999999999998765

>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=90.98  E-value=0.042  Score=50.62  Aligned_cols=39  Identities=23%  Similarity=0.428  Sum_probs=27.5

Q ss_pred             ccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEE
Q 011624          178 FAKSRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCML  216 (481)
Q Consensus       178 ~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlL  216 (481)
                      ++-.+..++.+.|++|+||||+...|+-.+.-..-+|.+
T Consensus        25 ~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~p~~G~I~~   63 (254)
T d1g6ha_          25 ISVNKGDVTLIIGPNGSGKSTLINVITGFLKADEGRVYF   63 (254)
T ss_dssp             CEEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHHCCCcCCCcEEEE
Confidence            333456799999999999999998887544432234554

>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=90.92  E-value=0.063  Score=48.04  Aligned_cols=35  Identities=17%  Similarity=0.304  Sum_probs=24.6

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe-ccCCc
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA-GDVYR  223 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId-~D~~r  223 (481)
                      ++|+++|.-||||||++.-|+.   +.|.  .+++ +|+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e---~~g~--~~i~~aD~i~   37 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS---NYSA--VKYQLAGPIK   37 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH---HSCE--EECCTTHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH---hCCC--eEEcccHHHH
Confidence            5899999999999998866543   2354  4455 56543

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=90.77  E-value=0.077  Score=48.79  Aligned_cols=43  Identities=21%  Similarity=0.265  Sum_probs=30.4

Q ss_pred             CCEEEEEEcCCCCCHHHH-HHHHHHHHHHcCCeEEEEeccCCchhH
Q 011624          182 RPTVILLAGLQGVGKTTV-SAKLANYLKKQGKSCMLVAGDVYRPAA  226 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTt-a~~LA~~L~~~G~kVlLId~D~~rp~a  226 (481)
                      +.+.+++.+++|+|||+. ...+.....++|.+|+++.  |-|.-+
T Consensus         8 ~~~~~lv~~~TGsGKT~~~l~~~~~~~~~~~~~~lvi~--Ptr~La   51 (305)
T d2bmfa2           8 KKRLTIMDLHPGAGKTKRYLPAIVREAIKRGLRTLILA--PTRVVA   51 (305)
T ss_dssp             TTCEEEECCCTTSSTTTTHHHHHHHHHHHHTCCEEEEE--SSHHHH
T ss_pred             cCCcEEEEECCCCCHHHHHHHHHHHHHHhcCCEEEEEc--cHHHHH
Confidence            456888999999999963 3455555566788888774  555544

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {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: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=90.63  E-value=0.067  Score=46.70  Aligned_cols=43  Identities=23%  Similarity=0.210  Sum_probs=26.6

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQL  230 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql  230 (481)
                      +++.+++|+|||+++.-.+.....++.+|+++.  |.+.-..++.
T Consensus        43 ~il~apTGsGKT~~a~l~i~~~~~~~~~vl~l~--P~~~L~~q~~   85 (202)
T d2p6ra3          43 LLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVV--PLRALAGEKY   85 (202)
T ss_dssp             EEEECSSHHHHHHHHHHHHHHHHHTTCCEEEEE--SSHHHHHHHH
T ss_pred             EEEEcCCCCchhHHHHHHHHHHhhccCcceeec--ccHHHHHHHH
Confidence            568899999999887544443344566666553  4554433333

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {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: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=90.53  E-value=0.93  Score=39.41  Aligned_cols=34  Identities=24%  Similarity=0.235  Sum_probs=21.9

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHH--HcCCeEEEEec
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLK--KQGKSCMLVAG  219 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~--~~G~kVlLId~  219 (481)
                      +++.+++|+|||....-.+....  ..|.+++++.-
T Consensus        45 ~iv~a~TGsGKT~~~~l~~~~~~~~~~~~~~lil~p   80 (208)
T d1hv8a1          45 IVAQARTGSGKTASFAIPLIELVNENNGIEAIILTP   80 (208)
T ss_dssp             EEEECCSSSSHHHHHHHHHHHHSCSSSSCCEEEECS
T ss_pred             eeeechhcccccceeecccccccccccCcceEEEee
Confidence            56778999999987765554432  23556665443

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {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: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=90.48  E-value=0.1  Score=45.46  Aligned_cols=83  Identities=12%  Similarity=0.137  Sum_probs=40.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe-ccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHc
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA-GDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKK  263 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId-~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~  263 (481)
                      +++++|...||||..+-+|+    ..+.+|.+|+ +.++-..-.+....|...-+-.......+.+..+.    +.. ..
T Consensus         1 iiLVtGGarSGKS~~AE~l~----~~~~~~~YiAT~~~~D~em~~RI~~Hr~rR~~~w~tiE~~~~l~~~----l~~-~~   71 (180)
T d1c9ka_           1 MILVTGGARSGKSRHAEALI----GDAPQVLYIATSQILDDEMAARIQHHKDGRPAHWRTAECWRHLDTL----ITA-DL   71 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHH----CSCSSEEEEECCCC------CHHHHHHHTSCTTEEEECCSSCGGGT----SCT-TS
T ss_pred             CEEEECCCCccHHHHHHHHH----hcCCCcEEEEccCCCCHHHHHHHHHHHhcCcCCCEEecccccHHHH----HHh-hc
Confidence            46889999999999987764    4455555554 43442222233334433333222222222221111    111 12


Q ss_pred             CCCcEEEEcCCCC
Q 011624          264 KNVDVVIVDTAGR  276 (481)
Q Consensus       264 ~~~D~VIIDt~G~  276 (481)
                      ...|.|+|||-+.
T Consensus        72 ~~~~~vLlDclt~   84 (180)
T d1c9ka_          72 APDDAILLECITT   84 (180)
T ss_dssp             CTTCEEEEECHHH
T ss_pred             CcccchhhhhhhH
Confidence            4567888888644

>d1eg7a_ c.37.1.10 (A:) Formyltetrahydrofolate synthetase {Moorella thermoacetica [TaxId: 1525]}

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: Formyltetrahydrofolate synthetase
species: Moorella thermoacetica [TaxId: 1525]

Probab=90.46  E-value=0.18  Score=50.65  Aligned_cols=40  Identities=33%  Similarity=0.428  Sum_probs=33.1

Q ss_pred             CCEEEEEE----cCCCCCHHHHHHHHHHHHHHcCCeEEEEeccC
Q 011624          182 RPTVILLA----GLQGVGKTTVSAKLANYLKKQGKSCMLVAGDV  221 (481)
Q Consensus       182 ~~~VI~i~----G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~  221 (481)
                      ..+.|+++    .|-|.|||||+..|+..|.+.|+++.+.=-.|
T Consensus        50 ~gklilVTaitPTp~GEGKtTttiGL~~aL~~lgk~~~~~lReP   93 (549)
T d1eg7a_          50 DGKLILVTAITPTPAGEGKTTTSVGLTDALARLGKRVMVCLREP   93 (549)
T ss_dssp             CCEEEEEEESSCCTTCCCHHHHHHHHHHHHHHTTCCEEEEECCC
T ss_pred             CceEEEEEeCCCCCCCCCcceeHHhHHHHHHHhCCceEEEEecC
Confidence            35677776    35899999999999999999999998765554

>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=90.43  E-value=0.043  Score=52.58  Aligned_cols=34  Identities=26%  Similarity=0.431  Sum_probs=29.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          185 VILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      .|.|-|.=|+||||++..|+.+|..+|.+|.++.
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~~   40 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHFAITPNRILLIG   40 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTTTTSGGGEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCceEEEe
Confidence            4677799999999999999999998898888653

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {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 YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=90.14  E-value=0.3  Score=44.78  Aligned_cols=23  Identities=39%  Similarity=0.627  Sum_probs=20.1

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      .+.-++++|.+.|||||++..|.
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~  133 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLA  133 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHH
T ss_pred             CceEEEEEecCccchhhhhhhhh
Confidence            45678899999999999999885

>d2gc6a2 c.72.2.2 (A:1-296) Folylpolyglutamate synthetase {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: Folylpolyglutamate synthetase
domain: Folylpolyglutamate synthetase
species: Lactobacillus casei [TaxId: 1582]

