Citrus Sinensis ID: 039127

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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--
Protein Sequence
MLKKIKAVFDDADERQTVVPSVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTREIVHWRKCLLESVI
Secondary Structure (PSIPRED)
ccccccHHccccccEEEEcccccEEEEEHHHHHHHHHccccccccccEEEEEEEccccccHHHHHHHHHcccccEEEEEcccccccccccHHHHHHHHHccccccEEEEEcccHHHHHHHccccccccccccHHHHHHHHHHccccccccccccccccEEcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHcccccccEEEEEEEEEcccHHHHHHHHHHcccccccccEEEEEEEccccccHHHHHHHHHcccccEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEccccHHHHcccccccccccccHHHHHHHHHHHHcccccccccccccccEcc
Coil and Loop (DISEMBL)
MLKKIKAVFddaderqtvvpsvklwlgreegTVELVlkddsetidggffvipiigmggsgnttpalpvyndktvnfnfalddtwkekyVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKlvndncllifsqhpsgtreIVHWRKCLLESVI
Flexible Loop (DISEMBL)
mlkkikavfddaderqtvvpsvklwlgreeGTVElvlkddsetiDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFsqhpsgtreivHWRKCLLESVI
Low Complexity Region (SEG)
MLKKIKAVFDDADERQTVVPSVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTREIVHWRKCLLESVI
Disordered region (IsUnstruct)
***************QTVVPSVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTREIVHWRKCLL****
Disordered Region (DISOPRED)
***********ADE***VVPSVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTREIV*W*KCLLESVI
Disordered Region (DISEMBL)
MLKKIKAVFDDADERQTVVPSVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTREIVHWRKCLLESVI
Disordered Region (DISPRO)
MLKKIKAVFDDADERQTVVPSVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTREIVHWRKCL***VI
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLKKIKAVFDDADERQTVVPSVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTREIVHWRKCLLESVI
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	162	2.2.26 [Sep-21-2011]
Q7XBQ9	970	Disease resistance protei	N/A	no	0.617	0.103	0.298	3e-11
Q7XA40	992	Putative disease resistan	N/A	no	0.574	0.093	0.273	2e-10
Q7XA42	979	Putative disease resistan	N/A	no	0.635	0.105	0.288	2e-10
Q9LRR4	1054	Putative disease resistan	yes	no	0.462	0.071	0.382	1e-08
Q7XA39	988	Putative disease resistan	N/A	no	0.617	0.101	0.261	5e-08
Q9LRR5	1424	Putative disease resistan	no	no	0.512	0.058	0.279	0.0001

>sp|Q7XBQ9|RGA2_SOLBU Disease resistance protein RGA2 OS=Solanum bulbocastanum GN=RGA2 PE=1 SV=1

 Score = 67.4 bits (163), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 46/154 (29%), Positives = 62/154 (40%), Gaps = 54/154 (35%)

Query: 50  VIPIIGMGGSGNTTPALPVYNDK--TVNFN------------------------------ 77
           V+PI+GMGG G TT A  V+ND+  T +F+                              
Sbjct: 177 VLPILGMGGLGKTTLAQMVFNDQRVTEHFHSKIWICVSEDFDEKRLIKAIVESIEGRPLL 236

Query: 78  ----------------------FALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG 115
                                   LDD W E    W N+R +    AS + V+ TTR + 
Sbjct: 237 GEMDLAPLQKKLQELLNGKRYLLVLDDVWNEDQQKWANLRAVLKVGASGASVLTTTRLEK 296

Query: 116 VASIMGTMPAYELKKLVNDNCLLIFSQHPSGTRE 149
           V SIMGT+  YEL  L  ++C L+F Q   G +E
Sbjct: 297 VGSIMGTLQPYELSNLSQEDCWLLFMQRAFGHQE 330

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth. Confers a broad resistance to all known races of P.infestans.
Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA40|RGA3_SOLBU Putative disease resistance protein RGA3 OS=Solanum bulbocastanum GN=RGA3 PE=2 SV=2

 Score = 65.1 bits (157), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/146 (27%), Positives = 59/146 (40%), Gaps = 53/146 (36%)

Query: 50  VIPIIGMGGSGNTTPALPVYNDKTVNFNF------------------------------- 78
           V+PI+GMGG G TT A  V+ND+ +  +F                               
Sbjct: 177 VLPILGMGGLGKTTLAQMVFNDQRITEHFNLKIWVCVSDDFDEKRLIKAIVESIEGKSLG 236