Probab=89.93  E-value=0.24  Score=46.00  Aligned_cols=36  Identities=22%  Similarity=0.340  Sum_probs=31.3

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      +-++|.|+|..  |||||+.-|+.-|...|++|.+...
T Consensus        38 ~lkvI~VTGTN--GKtST~~~i~~IL~~~G~kvG~~tS   73 (296)
T d2gc6a2          38 QGRYIHVTGTN--GKGSAANAIAHVLEASGLTVGLYTA   73 (296)
T ss_dssp             SSCEEEEECSS--SHHHHHHHHHHHHHHTTCCEEEECS
T ss_pred             hCCEEEEeccC--cHHHHHHHHHHHHHhcCCceeeeec
Confidence            34699999876  6999999999999999999998665

>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=89.47  E-value=0.094  Score=44.82  Aligned_cols=85  Identities=20%  Similarity=0.146  Sum_probs=46.4

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH---HHhhh----cCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV---TTFNI----EIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~---~~f~~----~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+-+.||+|.-.     ...+... ..-.++.+++|.|.+...+.....   ..+..    ...+.-+|.||.|....
T Consensus        63 ~~~~~i~dt~G~e~-----~~~~~~~-~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~  136 (186)
T d2f7sa1          63 KVHLQLWDTAGQER-----FRSLTTA-FFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQ  136 (186)
T ss_dssp             EEEEEEEEEESHHH-----HHHHHHH-HHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGG
T ss_pred             eEEeccccCCcchh-----hHHHHHH-HHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhh
Confidence            35578889988531     1111111 112458899999986554333222   11111    11234578899996432


Q ss_pred             ----hhHHHHHHHHhCCCeEEe
Q 011624          338 ----GGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV~~i  355 (481)
                          ...+..++...++|+..+
T Consensus       137 ~~v~~~e~~~~~~~~~~~~~e~  158 (186)
T d2f7sa1         137 REVNERQARELADKYGIPYFET  158 (186)
T ss_dssp             CCSCHHHHHHHHHHTTCCEEEE
T ss_pred             hcchHHHHHHHHHHcCCEEEEE
Confidence                234566777788887433

>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=89.37  E-value=0.098  Score=43.98  Aligned_cols=82  Identities=15%  Similarity=0.097  Sum_probs=44.5

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH------HHHHhh---hcCCeeEEEEcCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA------LVTTFN---IEIGITGAILTKLDG  334 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~------~~~~f~---~~~~i~GvIlnKvD~  334 (481)
                      ..+.+.+.|++|...........+    .  ..+.+++|.|.+...+...      .+....   ..++ .-+|.||.|.
T Consensus        48 ~~~~l~~~d~~g~~~~~~~~~~~~----~--~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p-iilVgnK~Dl  120 (171)
T d2erxa1          48 SICTLQITDTTGSHQFPAMQRLSI----S--KGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIP-IMLVGNKCDE  120 (171)
T ss_dssp             EEEEEEEEECCSCSSCHHHHHHHH----H--HCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCC-EEEEEECGGG
T ss_pred             ccceeccccccccccccccccccc----c--ceeEEEEEeecccccchhcccchhhhhhhhhccCCCCc-EEEEeecccc
Confidence            346678899998754322111111    1  2377899999865433221      122211   2222 3467799995


Q ss_pred             CC----chhHHHHHHHHhCCCe
Q 011624          335 DS----RGGAALSVKEVSGKPI  352 (481)
Q Consensus       335 ~~----~~g~~~~~~~~~glPV  352 (481)
                      ..    ....+..++...++|.
T Consensus       121 ~~~~~v~~~e~~~~~~~~~~~~  142 (171)
T d2erxa1         121 SPSREVQSSEAEALARTWKCAF  142 (171)
T ss_dssp             GGGCCSCHHHHHHHHHHHTCEE
T ss_pred             cccccccHHHHHHHHHHcCCeE
Confidence            32    2344566777778776

>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=89.14  E-value=0.1  Score=43.93  Aligned_cols=19  Identities=32%  Similarity=0.641  Sum_probs=16.7

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||++..+.
T Consensus         5 i~~vG~~~vGKSsLi~~~~   23 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYV   23 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6788999999999997764

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {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: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=88.96  E-value=0.031  Score=47.44  Aligned_cols=25  Identities=36%  Similarity=0.422  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      .+.+++|++|+||||+..+|...|.
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc
Confidence            4788899999999999999987663

>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=88.84  E-value=0.11  Score=43.46  Aligned_cols=83  Identities=22%  Similarity=0.138  Sum_probs=44.6

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHHH------HhhhcCC-eeEEEEcCCCCCC-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVT------TFNIEIG-ITGAILTKLDGDS-  336 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~~------~f~~~~~-i~GvIlnKvD~~~-  336 (481)
                      ...+-+.|++|..... .....   ..  ...+.+++|.|.+...+......      ......+ +.-+|.||+|... 
T Consensus        50 ~~~l~~~d~~g~~~~~-~~~~~---~~--~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~  123 (167)
T d1kaoa_          50 PSVLEILDTAGTEQFA-SMRDL---YI--KNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESE  123 (167)
T ss_dssp             EEEEEEEECCCTTCCH-HHHHH---HH--HHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGG
T ss_pred             eEeeccccCCCccccc-cchHH---Hh--hcccceeeeeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhc
Confidence            4567888999864321 11111   11  12377889999865544333221      1111122 2457889999532 


Q ss_pred             ---chhHHHHHHHHhCCCeE
Q 011624          337 ---RGGAALSVKEVSGKPIK  353 (481)
Q Consensus       337 ---~~g~~~~~~~~~glPV~  353 (481)
                         ....+...+...+.|..
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~  143 (167)
T d1kaoa_         124 REVSSSEGRALAEEWGCPFM  143 (167)
T ss_dssp             CCSCHHHHHHHHHHHTSCEE
T ss_pred             ccchHHHHHHHHHHcCCeEE
Confidence               23344566677787763

>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=88.74  E-value=0.083  Score=45.08  Aligned_cols=19  Identities=32%  Similarity=0.541  Sum_probs=17.0

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|++||||||+...|.
T Consensus         4 VaiiG~~nvGKSSLin~L~   22 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVS   22 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSE
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7889999999999998774

>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=88.62  E-value=0.12  Score=43.56  Aligned_cols=81  Identities=16%  Similarity=0.054  Sum_probs=43.0

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH------H-HhhhcCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV------T-TFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~------~-~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      ...+.+.|++|.-... .+...   .  ....+.+++|.|.....+.....      . ...+. -+.-+|.||.|...+
T Consensus        54 ~~~~~~~d~~g~~~~~-~~~~~---~--~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~-~~iilvgnK~Dl~~~  126 (170)
T d1r2qa_          54 TVKFEIWDTAGQERYH-SLAPM---Y--YRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN-IVIALSGNKADLANK  126 (170)
T ss_dssp             EEEEEEEEECCSGGGG-GGHHH---H--HTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTT-CEEEEEEECGGGGGG
T ss_pred             EEEEEeccCCCchhhh-hhHHH---H--hhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCC-ceEEeeccccccccc
Confidence            4668888999874321 11111   1  12347888999976543322211      1 12222 234577899995322


Q ss_pred             ----hhHHHHHHHHhCCCe
Q 011624          338 ----GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ----~g~~~~~~~~~glPV  352 (481)
                          ...+...+...+.|.
T Consensus       127 ~~v~~e~~~~~~~~~~~~~  145 (170)
T d1r2qa_         127 RAVDFQEAQSYADDNSLLF  145 (170)
T ss_dssp             CCSCHHHHHHHHHHTTCEE
T ss_pred             ccccHHHHHHHHHhcCCEE
Confidence                233455666666655

>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=88.53  E-value=0.12  Score=43.00  Aligned_cols=87  Identities=17%  Similarity=0.117  Sum_probs=47.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH---HHH---Hhh-hcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA---LVT---TFN-IEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~---~~~---~f~-~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+.+.|++|..........   ..  ....+.+++|.|.....+...   ...   ... ..--+.-+|.||.|...
T Consensus        49 ~~~~~~~~~~~~~~~~~~~~~~---~~--~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~  123 (165)
T d1z06a1          49 ERIKIQLWDTAGQERFRKSMVQ---HY--YRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRS  123 (165)
T ss_dssp             EEEEEEEEECCCSHHHHTTTHH---HH--HTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGG
T ss_pred             cceEEEEEeccCchhhccccce---ee--ecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchh
Confidence            3566788899876421111111   11  124588899999865543322   121   111 11123558889999543


Q ss_pred             c----hhHHHHHHHHhCCCeEEe
Q 011624          337 R----GGAALSVKEVSGKPIKLV  355 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV~~i  355 (481)
                      +    ...+...+...+.|...+
T Consensus       124 ~~~v~~~~~~~~~~~~~~~~~e~  146 (165)
T d1z06a1         124 AIQVPTDLAQKFADTHSMPLFET  146 (165)
T ss_dssp             GCCSCHHHHHHHHHHTTCCEEEC
T ss_pred             ccchhHHHHHHHHHHCCCEEEEE
Confidence            2    345567778888887433

>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=88.41  E-value=0.11  Score=43.76  Aligned_cols=82  Identities=20%  Similarity=0.080  Sum_probs=43.5

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhhhcCCeeEEEEcCCCCCCc-
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFNIEIGITGAILTKLDGDSR-  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~~~~~i~GvIlnKvD~~~~-  337 (481)
                      .+.+.+.||||.... ..+..    . ....++.+++|.|..........      +......-.+.-++.||.|...+ 
T Consensus        53 ~~~~~i~D~~G~~~~-~~~~~----~-~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~  126 (174)
T d2bmea1          53 YVKLQIWDTAGQERF-RSVTR----S-YYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADR  126 (174)
T ss_dssp             EEEEEEEEECCSGGG-HHHHH----T-TSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGC
T ss_pred             ceeEEEEECCCchhh-hhhHH----H-HhhhCCEEEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchh
Confidence            456889999996421 11111    1 12245788999998655432221      11222122345588999995332 


Q ss_pred             ---hhHHHHHHHHhCCCe
Q 011624          338 ---GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV  352 (481)
                         ...+...+...+.|+
T Consensus       127 ~~~~~~~~~~~~~~~~~~  144 (174)
T d2bmea1         127 EVTFLEASRFAQENELMF  144 (174)
T ss_dssp             CSCHHHHHHHHHHTTCEE
T ss_pred             chhhhHHHHHHHhCCCEE
Confidence               223345555666665

>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=88.38  E-value=0.042  Score=49.64  Aligned_cols=29  Identities=28%  Similarity=0.402  Sum_probs=23.8

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHH--HHHHcCC
Q 011624          184 TVILLAGLQGVGKTTVSAKLAN--YLKKQGK  212 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~--~L~~~G~  212 (481)
                      ++++++|++.+||||....++.  .|++-|.
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~   66 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGS   66 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTC
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccc
Confidence            4889999999999999987764  5677674

>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=87.74  E-value=0.11  Score=43.66  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=18.9

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      ...-|+++|.++|||||+...|.
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~   37 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLT   37 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHh
Confidence            34568889999999999997773

>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=87.68  E-value=0.15  Score=42.90  Aligned_cols=82  Identities=16%  Similarity=0.032  Sum_probs=46.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHH-hhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTT-FNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~-f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+-|.|++|.... . ....   ...  .++.+++|.|.+...+....      ... ....-.+.-+|.||.|...
T Consensus        48 ~~~~l~i~D~~g~~~~-~-~~~~---~~~--~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~  120 (168)
T d2atva1          48 EVVSMEILDTAGQEDT-I-QREG---HMR--WGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDH  120 (168)
T ss_dssp             EEEEEEEEECCCCCCC-H-HHHH---HHH--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGG
T ss_pred             cceEEEEeeccccccc-c-cchh---hhc--ccccceeecccCCccchhhhhhhcccccccccccCcceeeeccchhhhh
Confidence            3467889999987542 1 1111   111  24778999998655433221      111 1212234568899999642


Q ss_pred             ----chhHHHHHHHHhCCCe
Q 011624          337 ----RGGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ----~~g~~~~~~~~~glPV  352 (481)
                          ....+..++...+.|.
T Consensus       121 ~r~V~~~e~~~~a~~~~~~~  140 (168)
T d2atva1         121 SRQVSTEEGEKLATELACAF  140 (168)
T ss_dssp             GCCSCHHHHHHHHHHHTSEE
T ss_pred             hccCcHHHHHHHHHHhCCeE
Confidence                2345566777778765

>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=87.59  E-value=0.053  Score=49.22  Aligned_cols=22  Identities=27%  Similarity=0.545  Sum_probs=19.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA  204 (481)
                      +++.+++|.+||||||++..|.
T Consensus        97 ~~~~vl~G~SGVGKSSLiN~L~  118 (231)
T d1t9ha2          97 DKTTVFAGQSGVGKSSLLNAIS  118 (231)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHC
T ss_pred             cceEEEECCCCccHHHHHHhhc
Confidence            3466789999999999998885

>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=87.51  E-value=0.15  Score=43.48  Aligned_cols=20  Identities=25%  Similarity=0.298  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+||||||++..+.
T Consensus         7 KivviG~~~vGKTsli~~~~   26 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYT   26 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47788999999999998775

>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=87.50  E-value=0.11  Score=47.07  Aligned_cols=32  Identities=19%  Similarity=0.223  Sum_probs=26.0

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHH--HHHHcCCeE
Q 011624          183 PTVILLAGLQGVGKTTVSAKLAN--YLKKQGKSC  214 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~--~L~~~G~kV  214 (481)
                      .++++++|++.+||||....++.  .|++-|.-|
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~V   74 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALIALMAYIGSYV   74 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCB
T ss_pred             ceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeE
Confidence            46899999999999999988774  667777543

>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=87.49  E-value=0.16  Score=42.77  Aligned_cols=19  Identities=32%  Similarity=0.632  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||++..+.
T Consensus         9 I~vvG~~~vGKSSli~~~~   27 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYV   27 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7889999999999997775

>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=87.42  E-value=0.15  Score=43.15  Aligned_cols=67  Identities=21%  Similarity=0.241  Sum_probs=37.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH-------HHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL-------VTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~-------~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+-|.|++|.-....     +.. ......+.+++|.|.+...+....       ...+.+++++ -+|.||.|...
T Consensus        48 ~~~~l~i~D~~g~~~~~~-----~~~-~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~pi-ilvgnK~Dl~~  120 (177)
T d1kmqa_          48 KQVELALWDTAGLEDYDR-----LRP-LSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI-ILVGNKKDLRN  120 (177)
T ss_dssp             EEEEEEEEEECCSGGGTT-----TGG-GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSCE-EEEEECGGGTT
T ss_pred             cceeeeccccCccchhcc-----cch-hhcccchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCce-EEeeecccccc
Confidence            456788999998743211     100 112245788999998655433222       2333334443 36679999654


Q ss_pred             c
Q 011624          337 R  337 (481)
Q Consensus       337 ~  337 (481)
                      .
T Consensus       121 ~  121 (177)
T d1kmqa_         121 D  121 (177)
T ss_dssp             C
T ss_pred             h
Confidence            3

>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=87.37  E-value=0.16  Score=42.53  Aligned_cols=81  Identities=15%  Similarity=0.071  Sum_probs=43.3

Q ss_pred             CcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhhhcCCeeEEEEcCCCCCCc--
Q 011624          266 VDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFNIEIGITGAILTKLDGDSR--  337 (481)
Q Consensus       266 ~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~~~~~i~GvIlnKvD~~~~--  337 (481)
                      +.+.|.|++|.... ..+...     ....++.+++|.|....++....      +......-...-+|.||.|....  
T Consensus        53 ~~~~i~d~~g~~~~-~~~~~~-----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~  126 (167)
T d1z0ja1          53 HKFLIWDTAGLERF-RALAPM-----YYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVRE  126 (167)
T ss_dssp             EEEEEEEECCSGGG-GGGTHH-----HHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCC
T ss_pred             cceeeeecCCchhh-hHHHHH-----HHhhccceEEEeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccc
Confidence            44668899986532 111111     11234788899998654332221      12222223345588999996422  