Query: 79  ----------------------ALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGV 116
                                  LDD W E    W N+R +    AS + +++TTR + +
Sbjct: 237 DMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQEKWDNLRAVLKIGASGASILITTRLEKI 296

Query: 117 ASIMGTMPAYELKKLVNDNCLLIFSQ 142
            SIMGT+  Y+L  L  ++C L+F Q
Sbjct: 297 GSIMGTLQLYQLSNLSQEDCWLLFKQ 322

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA42|RGA1_SOLBU Putative disease resistance protein RGA1 OS=Solanum bulbocastanum GN=RGA1 PE=2 SV=2

 Score = 65.1 bits (157), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/156 (28%), Positives = 63/156 (40%), Gaps = 53/156 (33%)

Query: 50  VIPIIGMGGSGNTTPALPVYNDKTV--------------NFN------------------ 77
           V+PI+GMGG G TT +  V+ND+ V              +FN                  
Sbjct: 177 VLPILGMGGLGKTTLSQMVFNDQRVTERFYPKIWICISDDFNEKRLIKAIVESIEGKSLS 236

Query: 78  ---------------------FALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGV 116
                                  LDD W E    W N+R +    AS + V+ TTR + V
Sbjct: 237 DMDLAPLQKKLQELLNGKRYFLVLDDVWNEDQHKWANLRAVLKVGASGAFVLTTTRLEKV 296

Query: 117 ASIMGTMPAYELKKLVNDNCLLIFSQHPSGTREIVH 152
            SIMGT+  YEL  L  ++C  +F Q   G +E ++
Sbjct: 297 GSIMGTLQPYELSNLSPEDCWFLFMQRAFGHQEEIN 332

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q9LRR4|R13L1_ARATH Putative disease resistance RPP13-like protein 1 OS=Arabidopsis thaliana GN=RPPL1 PE=3 SV=1

 Score = 59.3 bits (142), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/81 (38%), Positives = 44/81 (54%), Gaps = 6/81 (7%)

Query: 76  FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDN 135
           F   LDD W E + DW  +R  F   A  S+++VTTR+Q VASIM  +  + L+ L + +
Sbjct: 279 FLLVLDDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGD 338

Query: 136 CLLIF------SQHPSGTREI 150
           C  +F      +Q P   REI
Sbjct: 339 CWSLFMKTVFGNQEPCLNREI 359

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XA39|RGA4_SOLBU Putative disease resistance protein RGA4 OS=Solanum bulbocastanum GN=RGA4 PE=2 SV=1

 Score = 57.0 bits (136), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 40/153 (26%), Positives = 56/153 (36%), Gaps = 53/153 (34%)

Query: 50  VIPIIGMGGSGNTTPALPVYNDKTVNFNF------------------------------- 78
           V PIIGMGG G TT A  ++ND+ V  +F                               
Sbjct: 179 VFPIIGMGGLGKTTLAQMIFNDERVTKHFNPKIWVCVSDDFDEKRLIKTIIGNIERSSPH 238

Query: 79  ----------------------ALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGV 116
                                  LDD W +    W  +R +    A  + ++ TTR + V
Sbjct: 239 VEDLASFQKKLQELLNGKRYLLVLDDVWNDDLEKWAKLRAVLTVGARGASILATTRLEKV 298

Query: 117 ASIMGTMPAYELKKLVNDNCLLIFSQHPSGTRE 149
            SIMGT+  Y L  L   + LL+F Q   G ++
Sbjct: 299 GSIMGTLQPYHLSNLSPHDSLLLFMQRAFGQQK 331

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q9LRR5|DRL21_ARATH Putative disease resistance protein At3g14460 OS=Arabidopsis thaliana GN=At3g14460 PE=3 SV=1

 Score = 45.8 bits (107), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 3/86 (3%)

Query: 64  PALPVYNDKTVN---FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIM 120
           P+L +   KT++   F   LDD W E   +W + +  F      SK+++TTR++ V+++ 
Sbjct: 259 PSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSEIVSTVA 318

Query: 121 GTMPAYELKKLVNDNCLLIFSQHPSG 146
                Y++K + N+ C  + S+   G
Sbjct: 319 KAEKIYQMKLMTNEECWELISRFAFG 344