Q ss_pred             --hhHHHHHHHHhCCCe
Q 011624          338 --GGAALSVKEVSGKPI  352 (481)
Q Consensus       338 --~g~~~~~~~~~glPV  352 (481)
                        ...+..++...+.|.
T Consensus       127 v~~~~~~~~~~~~~~~~  143 (167)
T d1z0ja1         127 VMERDAKDYADSIHAIF  143 (167)
T ss_dssp             SCHHHHHHHHHHTTCEE
T ss_pred             hhHHHHHHHHHHcCCEE
Confidence              234456666667664

>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=87.30  E-value=0.15  Score=42.70  Aligned_cols=83  Identities=12%  Similarity=0.055  Sum_probs=45.5

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH------HHHhhhcCC-eeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL------VTTFNIEIG-ITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~------~~~f~~~~~-i~GvIlnKvD~~~  336 (481)
                      ..+.+-+.||+|...... +.     .......+.+++|.|.+...+....      +.......+ +.-+|.||.|...
T Consensus        50 ~~~~l~i~d~~g~~~~~~-~~-----~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~  123 (167)
T d1xtqa1          50 QEYHLQLVDTAGQDEYSI-FP-----QTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM  123 (167)
T ss_dssp             EEEEEEEEECCCCCTTCC-CC-----GGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGG
T ss_pred             EEEEeeeccccccccccc-cc-----chhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccceeeecccccccc
Confidence            356788899998753210 00     0112245788999998665433222      222211122 3457889999643


Q ss_pred             c----hhHHHHHHHHhCCCe
Q 011624          337 R----GGAALSVKEVSGKPI  352 (481)
Q Consensus       337 ~----~g~~~~~~~~~glPV  352 (481)
                      +    ...+..++...+.|.
T Consensus       124 ~r~v~~~~~~~~a~~~~~~~  143 (167)
T d1xtqa1         124 ERVISYEEGKALAESWNAAF  143 (167)
T ss_dssp             GCCSCHHHHHHHHHHHTCEE
T ss_pred             ccchhHHHHHHHHHHcCCEE
Confidence            2    344566677777664

>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=87.26  E-value=0.15  Score=42.70  Aligned_cols=83  Identities=19%  Similarity=0.112  Sum_probs=44.9

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHH------HHHHHhhhcC-CeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAA------ALVTTFNIEI-GITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~------~~~~~f~~~~-~i~GvIlnKvD~~~~  337 (481)
                      .+.+.+.|++|...... ....   ...  .++.+++|.|.....+..      ..+......- -+.-+|.||.|....
T Consensus        50 ~~~l~~~d~~~~~~~~~-~~~~---~~~--~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~  123 (166)
T d1ctqa_          50 TCLLDILDTAGQEEYSA-MRDQ---YMR--TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAAR  123 (166)
T ss_dssp             EEEEEEEEECCCGGGHH-HHHH---HHH--HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCC
T ss_pred             eeeeeeeeccCcccccc-chhh---hhh--cccccceeecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccccc
Confidence            45577889988754321 1111   111  236788888886543221      2222222111 134578999996432


Q ss_pred             ---hhHHHHHHHHhCCCeE
Q 011624          338 ---GGAALSVKEVSGKPIK  353 (481)
Q Consensus       338 ---~g~~~~~~~~~glPV~  353 (481)
                         ...+..++...++|..
T Consensus       124 ~~~~~~~~~~~~~~~~~~~  142 (166)
T d1ctqa_         124 TVESRQAQDLARSYGIPYI  142 (166)
T ss_dssp             CSCHHHHHHHHHHHTCCEE
T ss_pred             cccHHHHHHHHHHhCCeEE
Confidence               3445667777888763

>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=87.24  E-value=0.16  Score=43.24  Aligned_cols=19  Identities=32%  Similarity=0.628  Sum_probs=16.8

Q ss_pred             EEEEcCCCCCHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA  204 (481)
                      |+++|.+||||||++..+.
T Consensus         5 v~vvG~~~vGKSSLi~~l~   23 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYV   23 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6788999999999998774

>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=87.15  E-value=0.19  Score=42.44  Aligned_cols=82  Identities=17%  Similarity=0.089  Sum_probs=44.8

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH------HHhh--hcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV------TTFN--IEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~------~~f~--~~~~i~GvIlnKvD~~  335 (481)
                      ..+.+.+.|++|........ ..   ...  ..+.+++|.|.....+.....      ....  ..+ +.-+|.||.|..
T Consensus        52 ~~~~l~~~d~~g~~~~~~~~-~~---~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~-p~ilvgnK~Dl~  124 (173)
T d2fn4a1          52 IPARLDILDTAGQEEFGAMR-EQ---YMR--AGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDF-PVVLVGNKADLE  124 (173)
T ss_dssp             EEEEEEEEECCCTTTTSCCH-HH---HHH--HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCC-CEEEEEECGGGG
T ss_pred             eeeeeecccccccccccccc-ch---hhc--cceeeeeecccccccccchhhhhhHHHHHHhccCCC-ceEEEEEeechh
Confidence            35678889999875432111 11   111  237789999986554332221      1111  122 334788999953


Q ss_pred             Cc----hhHHHHHHHHhCCCe
Q 011624          336 SR----GGAALSVKEVSGKPI  352 (481)
Q Consensus       336 ~~----~g~~~~~~~~~glPV  352 (481)
                      ..    ...+...+...++|.
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~~  145 (173)
T d2fn4a1         125 SQRQVPRSEASAFGASHHVAY  145 (173)
T ss_dssp             GGCCSCHHHHHHHHHHTTCEE
T ss_pred             hccccchhhhhHHHHhcCCEE
Confidence            22    334566667777765

>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=86.77  E-value=0.093  Score=49.59  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=19.9

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Q 011624          186 ILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +++.|++|+||||++..|+..|
T Consensus        31 vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_          31 VLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             EEEECCGGGCTTHHHHHHHHHS
T ss_pred             EEEECCCCccHHHHHHHHHHhC
Confidence            7888999999999999998766

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {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: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.65  E-value=5.8  Score=33.78  Aligned_cols=14  Identities=43%  Similarity=0.593  Sum_probs=11.7

Q ss_pred             EEEEcCCCCCHHHH
Q 011624          186 ILLAGLQGVGKTTV  199 (481)
Q Consensus       186 I~i~G~~GvGKTTt  199 (481)
                      +++.+++|+|||..
T Consensus        41 vi~~a~tGsGKTla   54 (206)
T d1s2ma1          41 ILARAKNGTGKTAA   54 (206)
T ss_dssp             EEEECCTTSCHHHH
T ss_pred             EEEecCCcchhhhh
Confidence            67789999999954

>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=86.55  E-value=0.17  Score=43.25  Aligned_cols=19  Identities=37%  Similarity=0.482  Sum_probs=16.7

Q ss_pred             EEEEEcCCCCCHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKL  203 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~L  203 (481)
                      -|++.|.+||||||+...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3678899999999999877

>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=86.52  E-value=0.16  Score=48.41  Aligned_cols=33  Identities=24%  Similarity=0.384  Sum_probs=26.0

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      ..|.|-|.=|+||||++..|+.++..++ .+.++
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~l~~~~-~v~~~   39 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASAASGGS-PTLYF   39 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSGGGCSS-CEEEE
T ss_pred             EEEEEECCccCCHHHHHHHHHHHhccCC-CeEEE
Confidence            4677779999999999999998887655 44433

>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=86.44  E-value=0.17  Score=42.76  Aligned_cols=19  Identities=32%  Similarity=0.532  Sum_probs=16.0

Q ss_pred             EEEEEcCCCCCHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKL  203 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~L  203 (481)
                      -|++.|.+||||||+...+
T Consensus         4 KivllG~~~vGKTsl~~r~   22 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQM   22 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3678899999999998654

>d1u0sy_ c.23.1.1 (Y:) CheY protein {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: CheY protein
species: Thermotoga maritima [TaxId: 2336]

Probab=86.32  E-value=1.9  Score=33.74  Aligned_cols=70  Identities=17%  Similarity=0.182  Sum_probs=38.7

Q ss_pred             CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCCCCccccHHHHHHHHh
Q 011624          211 GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTAGRLQIDKAMMDELKD  289 (481)
Q Consensus       211 G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~G~~~~d~~~~~el~~  289 (481)
                      |+||++||-|+.   ..+.+..+-+..|..+...  ..+..    ++++.++...+|+||+|-.--......++.++.+
T Consensus         1 GkrILivDD~~~---~~~~l~~~L~~~g~~v~~~--a~~~~----~al~~~~~~~~dliilD~~mp~~~G~e~~~~ir~   70 (118)
T d1u0sy_           1 GKRVLIVDDAAF---MRMMLKDIITKAGYEVAGE--ATNGR----EAVEKYKELKPDIVTMDITMPEMNGIDAIKEIMK   70 (118)
T ss_dssp             CCEEEEECSCHH---HHHHHHHHHHHTTCEEEEE--ESSHH----HHHHHHHHHCCSEEEEECSCGGGCHHHHHHHHHH
T ss_pred             CCEEEEEeCCHH---HHHHHHHHHHHcCCceEEE--ECCHH----HHHHHHHhccCCEEEEecCCCCCCHHHHHHHHHH
Confidence            889999998853   3333444445567665421  12333    3344444468999999973211123345555543

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=86.31  E-value=0.64  Score=38.40  Aligned_cols=38  Identities=13%  Similarity=0.037  Sum_probs=33.8

Q ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Q 011624          181 SRPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVA  218 (481)
Q Consensus       181 ~~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId  218 (481)
                      +.+.+-+++||=.+||||-....+..+...|++|+++.
T Consensus         5 ~~G~l~lI~GpMfSGKTteLi~~~~~~~~~g~~vl~i~   42 (141)
T d1xx6a1           5 DHGWVEVIVGPMYSGKSEELIRRIRRAKIAKQKIQVFK   42 (141)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cceeEEEEEeccccHHHHHHHHHHHHhhhcCCcEEEEE
Confidence            35678899999999999999999999999999999664

>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=86.30  E-value=3.6  Score=37.57  Aligned_cols=26  Identities=42%  Similarity=0.431  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      .-+.+.|..|+||||++..++....+
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~~~   94 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNVAK   94 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHTT
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            34667777899999999999987654

>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=86.12  E-value=0.21  Score=41.70  Aligned_cols=20  Identities=25%  Similarity=0.599  Sum_probs=17.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|+++|.+|||||++...+.
T Consensus         5 KivvvG~~~vGKTsli~r~~   24 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFV   24 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47788999999999997764

>d1e69a_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.87  E-value=0.13  Score=47.44  Aligned_cols=25  Identities=20%  Similarity=0.352  Sum_probs=20.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +.+-+++|++|+||||+.-+|...|
T Consensus        24 ~~lnvlvG~NgsGKS~iL~Ai~~~l   48 (308)
T d1e69a_          24 DRVTAIVGPNGSGKSNIIDAIKWVF   48 (308)
T ss_dssp             SSEEEEECCTTTCSTHHHHHHHHTS
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHh
Confidence            4588999999999999988886543

>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=85.44  E-value=0.21  Score=42.68  Aligned_cols=67  Identities=16%  Similarity=0.146  Sum_probs=37.0

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHH-------HHHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAAL-------VTTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~-------~~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+-+.|++|.-....     +. -......+.+++|.|.+..++....       ++.+.++.. .-+|.||.|...
T Consensus        55 ~~~~l~i~D~~g~e~~~~-----~~-~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~~  127 (185)
T d2atxa1          55 KQYLLGLYDTAGQEDYDR-----LR-PLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP-FLLIGTQIDLRD  127 (185)
T ss_dssp             CEEEEEEECCCCSSSSTT-----TG-GGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC-EEEEEECTTSTT
T ss_pred             ceEEeecccccccchhhh-----hh-hhcccccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCC-eeEeeecccccc
Confidence            346678999998743211     10 0112235788999998665443222       223333333 347789999654


Q ss_pred             c
Q 011624          337 R  337 (481)
Q Consensus       337 ~  337 (481)
                      .
T Consensus       128 ~  128 (185)
T d2atxa1         128 D  128 (185)
T ss_dssp             C
T ss_pred             c
Confidence            3

>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=85.25  E-value=0.23  Score=41.64  Aligned_cols=82  Identities=20%  Similarity=0.111  Sum_probs=43.9

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHH------HHHHhh--hcCCeeEEEEcCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAA------LVTTFN--IEIGITGAILTKLDGD  335 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~------~~~~f~--~~~~i~GvIlnKvD~~  335 (481)
                      ..+.+.+.|++|.... ..+...   ..+  ..+.+++|.|.....+...      .+..+.  ..++ ..+|.||.|..
T Consensus        50 ~~~~l~i~d~~g~~~~-~~~~~~---~~~--~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiivgnK~Dl~  122 (168)
T d1u8za_          50 EEVQIDILDTAGQEDY-AAIRDN---YFR--SGEGFLCVFSITEMESFAATADFREQILRVKEDENVP-FLLVGNKSDLE  122 (168)
T ss_dssp             EEEEEEEEECCC---C-HHHHHH---HHH--HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSC-EEEEEECGGGG
T ss_pred             ccccccccccccccch-hhhhhh---ccc--ccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCc-EEEEecccccc
Confidence            4567889999987542 222221   111  2477899999865433222      122222  2222 45788999953


Q ss_pred             C----chhHHHHHHHHhCCCe
Q 011624          336 S----RGGAALSVKEVSGKPI  352 (481)
Q Consensus       336 ~----~~g~~~~~~~~~glPV  352 (481)
                      .    ....+...+...+.+.
T Consensus       123 ~~~~v~~~~~~~~~~~~~~~~  143 (168)
T d1u8za_         123 DKRQVSVEEAKNRADQWNVNY  143 (168)
T ss_dssp             GGCCSCHHHHHHHHHHHTCEE
T ss_pred             ccccccHHHHHHHHHHcCCeE
Confidence            2    2345566777777765

>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=85.15  E-value=0.2  Score=42.50  Aligned_cols=19  Identities=32%  Similarity=0.464  Sum_probs=16.5

Q ss_pred             EEEEEcCCCCCHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKL  203 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~L  203 (481)
                      -|++.|.+||||||+...+
T Consensus         4 Kiv~lG~~~vGKTsll~r~   22 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQM   22 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3678899999999999766

>d1j6ua3 c.72.2.1 (A:89-295) UDP-N-acetylmuramate-alanine ligase MurC {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Thermotoga maritima [TaxId: 2336]

Probab=84.99  E-value=0.49  Score=40.88  Aligned_cols=36  Identities=33%  Similarity=0.411  Sum_probs=29.4

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      .+++|+++|..  |||||+.-|+..|...|+++..+.+
T Consensus        13 ~~~~iAITGTn--GKTTt~~~l~~iL~~~g~~~~~~~g   48 (207)
T d1j6ua3          13 KKEEFAVTGTD--GKTTTTAMVAHVLKHLRKSPTVFLG   48 (207)
T ss_dssp             CCCEEEEECSS--SHHHHHHHHHHHHHHTTCCCEEECS
T ss_pred             CCCEEEEECCC--CHHHHHHHHHHHHHhCCCCCeEEEC
Confidence            45799999874  6999999999999999988665543

>d1w1wa_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.86  E-value=0.22  Score=47.50  Aligned_cols=25  Identities=20%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYL  207 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L  207 (481)
                      +.+-+++|++|+||||+.-+|...|
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~~~l   49 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAISFVL   49 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4588899999999999999997655

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, 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: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.82  E-value=0.7  Score=37.68  Aligned_cols=37  Identities=14%  Similarity=0.194  Sum_probs=32.6

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      +.+-+++||=.+||||-....+..+...|++|+++..
T Consensus         2 G~L~li~GpMfsGKTt~Li~~~~~~~~~g~~v~~ikp   38 (133)
T d1xbta1           2 GQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKY   38 (133)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             cEEEEEEecccCHHHHHHHHHHHHHHHcCCcEEEEec
Confidence            4677889999999999999999988889999998763

>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=84.70  E-value=0.23  Score=42.55  Aligned_cols=67  Identities=15%  Similarity=0.110  Sum_probs=36.6