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	162
53680938	172	resistance protein-like protein, partial	0.462	0.436	0.6	8e-19
255577308	1287	Disease resistance protein RGA2, putativ	0.759	0.095	0.362	2e-18
317487659	170	nucleotide binding site protein [Citrus	0.462	0.441	0.613	3e-18
359487192	961	PREDICTED: putative disease resistance p	0.845	0.142	0.348	4e-18
255577312	788	leucine-rich repeat containing protein,	0.753	0.154	0.352	4e-17
224059590	1381	cc-nbs-lrr resistance protein [Populus t	0.709	0.083	0.335	1e-16
53680910	172	resistance protein-like protein, partial	0.456	0.430	0.554	7e-16
53680926	172	resistance protein-like protein, partial	0.462	0.436	0.56	2e-15
53680898	171	resistance protein-like protein, partial	0.456	0.432	0.540	1e-14
15487944	194	NBS/LRR resistance protein-like protein	0.641	0.536	0.337	2e-14

>gi|53680938|gb|AAU89656.1| resistance protein-like protein, partial [Citrus trifoliata]

 Score = 98.6 bits (244), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 45/75 (60%), Positives = 53/75 (70%)

Query: 76  FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDN 135
           F   LDD W E Y DW  +R  F A A  SK+IVT RNQGVA+IMGT PAY+LKKL ND+
Sbjct: 74  FLLVLDDVWNENYNDWDRLRPPFEAGAPGSKIIVTARNQGVAAIMGTAPAYQLKKLSNDD 133

Query: 136 CLLIFSQHPSGTREI 150
           CL +F+QH  GTR+ 
Sbjct: 134 CLSVFAQHSLGTRDF 148

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255577308|ref|XP_002529535.1| Disease resistance protein RGA2, putative [Ricinus communis] gi|223530983|gb|EEF32838.1| Disease resistance protein RGA2, putative [Ricinus communis]

 Score = 97.1 bits (240), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 62/171 (36%), Positives = 78/171 (45%), Gaps = 48/171 (28%)

Query: 27  GREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNF-------- 78
           GREE    ++     +T      VIPI+GMGG G TT A  V+ND T+ F+F        
Sbjct: 182 GREEDKEAVLRLLKGKTRSSEISVIPIVGMGGIGKTTLAQLVFNDTTLEFDFKAWVSVGE 241

Query: 79  ----------------------------------------ALDDTWKEKYVDWTNMRDLF 98
                                                    LDD W E Y DWT  R  F
Sbjct: 242 DFNVSKITKIILQSKDCDSEDLNSLQVRLKEKLSRNKFLIVLDDVWTENYDDWTLFRGPF 301

Query: 99  AAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTRE 149
            A A  S++I+TTR++GV+S MGT PAY L+KL  D+CL IF  H  GTR+
Sbjct: 302 EAGAPGSRIIITTRSEGVSSKMGTTPAYYLQKLSFDDCLSIFVYHALGTRK 352

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|317487659|gb|ADV31375.1| nucleotide binding site protein [Citrus reticulata]

 Score = 96.7 bits (239), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 46/75 (61%), Positives = 53/75 (70%)

Query: 76  FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDN 135
           F   LDD W EKY DW +M   F A A  SK+IVTTRNQ VA+IMGT PAYELKKL  D+
Sbjct: 72  FLLVLDDVWNEKYNDWVDMSRPFEAGAPGSKIIVTTRNQEVAAIMGTAPAYELKKLSFDD 131

Query: 136 CLLIFSQHPSGTREI 150
           CL +F+QH  GTR+ 
Sbjct: 132 CLSVFAQHSMGTRDF 146

Source: Citrus reticulata

Species: Citrus reticulata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487192|ref|XP_003633531.1| PREDICTED: putative disease resistance protein RGA3-like [Vitis vinifera]

 Score = 96.3 bits (238), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 69/198 (34%), Positives = 87/198 (43%), Gaps = 61/198 (30%)

Query: 2   LKKIKAVFDDADERQTVVPSVKLWLGREEGTVELVLKDDSETIDG----GFFVIPIIGMG 57
           L KI+AV  DA+ RQ    +VKLWL      VE V  D  + +D      F VIPI+GMG
Sbjct: 41  LSKIQAVLRDAEARQITNAAVKLWLS----DVEEVADDAEDVLDEVMTEAFRVIPIVGMG 96