Q ss_pred             CCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH-------HHhhhcCCeeEEEEcCCCCCCc
Q 011624          265 NVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV-------TTFNIEIGITGAILTKLDGDSR  337 (481)
Q Consensus       265 ~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~-------~~f~~~~~i~GvIlnKvD~~~~  337 (481)
                      .+.+-|.|++|.-...     .+... .....+.+++|.|.+...+.....       ..+....+ ..+|.||.|....
T Consensus        50 ~~~l~i~D~~g~~~~~-----~~~~~-~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~-i~lvgnK~Dl~~~  122 (191)
T d2ngra_          50 PYTLGLFDTAGQEDYD-----RLRPL-SYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTP-FLLVGTQIDLRDD  122 (191)
T ss_dssp             EEEEEEEEECCSGGGT-----TTGGG-GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCC-EEEEEECGGGGGC
T ss_pred             eeeeeccccccchhhh-----hhhhh-cccccceeecccccchHHHHHHHHHHHHHHHhhcCCCCc-eEEEecccccccc
Confidence            4568889999874311     11111 112358889999986554322221       22222333 4578899996544


Q ss_pred             h
Q 011624          338 G  338 (481)
Q Consensus       338 ~  338 (481)
                      .
T Consensus       123 ~  123 (191)
T d2ngra_         123 P  123 (191)
T ss_dssp             H
T ss_pred             c
Confidence            3

>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=84.65  E-value=1.9  Score=39.85  Aligned_cols=46  Identities=20%  Similarity=0.223  Sum_probs=29.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHc-CC-eEEEEeccCCchhHHHH
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQ-GK-SCMLVAGDVYRPAAIDQ  229 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~-G~-kVlLId~D~~rp~aidq  229 (481)
                      +.-+.+.|..|+||||++..++...... .. .+.++-.+ .|+.....
T Consensus        43 GQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~~ig-er~~ev~~   90 (289)
T d1xpua3          43 GQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLID-ERPEEVTE   90 (289)
T ss_dssp             TCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEEEEE-ECHHHHHH
T ss_pred             CCeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEeec-eeHHHHHh
Confidence            4467777889999999999999877644 33 33333334 34444333

>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=84.33  E-value=0.24  Score=43.76  Aligned_cols=20  Identities=30%  Similarity=0.496  Sum_probs=17.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKL  203 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~L  203 (481)
                      .-|++.|.+||||||+...+
T Consensus         7 ~KilllG~~~vGKTsll~~~   26 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQM   26 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            35788899999999998776

>d1sbya1 c.2.1.2 (A:1-254) Drosophila alcohol dehydrogenase {Fly (Drosophila lebanonensis) [TaxId: 7225]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: Drosophila alcohol dehydrogenase
species: Fly (Drosophila lebanonensis) [TaxId: 7225]

Probab=84.28  E-value=1.3  Score=39.80  Aligned_cols=89  Identities=22%  Similarity=0.313  Sum_probs=53.8

Q ss_pred             CEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       183 ~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++++++|- +|-|+-     +|..|+++|.+|.+++.+.-+.....++.......++..+..+...+. +.+.+.++.+
T Consensus         5 gK~vlITGgs~GIG~~-----~A~~la~~G~~vii~~r~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~-~~~~~~~~~~   78 (254)
T d1sbya1           5 NKNVIFVAALGGIGLD-----TSRELVKRNLKNFVILDRVENPTALAELKAINPKVNITFHTYDVTVPV-AESKKLLKKI   78 (254)
T ss_dssp             TCEEEEETTTSHHHHH-----HHHHHHHTCCSEEEEEESSCCHHHHHHHHHHCTTSEEEEEECCTTSCH-HHHHHHHHHH
T ss_pred             CCEEEEecCCCHHHHH-----HHHHHHHCCCEEEEEECCcccHHHHHHHHhhCCCCCEEEEEeecCCCH-HHHHHHHHHH
Confidence            357777765 777764     567888999999999877766666666554444444555555543232 2233444443


Q ss_pred             H--cCCCcEEEEcCCCCcc
Q 011624          262 K--KKNVDVVIVDTAGRLQ  278 (481)
Q Consensus       262 ~--~~~~D~VIIDt~G~~~  278 (481)
                      .  .+..|++| =.+|...
T Consensus        79 ~~~~g~iDilv-nnAG~~~   96 (254)
T d1sbya1          79 FDQLKTVDILI-NGAGILD   96 (254)
T ss_dssp             HHHHSCCCEEE-ECCCCCC
T ss_pred             HHHcCCCCEEE-eCCCCCC
Confidence            2  25778555 5677653

>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=84.15  E-value=0.27  Score=41.78  Aligned_cols=68  Identities=15%  Similarity=0.165  Sum_probs=37.3

Q ss_pred             CCCcEEEEcCCCCccccHHHHHHHHhhhhccCCceEEEEEeCcchHHHHHHH-------HHhhhcCCeeEEEEcCCCCCC
Q 011624          264 KNVDVVIVDTAGRLQIDKAMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALV-------TTFNIEIGITGAILTKLDGDS  336 (481)
Q Consensus       264 ~~~D~VIIDt~G~~~~d~~~~~el~~i~~~~~p~~vvLVvda~~~~~~~~~~-------~~f~~~~~i~GvIlnKvD~~~  336 (481)
                      ..+.+-|.|++|....+.     +.. ......+.+++|.|.+...+.....       ..+....+ .-+|-||.|...
T Consensus        48 ~~~~~~i~D~~g~~~~~~-----~~~-~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~-iilVgnK~Dl~~  120 (179)
T d1m7ba_          48 QRIELSLWDTSGSPYYDN-----VRP-LSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK-MLLVGCKSDLRT  120 (179)
T ss_dssp             CEEEEEEEEECCSGGGTT-----TGG-GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE-EEEEEECGGGGG
T ss_pred             eEEeeccccccccccccc-----ccc-chhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCCcce-EEEEEecccccc
Confidence            356778899998643211     100 1122458889999986654332221       22233333 347789999654


Q ss_pred             ch
Q 011624          337 RG  338 (481)
Q Consensus       337 ~~  338 (481)
                      ..
T Consensus       121 ~~  122 (179)
T d1m7ba_         121 DV  122 (179)
T ss_dssp             CH
T ss_pred             cc
Confidence            43

>d2jfga3 c.72.2.1 (A:94-297) UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD
species: Escherichia coli [TaxId: 562]

Probab=84.05  E-value=0.57  Score=40.19  Aligned_cols=33  Identities=21%  Similarity=0.369  Sum_probs=27.9

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      .+||.++|..  |||||+.-|+..|...|+++.+.
T Consensus        11 ~~vI~VTGT~--GKTTt~~~l~~iL~~~g~~~~~~   43 (204)
T d2jfga3          11 APIVAITGSN--GKSTVTTLVGEMAKAAGVNVGVG   43 (204)
T ss_dssp             SCEEEEECSS--SHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEECCC--CHHHHHHHHHHHHHhcCCCcccC
Confidence            3588898874  69999999999999999988743

>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=83.89  E-value=1.1  Score=40.13  Aligned_cols=40  Identities=18%  Similarity=0.287  Sum_probs=27.5

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchh
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPA  225 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~  225 (481)
                      |++.|..|+|||++|..|..+..........+++......
T Consensus        26 vlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~   65 (247)
T d1ny5a2          26 VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRD   65 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHH
T ss_pred             EEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhc
Confidence            5777999999999888776543344455666666655444

>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=83.04  E-value=0.28  Score=46.63  Aligned_cols=30  Identities=27%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEE
Q 011624          186 ILLAGLQGVGKTTVSAKLANYLKKQGKSCMLV  217 (481)
Q Consensus       186 I~i~G~~GvGKTTta~~LA~~L~~~G~kVlLI  217 (481)
                      |.|-|.=|+||||++..|+..+..  +.|.++
T Consensus         7 I~IEG~iGsGKTTl~~~La~~l~~--~~v~~~   36 (329)
T d1e2ka_           7 VYIDGPHGMGKTTTTQLLVALGSR--DDIVYV   36 (329)
T ss_dssp             EEECSCTTSSHHHHHHHHTC------CCEEEE
T ss_pred             EEEECCcCCCHHHHHHHHHHHhCC--CCeEEe
Confidence            666799999999999999877754  345533

>d1p3da3 c.72.2.1 (A:107-321) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: Ribokinase-like
superfamily: MurD-like peptide ligases, catalytic domain
family: MurCDEF
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=82.28  E-value=0.67  Score=40.12  Aligned_cols=35  Identities=29%  Similarity=0.295  Sum_probs=28.8

Q ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          183 PTVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       183 ~~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      .++|.++|.  .|||||+.-|+..|...|+++..+..
T Consensus        12 ~~~I~ITGT--nGKTTt~~~l~~iL~~~~~~~~~~~g   46 (215)
T d1p3da3          12 RHGIAVAGT--HGKTTTTAMISMIYTQAKLDPTFVNG   46 (215)
T ss_dssp             SEEEEEESS--SCHHHHHHHHHHHHHHTTCCCEEEEE
T ss_pred             CCEEEEECC--CCHHHHHHHHHHHHHhCCCCceEeeC
Confidence            368999886  47999999999999999998876543

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=82.15  E-value=0.49  Score=49.51  Aligned_cols=28  Identities=36%  Similarity=0.503  Sum_probs=25.5

Q ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          182 RPTVILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       182 ~~~VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      ++..|+++|-+|+|||+++..+..+|+.
T Consensus        90 ~~Q~IiisGeSGaGKTe~~k~il~yL~~  117 (710)
T d1br2a2          90 EDQSILCTGESGAGKTENTKKVIQYLAV  117 (710)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            5679999999999999999999999874

>d1k2wa_ c.2.1.2 (A:) Sorbitol dehydrogenase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: Sorbitol dehydrogenase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=82.00  E-value=1.5  Score=39.31  Aligned_cols=82  Identities=13%  Similarity=0.256  Sum_probs=45.6

Q ss_pred             CEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       183 ~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++++++|- +|-|+     .+|..|+++|.+|.+++-+.   .   .+....+..+..+..........+.+.++++.+
T Consensus         5 gK~alVTGas~GIG~-----aia~~la~~Ga~V~~~~r~~---~---~l~~~~~~~~~~~~~~~~Dvt~~~~v~~~~~~~   73 (256)
T d1k2wa_           5 GKTALITGSARGIGR-----AFAEAYVREGARVAIADINL---E---AARATAAEIGPAACAIALDVTDQASIDRCVAEL   73 (256)
T ss_dssp             TEEEEEETCSSHHHH-----HHHHHHHHTTEEEEEEESCH---H---HHHHHHHHHCTTEEEEECCTTCHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHHCCCEEEEEECCH---H---HHHHHHHHhCCceEEEEeeCCCHHHHHHHHHHH
Confidence            467788765 88886     45678889999999988653   2   222223333433332222233333344444443


Q ss_pred             H--cCCCcEEEEcCCCC
Q 011624          262 K--KKNVDVVIVDTAGR  276 (481)
Q Consensus       262 ~--~~~~D~VIIDt~G~  276 (481)
                      .  .+..|++|- .+|.
T Consensus        74 ~~~~g~iDilVn-nAg~   89 (256)
T d1k2wa_          74 LDRWGSIDILVN-NAAL   89 (256)
T ss_dssp             HHHHSCCCEEEE-CCCC
T ss_pred             HHHhCCccEEEe-eccc
Confidence            2  257886654 4543

>d2a9pa1 c.23.1.1 (A:2-118) DNA-binding response regulator MicA, N-terminal domain {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: DNA-binding response regulator MicA, N-terminal domain
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=81.97  E-value=6.5  Score=30.29  Aligned_cols=52  Identities=23%  Similarity=0.261  Sum_probs=32.1

Q ss_pred             CeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcC
Q 011624          212 KSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDT  273 (481)
Q Consensus       212 ~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt  273 (481)
                      +||++||-|+.   ..+.+..+-...|..+....   ++.    ++++.+....+|+||+|-
T Consensus         1 KrILiVdDd~~---~~~~l~~~L~~~g~~v~~a~---~~~----eal~~~~~~~~dlillD~   52 (117)
T d2a9pa1           1 KKILIVDDEKP---ISDIIKFNMTKEGYEVVTAF---NGR----EALEQFEAEQPDIIILDL   52 (117)
T ss_dssp             CEEEEECSCHH---HHHHHHHHHHHTTCEEEEES---SHH----HHHHHHHHHCCSEEEECS
T ss_pred             CEEEEEECCHH---HHHHHHHHHHHCCCEEEEEC---CHH----HHHHHHHhcCCCEEEecc
Confidence            58999997753   33334444445677666443   333    344444456899999997

>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=81.85  E-value=0.39  Score=40.71  Aligned_cols=20  Identities=15%  Similarity=0.217  Sum_probs=16.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHH
Q 011624          185 VILLAGLQGVGKTTVSAKLA  204 (481)
Q Consensus       185 VI~i~G~~GvGKTTta~~LA  204 (481)
                      -|++.|.+||||||++..+.
T Consensus         7 ki~vlG~~~vGKTsLi~~~~   26 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFL   26 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            46778999999999997664

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=81.33  E-value=1.2  Score=36.59  Aligned_cols=36  Identities=14%  Similarity=0.103  Sum_probs=31.4

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEec
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLKKQGKSCMLVAG  219 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~~~G~kVlLId~  219 (481)
                      .+-+++||=.+||||=....+..+...|++|+++..
T Consensus         3 ~L~~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp   38 (139)
T d2b8ta1           3 WIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKP   38 (139)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEEEEccccCHHHHHHHHHHHHHHHCCCcEEEEEE
Confidence            567789999999999999999999999999996643

>d1peya_ c.23.1.1 (A:) Sporulation response regulator Spo0F {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: CheY-like
family: CheY-related
domain: Sporulation response regulator Spo0F
species: Bacillus subtilis [TaxId: 1423]

Probab=81.01  E-value=5.8  Score=30.74  Aligned_cols=66  Identities=18%  Similarity=0.219  Sum_probs=37.5

Q ss_pred             CCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHHcCCCcEEEEcCC--CCccccHHHHHHHH
Q 011624          211 GKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAKKKNVDVVIVDTA--GRLQIDKAMMDELK  288 (481)
Q Consensus       211 G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~~~~~D~VIIDt~--G~~~~d~~~~~el~  288 (481)
                      ++||++||=|+.   ..+.+...-...|..+....   ++.    ++++.+....+|+||+|--  +..  ...++.++.
T Consensus         1 NkrILvVDD~~~---~~~~l~~~L~~~g~~v~~a~---~g~----eal~~~~~~~~dlillD~~mP~~~--G~el~~~lr   68 (119)
T d1peya_           1 NEKILIVDDQSG---IRILLNEVFNKEGYQTFQAA---NGL----QALDIVTKERPDLVLLDMKIPGMD--GIEILKRMK   68 (119)
T ss_dssp             CCEEEEECSCHH---HHHHHHHHHHHTTCEEEEES---SHH----HHHHHHHHHCCSEEEEESCCTTCC--HHHHHHHHH
T ss_pred             CCEEEEEeCCHH---HHHHHHHHHHHcCCEEEEeC---CHH----HHHHHHHhCCCCEEEEeccCCCCC--HHHHHHHHH
Confidence            468999998863   22233333345677766443   333    3344444468999999983  432  334555544

>d1zema1 c.2.1.2 (A:3-262) Xylitol dehydrogenase {Gluconobacter oxydans [TaxId: 442]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: Xylitol dehydrogenase
species: Gluconobacter oxydans [TaxId: 442]

Probab=80.98  E-value=2.1  Score=38.32  Aligned_cols=81  Identities=15%  Similarity=0.170  Sum_probs=44.3

Q ss_pred             CEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHH
Q 011624          183 PTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEA  261 (481)
Q Consensus       183 ~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~  261 (481)
                      .++++++|- +|-|+-     +|..|+++|.+|.+++-+.-+   .+.+.......|..+..........+.+.+.++.+
T Consensus         5 gK~alITGas~GIG~a-----ia~~la~~Ga~V~~~~r~~~~---l~~~~~~~~~~g~~~~~~~~Dv~~~~~v~~~~~~~   76 (260)
T d1zema1           5 GKVCLVTGAGGNIGLA-----TALRLAEEGTAIALLDMNREA---LEKAEASVREKGVEARSYVCDVTSEEAVIGTVDSV   76 (260)
T ss_dssp             TCEEEEETTTSHHHHH-----HHHHHHHTTCEEEEEESCHHH---HHHHHHHHHTTTSCEEEEECCTTCHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCHHHHH-----HHHHHHHCCCEEEEEECCHHH---HHHHHHHHHhcCCcEEEEEccCCCHHHHHHHHHHH
Confidence            457777765 777764     567888999999998876432   22222222233444433222223333333444443