Query: 58  GSGNTTPALPVYNDKTVNFNF--------------------------------------- 78
           G G TT A  VYND+ V  +F                                       
Sbjct: 97  GLGKTTLAQLVYNDEKVTKHFELKMWVCVSDDFDVRRATKSVLDSATGKNFDLMDLDILQ 156

Query: 79  --------------ALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMP 124
                          LDD W EK  DW  +R    A A+ SK+IVTTR+  V+S+MGTMP
Sbjct: 157 SKLRDILKGKRYLLVLDDVWTEKKSDWDRLRLPLRAGATGSKIIVTTRSGRVSSVMGTMP 216

Query: 125 AYELKKLVNDNCLLIFSQ 142
              L+ L +D+C  +F Q
Sbjct: 217 PRHLEGLSDDDCWSLFKQ 234

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255577312|ref|XP_002529537.1| leucine-rich repeat containing protein, putative [Ricinus communis] gi|223530985|gb|EEF32840.1| leucine-rich repeat containing protein, putative [Ricinus communis]

 Score = 92.8 bits (229), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 60/170 (35%), Positives = 77/170 (45%), Gaps = 48/170 (28%)

Query: 27  GREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNF-------- 78
           GREE    ++    ++T      VIPI+GMGG G TT A  V+ND  + F+F        
Sbjct: 182 GREENKKAVLRLLKAKTRSSEISVIPIVGMGGIGKTTLAQLVFNDTMLEFDFKAWVSVGE 241

Query: 79  ----------------------------------------ALDDTWKEKYVDWTNMRDLF 98
                                                    LDD W E Y DWT  R  F
Sbjct: 242 DFNISKITKTILQSKDCDGEDLNSLQVKLKEKLSRNKFLIVLDDVWTENYDDWTLFRGPF 301

Query: 99  AAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTR 148
            A A  SK+I+TTR++ V+S +GT+PAY L+KL  D+CL IF  H  GTR
Sbjct: 302 EAGAPGSKIIITTRSERVSSKIGTIPAYYLQKLSFDDCLSIFVYHALGTR 351

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224059590|ref|XP_002299922.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222847180|gb|EEE84727.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score = 91.3 bits (225), Expect = 1e-16,   Method: Composition-based stats.
 Identities = 55/164 (33%), Positives = 78/164 (47%), Gaps = 49/164 (29%)

Query: 29  EEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNF---------- 78
           +E  VEL+++         F VI IIG GG G TT A  VYND++V F++          
Sbjct: 176 KEVLVELLMRGGEAANGSPFSVISIIGFGGVGKTTLAQLVYNDESVEFDYKAWVCVSDDF 235

Query: 79  ---------------------------------------ALDDTWKEKYVDWTNMRDLFA 99
                                                   LDD W E Y +WT +   FA
Sbjct: 236 DVLRITKTILSFDSSAAGCDLNLLQVQLKEKLSGKKFLIVLDDVWSENYEEWTALCSPFA 295

Query: 100 AVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQH 143
           + A  SKVI+TTRN+GV+ + G++ AY LK+L +D+CLL+F++H
Sbjct: 296 SGARGSKVIITTRNEGVSLLTGSIYAYALKELSDDDCLLLFAKH 339

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|53680910|gb|AAU89642.1| resistance protein-like protein, partial [Citrus trifoliata]

 Score = 88.6 bits (218), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 41/74 (55%), Positives = 50/74 (67%)

Query: 76  FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDN 135
           F   LDD W   Y DW  +R  F   A  SK+IVTTRNQ VA IMGT+PAY+LKKL +++
Sbjct: 74  FLLVLDDVWNRNYDDWDQLRRPFEVGAPGSKIIVTTRNQEVAKIMGTVPAYQLKKLSDND 133

Query: 136 CLLIFSQHPSGTRE 149
           CL +F QH  GTR+
Sbjct: 134 CLAVFVQHSLGTRD 147

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|53680926|gb|AAU89650.1| resistance protein-like protein, partial [Citrus trifoliata]

 Score = 87.4 bits (215), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 42/75 (56%), Positives = 50/75 (66%)

Query: 76  FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDN 135
           F   LDD W E Y DW +M   F A A  SK+IVTTRNQ VA+IMGT PAY+L+KL  D+
Sbjct: 74  FLLVLDDVWNENYNDWVDMSRPFEAGAPGSKIIVTTRNQEVAAIMGTAPAYQLEKLSFDD 133

Query: 136 CLLIFSQHPSGTREI 150
           CL  F+QH  GT + 
Sbjct: 134 CLSAFAQHSLGTTDF 148

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|53680898|gb|AAU89636.1| resistance protein-like protein, partial [Citrus trifoliata]

 Score = 84.3 bits (207), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 40/74 (54%), Positives = 50/74 (67%)

Query: 76  FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDN 135
           F   LDD W E Y DW +M   F A A  SK+I+TTRNQ VA+IMGT  AY+LKKL  ++
Sbjct: 73  FLLVLDDVWNESYNDWVDMSRPFEAGAPGSKIILTTRNQEVAAIMGTASAYQLKKLSIED 132

Query: 136 CLLIFSQHPSGTRE 149
           CL +F+QH  GT +
Sbjct: 133 CLSVFAQHSLGTTD 146

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15487944|gb|AAL01018.1|AF402750_1 NBS/LRR resistance protein-like protein [Theobroma cacao] gi|15487953|gb|AAL01022.1|AF402755_1 NBS/LRR resistance protein-like protein [Theobroma cacao] gi|15487955|gb|AAL01023.1|AF402756_1 NBS/LRR resistance protein-like protein [Theobroma cacao]

 Score = 84.0 bits (206), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 53/157 (33%), Positives = 67/157 (42%), Gaps = 53/157 (33%)

Query: 43  TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNF------------------------ 78
           T D    VIPI+GMGG G TT A  VYND  V   F                        
Sbjct: 8   TSDAEVPVIPIVGMGGIGKTTLAQLVYNDDKVAGFFDSKAWIYVSEDFDVIKVMKAVLQS 67

Query: 79  -----------------------------ALDDTWKEKYVDWTNMRDLFAAVASRSKVIV 109
                                         LDD W + YVDWT++        S SK+I+
Sbjct: 68  VNGGVPDTNDLNLLHIKLKEELSEKKILLVLDDVWHDNYVDWTSLIRPLEFAKSGSKIII 127

Query: 110 TTRNQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSG 146
           TTRNQ VA + GT+PAY+LK+L  D+CL + ++H  G
Sbjct: 128 TTRNQNVAKMTGTLPAYQLKELAYDDCLSVLARHALG 164

Source: Theobroma cacao

Species: Theobroma cacao

Genus: Theobroma

Family: Malvaceae

Order: Malvales

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	162
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.456	0.070	0.378	1.9e-10
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.512	0.058	0.279	3.5e-06

TAIR|locus:2091672 AT3G14470 [Arabidopsis thaliana (taxid:3702)]

 Score = 137 (53.3 bits), Expect = 1.9e-10, Sum P(2) = 1.9e-10
 Identities = 28/74 (37%), Positives = 42/74 (56%)

Query:    76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVNDN 135
             F   LDD W E + DW  +R  F   A  S+++VTTR+Q VASIM  +  + L+ L + +
Sbjct:   279 FLLVLDDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGD 338

Query:   136 CLLIFSQHPSGTRE 149
             C  +F +   G +E
Sbjct:   339 CWSLFMKTVFGNQE 352

GO:0005576 "extracellular region" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

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

TAIR|locus:2091662 AT3G14460 [Arabidopsis thaliana (taxid:3702)]

 Score = 116 (45.9 bits), Expect = 3.5e-06, Sum P(2) = 3.5e-06
 Identities = 24/86 (27%), Positives = 45/86 (52%)

Query:    64 PALPVYNDKTVN---FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIM 120
             P+L +   KT++   F   LDD W E   +W + +  F      SK+++TTR++ V+++ 
Sbjct:   259 PSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSEIVSTVA 318

Query:   121 GTMPAYELKKLVNDNCLLIFSQHPSG 146
                  Y++K + N+ C  + S+   G
Sbjct:   319 KAEKIYQMKLMTNEECWELISRFAFG 344

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	162
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	1e-09

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

 Score = 55.0 bits (133), Expect = 1e-09
 Identities = 41/168 (24%), Positives = 60/168 (35%), Gaps = 55/168 (32%)

Query: 30  EGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFAL--------- 80
           E  +E +++   E       V+ I+GMGG G TT A  +YND +V  +F           
Sbjct: 2   EDMIEALIEKLLEM-SDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKT 60

Query: 81  -----------------DDTWKEK---------------------------YVDWTNMRD 96
                            D  W EK                             DW  +  
Sbjct: 61  YTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGV 120