Q ss_pred             H--cCCCcEEEE
Q 011624          262 K--KKNVDVVIV  271 (481)
Q Consensus       262 ~--~~~~D~VII  271 (481)
                      .  .+..|++|-
T Consensus        77 ~~~~g~iDilVn   88 (260)
T d1zema1          77 VRDFGKIDFLFN   88 (260)
T ss_dssp             HHHHSCCCEEEE
T ss_pred             HHHhCCCCeehh
Confidence            2  257887664

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=80.85  E-value=0.59  Score=48.65  Aligned_cols=44  Identities=20%  Similarity=0.410  Sum_probs=32.9

Q ss_pred             HHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          157 LVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       157 ~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      ++.+.......+...         ++...|+++|-+|+|||+++..+..+|..
T Consensus        69 if~iA~~Ay~~l~~~---------~~~QsIiisGeSGsGKTe~~k~il~yL~~  112 (684)
T d1lkxa_          69 MYALANDAYRSMRQS---------QENQCVIISGESGAGKTEASKKIMQFLTF  112 (684)
T ss_dssp             HHHHHHHHHHHHHHH---------CCCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHc---------CCCeEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            455555555555432         24679999999999999999999998874

>d1gega_ c.2.1.2 (A:) meso-2,3-butanediol dehydrogenase {Klebsiella pneumoniae [TaxId: 573]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: meso-2,3-butanediol dehydrogenase
species: Klebsiella pneumoniae [TaxId: 573]

Probab=80.78  E-value=2.2  Score=38.05  Aligned_cols=84  Identities=24%  Similarity=0.299  Sum_probs=45.5

Q ss_pred             EEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcCCCeecCCCCCCHHHHHHHHHHHHH
Q 011624          184 TVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVGVPVYTAGTEVKPSQIAKQGLEEAK  262 (481)
Q Consensus       184 ~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~gv~v~~~~~~~~~~~~l~~~l~~~~  262 (481)
                      +|++++|- +|-|+.     +|..|+++|.+|.+++-+.-+   .+.+...-...|..++.........+.+.+.++.+.
T Consensus         2 KValITGas~GIG~a-----ia~~la~~Ga~V~~~~r~~~~---l~~~~~~i~~~g~~~~~~~~Dv~~~~~v~~~~~~~~   73 (255)
T d1gega_           2 KVALVTGAGQGIGKA-----IALRLVKDGFAVAIADYNDAT---AKAVASEINQAGGHAVAVKVDVSDRDQVFAAVEQAR   73 (255)
T ss_dssp             CEEEEETTTSHHHHH-----HHHHHHHTTCEEEEEESCHHH---HHHHHHHHHHTTCCEEEEECCTTSHHHHHHHHHHHH
T ss_pred             CEEEEcCCccHHHHH-----HHHHHHHCCCEEEEEECCHHH---HHHHHHHHHhcCCcEEEEEeeCCCHHHHHHHHHHHH
Confidence            47777765 777765     567888999999998865432   222222222334344332223333444445555442


Q ss_pred             --cCCCcEEEEcCCCC
Q 011624          263 --KKNVDVVIVDTAGR  276 (481)
Q Consensus       263 --~~~~D~VIIDt~G~  276 (481)
                        .+..|++| =.+|.
T Consensus        74 ~~~g~iDilV-nnAG~   88 (255)
T d1gega_          74 KTLGGFDVIV-NNAGV   88 (255)
T ss_dssp             HHTTCCCEEE-ECCCC
T ss_pred             HHhCCccEEE-ecccc
Confidence              25677654 44444

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=80.73  E-value=0.55  Score=49.75  Aligned_cols=45  Identities=20%  Similarity=0.404  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHHHhcCccccccccCCCCEEEEEEcCCCCCHHHHHHHHHHHHHH
Q 011624          156 QLVKIVRDELVKLMGGEVSELVFAKSRPTVILLAGLQGVGKTTVSAKLANYLKK  209 (481)
Q Consensus       156 ~~~~~l~~~L~~~l~~~~~~~~~~~~~~~VI~i~G~~GvGKTTta~~LA~~L~~  209 (481)
                      +++.+-..+...++..         +++..|+++|-+|+|||+++..+..+|+.
T Consensus       105 HifaiA~~Ay~~m~~~---------~~~QsIiisGeSGaGKTe~~K~il~yL~~  149 (794)
T d2mysa2         105 HIFSISDNAYQFMLTD---------RENQSILITGESGAGKTVNTKRVIQYFAT  149 (794)
T ss_dssp             CHHHHHHHHHHHHHHH---------TCCEEEEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHc---------CCCcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3455555555555432         24679999999999999999999999975

>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=80.67  E-value=5.2  Score=36.57  Aligned_cols=25  Identities=24%  Similarity=0.234  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHH
Q 011624          184 TVILLAGLQGVGKTTVSAKLANYLK  208 (481)
Q Consensus       184 ~VI~i~G~~GvGKTTta~~LA~~L~  208 (481)
                      .-+.+.|.+|+|||+++..++...+
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~~~   93 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIINQK   93 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHTH
T ss_pred             CEEEeecCCCCChHHHHHHHHHhHH
Confidence            3566678899999999999987654

>d1xg5a_ c.2.1.2 (A:) Putative dehydrogenase ARPG836 (MGC4172) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: Putative dehydrogenase ARPG836 (MGC4172)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.33  E-value=1.2  Score=40.04  Aligned_cols=86  Identities=21%  Similarity=0.263  Sum_probs=45.7

Q ss_pred             CEEEEEEcC-CCCCHHHHHHHHHHHHHHcCCeEEEEeccCCchhHHHHHHHhhhhcC--CCeecCCCCCCHHHHHHHHHH
Q 011624          183 PTVILLAGL-QGVGKTTVSAKLANYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVG--VPVYTAGTEVKPSQIAKQGLE  259 (481)
Q Consensus       183 ~~VI~i~G~-~GvGKTTta~~LA~~L~~~G~kVlLId~D~~rp~aidql~~~~~~~g--v~v~~~~~~~~~~~~l~~~l~  259 (481)
                      .++++++|- +|.|+     .+|..|+++|.+|.+.+-|.-+   .+.+.......+  ..++.........+-+.+.++
T Consensus        10 ~Kv~lITGas~GIG~-----aiA~~la~~G~~Vv~~~r~~~~---l~~~~~~l~~~~~~~~~~~~~~Dls~~~~v~~~v~   81 (257)
T d1xg5a_          10 DRLALVTGASGGIGA-----AVARALVQQGLKVVGCARTVGN---IEELAAECKSAGYPGTLIPYRCDLSNEEDILSMFS   81 (257)
T ss_dssp             TCEEEEESTTSHHHH-----HHHHHHHHTTCEEEEEESCHHH---HHHHHHHHHHTTCSSEEEEEECCTTCHHHHHHHHH
T ss_pred             CCEEEEeCCCCHHHH-----HHHHHHHHCCCEEEEEECCHHH---HHHHHHHHHhcCCCceEEEEEccCCCHHHHHHHHH
Confidence            457777765 77666     5677888999999998776433   232221111222  122222222233343444444


Q ss_pred             HHH--cCCCcEEEEcCCCCc
Q 011624          260 EAK--KKNVDVVIVDTAGRL  277 (481)
Q Consensus       260 ~~~--~~~~D~VIIDt~G~~  277 (481)
                      .+.  .+..|++|- ++|..
T Consensus        82 ~~~~~~g~iD~lVn-nAg~~  100 (257)
T d1xg5a_          82 AIRSQHSGVDICIN-NAGLA  100 (257)
T ss_dssp             HHHHHHCCCSEEEE-CCCCC
T ss_pred             HHHHhcCCCCEEEe-ccccc
Confidence            432  257887654 55543