Query: 97  LFAAVASRSKVIVTTRNQGVASIMG-TMPAYELKKLVNDNCLLIFSQH 143
            F    + S+VIVTTR++ VA  MG T   +E++ L  +    +FS  
Sbjct: 121 PFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNK 168

Length = 285

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	162
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.9
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.9
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.89
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.29
PF05729	166	NACHT: NACHT domain	99.26
PRK06893	229	DNA replication initiation factor; Validated	99.23
KOG2028	554	consensus ATPase related to the helicase subunit o	99.08
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.98
PRK13342	413	recombination factor protein RarA; Reviewed	98.97
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.96
PRK09087	226	hypothetical protein; Validated	98.93
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.92
PF13173	128	AAA_14: AAA domain	98.9
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.9
PRK13341	725	recombination factor protein RarA/unknown domain f	98.86
PRK06620	214	hypothetical protein; Validated	98.83
PRK08084	235	DNA replication initiation factor; Provisional	98.83
PRK08727	233	hypothetical protein; Validated	98.79
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.77
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.72
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.72
PRK05642	234	DNA replication initiation factor; Validated	98.71
PLN03025	319	replication factor C subunit; Provisional	98.69
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.68
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.67
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.67
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.66
PRK12402	337	replication factor C small subunit 2; Reviewed	98.64
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.6
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.6
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.6
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.59
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.59
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.58
PRK04841	903	transcriptional regulator MalT; Provisional	98.57
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.54
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.54
PHA02544	316	44 clamp loader, small subunit; Provisional	98.52
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.51
PRK04195	482	replication factor C large subunit; Provisional	98.51
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.5
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.44
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.43
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.41
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.4
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.39
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.39
PF00004	132	AAA: ATPase family associated with various cellula	98.39
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.37
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.36
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.35
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.35
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.33
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.32
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.32
PRK12422	445	chromosomal replication initiation protein; Provis	98.32
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.31
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.31
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.31
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.3
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.29
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.29
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.29
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.29
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.28
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.28
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.27
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.27
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.25
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.25
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.24
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.23
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.23
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.22
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.21
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.2
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.17
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.17
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.16
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.16
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.15
CHL00181	287	cbbX CbbX; Provisional	98.14
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.14
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.14
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	98.13
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.13
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.1
CHL00095	821	clpC Clp protease ATP binding subunit	98.09
PRK08116	268	hypothetical protein; Validated	98.09
PRK08181	269	transposase; Validated	98.09
PRK06526	254	transposase; Provisional	98.07
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.07
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.07
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.05
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.04
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	98.04
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	98.03
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.03
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.01
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.0
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.0
PRK09183	259	transposase/IS protein; Provisional	97.98
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.98
PRK12377	248	putative replication protein; Provisional	97.98
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.95
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.95
PRK10865	857	protein disaggregation chaperone; Provisional	97.95
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.94
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	97.93
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.93
CHL00176	638	ftsH cell division protein; Validated	97.93
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.92
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	97.91
PRK10536	262	hypothetical protein; Provisional	97.9
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.89
PRK08939	306	primosomal protein DnaI; Reviewed	97.89
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.88
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.85
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.84
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.83
PRK06835	329	DNA replication protein DnaC; Validated	97.83
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.81
PRK06921	266	hypothetical protein; Provisional	97.8
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.8
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.78
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.78
PTZ00202	550	tuzin; Provisional	97.74
PRK10865	857	protein disaggregation chaperone; Provisional	97.74
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.71
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.7
PRK07952	244	DNA replication protein DnaC; Validated	97.7
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.69
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.69
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.68
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.67
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.66
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	97.66
PHA02244	383	ATPase-like protein	97.66
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.65
PRK08118	167	topology modulation protein; Reviewed	97.65
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.64
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.63
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.63
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.63
CHL00195	489	ycf46 Ycf46; Provisional	97.62
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.61
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	97.61
CHL00095	821	clpC Clp protease ATP binding subunit	97.59
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.59
PRK08233	182	hypothetical protein; Provisional	97.57
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.56
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	97.54
PHA00729	226	NTP-binding motif containing protein	97.53
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.52
PRK06696	223	uridine kinase; Validated	97.52
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.52
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	97.51
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	97.51
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.51
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.5
PRK07261	171	topology modulation protein; Provisional	97.48
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.46
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.45
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.44
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.44
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	97.42
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.41
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.41
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.41
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.38
PRK07667	193	uridine kinase; Provisional	97.37
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.34
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.33
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.32
COG3899	849	Predicted ATPase [General function prediction only	97.31
PRK05480	209	uridine/cytidine kinase; Provisional	97.31
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.3
PRK06762	166	hypothetical protein; Provisional	97.29
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.29
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.28
PRK03839	180	putative kinase; Provisional	97.27
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.26
PRK08699	325	DNA polymerase III subunit delta'; Validated	97.26
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.26
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.24
PF02463	220	SMC_N: RecF/RecN/SMC N terminal domain; InterPro:	97.23
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	97.23
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.23
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	97.23
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	97.23
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.22
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.22
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.22
smart00382	148	AAA ATPases associated with a variety of cellular	97.22
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.22
PRK13695	174	putative NTPase; Provisional	97.21
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.21
PRK11608	326	pspF phage shock protein operon transcriptional ac	97.2
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.17
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	97.16
PTZ00301	210	uridine kinase; Provisional	97.16
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.15
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.15
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.15
PRK06547	172	hypothetical protein; Provisional	97.14
PF07726	131	AAA_3: ATPase family associated with various cellu	97.14
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	97.13
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.13
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.13
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.12
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.12
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	97.11
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.11
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	97.11
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.1
PHA02774	613	E1; Provisional	97.1
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	97.09
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	97.08
PRK05022	509	anaerobic nitric oxide reductase transcription reg	97.08
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	97.08
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.07
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.07
PRK00131	175	aroK shikimate kinase; Reviewed	97.07
PRK00625	173	shikimate kinase; Provisional	97.07
PRK06217	183	hypothetical protein; Validated	97.06
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	97.06
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.05
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.05
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.04
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.03
PRK04040	188	adenylate kinase; Provisional	97.02
PRK15455	644	PrkA family serine protein kinase; Provisional	97.02
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	97.01
PRK05541	176	adenylylsulfate kinase; Provisional	97.01
cd03246	173	ABCC_Protease_Secretion This family represents the	97.0
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.99
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.98
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.98
PRK14738	206	gmk guanylate kinase; Provisional	96.98
PRK00889	175	adenylylsulfate kinase; Provisional	96.98
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.95
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.95
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.94
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.94
COG1100	219	GTPase SAR1 and related small G proteins [General	96.94
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.93
PRK13947	171	shikimate kinase; Provisional	96.93
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	96.92
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.92
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	96.91
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.9
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	96.9
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	96.9
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.9
COG0714	329	MoxR-like ATPases [General function prediction onl	96.87
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.87
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.87
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.86
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	96.85
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	96.84
PRK13975	196	thymidylate kinase; Provisional	96.84
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.83
PRK13949	169	shikimate kinase; Provisional	96.83
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	96.83
PRK09376	416	rho transcription termination factor Rho; Provisio	96.82
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	96.82
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.82
PRK14530	215	adenylate kinase; Provisional	96.82
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.81
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.81
PLN02318	656	phosphoribulokinase/uridine kinase	96.81
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	96.81
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	96.8
PRK00300	205	gmk guanylate kinase; Provisional	96.79
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	96.79
PRK04132	846	replication factor C small subunit; Provisional	96.79
TIGR01287	275	nifH nitrogenase iron protein. This model describe	96.79
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	96.79
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.78
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.78
PRK03846	198	adenylylsulfate kinase; Provisional	96.78
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.77
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.77
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.77
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	96.77
PRK13531	498	regulatory ATPase RavA; Provisional	96.77
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	96.76
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	96.76
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.76
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	96.75
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.75
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	96.75
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	96.75
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.74
cd01128	249	rho_factor Transcription termination factor rho is	96.74
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	96.74
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	96.74
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	96.73
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	96.72
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.71
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	96.7
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.7
PRK13236	296	nitrogenase reductase; Reviewed	96.7
PRK13230	279	nitrogenase reductase-like protein; Reviewed	96.69
cd02117	212	NifH_like This family contains the NifH (iron prot	96.69
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	96.69
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	96.69
PRK15115	444	response regulator GlrR; Provisional	96.69
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.68
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.68
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	96.68
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	96.68
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.67
PRK14527	191	adenylate kinase; Provisional	96.66
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.65
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.63
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.63
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	96.63
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	96.63
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	96.62
PRK14532	188	adenylate kinase; Provisional	96.62
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	96.62
PRK04182	180	cytidylate kinase; Provisional	96.61
PRK13946	184	shikimate kinase; Provisional	96.61
PRK05057	172	aroK shikimate kinase I; Reviewed	96.61
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.61
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	96.61
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.6
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.6
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	96.6
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	96.6
PRK13948	182	shikimate kinase; Provisional	96.6
PRK14737	186	gmk guanylate kinase; Provisional	96.6
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.59
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.59
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.59
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	96.59
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	96.58
PHA02624	647	large T antigen; Provisional	96.57
cd02040	270	NifH NifH gene encodes component II (iron protein)	96.57
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.56
PHA02530	300	pseT polynucleotide kinase; Provisional	96.56
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.56
PRK05439	311	pantothenate kinase; Provisional	96.56
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	96.56
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	96.56
PF14516	331	AAA_35: AAA-like domain	96.55
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.55
PLN02200	234	adenylate kinase family protein	96.55
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	96.53
KOG0927	614	consensus Predicted transporter (ABC superfamily)	96.52
PRK07429	327	phosphoribulokinase; Provisional	96.52
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	96.51
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.5
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.49
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	96.49
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	96.49
cd02026	273	PRK Phosphoribulokinase (PRK) is an enzyme involve	96.49
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	96.48
PRK08356	195	hypothetical protein; Provisional	96.48
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	96.48
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	96.47
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	96.47
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.47
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	96.47
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	96.46
TIGR01846	694	type_I_sec_HlyB type I secretion system ABC transp	96.46
PRK14531	183	adenylate kinase; Provisional	96.46
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	96.46
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.46
PRK03731	171	aroL shikimate kinase II; Reviewed	96.45
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	96.45
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.45
PRK13537	306	nodulation ABC transporter NodI; Provisional	96.44
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.44
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	96.44
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	96.43
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	96.43
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	96.43
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	96.43
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	96.43
PRK15424	538	propionate catabolism operon regulatory protein Pr	96.42
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	96.42
cd01918	149	HprK_C HprK/P, the bifunctional histidine-containi	96.41
TIGR02768	744	TraA_Ti Ti-type conjugative transfer relaxase TraA	96.41
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	96.41
PRK13232	273	nifH nitrogenase reductase; Reviewed	96.4
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	96.4
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.4
PLN02796	347	D-glycerate 3-kinase	96.39
PRK09825	176	idnK D-gluconate kinase; Provisional	96.39
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	96.38
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	96.38
PRK13536	340	nodulation factor exporter subunit NodI; Provision	96.38
PTZ00088	229	adenylate kinase 1; Provisional	96.38
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	96.38
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.37
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	96.36
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	96.35
TIGR00041	195	DTMP_kinase thymidylate kinase. Function: phosphor	96.35
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	96.35
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	96.35
PTZ00369	189	Ras-like protein; Provisional	96.34
PRK06761	282	hypothetical protein; Provisional	96.34
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	96.34
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.33
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	96.33
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	96.33
PLN02348	395	phosphoribulokinase	96.32
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.32
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	96.32
PRK02496	184	adk adenylate kinase; Provisional	96.32
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	96.32
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	96.31
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	96.31
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	96.31
PRK13231	264	nitrogenase reductase-like protein; Reviewed	96.31
PRK00279	215	adk adenylate kinase; Reviewed	96.3
PRK13235	274	nifH nitrogenase reductase; Reviewed	96.3
cd02032	267	Bchl_like This family of proteins contains bchL an	96.29
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	96.28
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.27
PRK00698	205	tmk thymidylate kinase; Validated	96.26
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.26
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	96.26
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	96.25
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	96.25
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.25
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	96.24
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	96.24
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	96.23
TIGR00767	415	rho transcription termination factor Rho. Members	96.22
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	96.22
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	96.22
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.21
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	96.21
PRK01184	184	hypothetical protein; Provisional	96.21
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	96.21
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	96.21
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.2
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.2
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.19
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.18
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	96.18
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	96.18
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	96.17
PRK14528	186	adenylate kinase; Provisional	96.17
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.15
PRK13768	253	GTPase; Provisional	96.15
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	96.15
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	96.15
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	96.15
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.15
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	96.14
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	96.14
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	96.14
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.13
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.13
PRK15453	290	phosphoribulokinase; Provisional	96.13
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.12
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	96.12
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.12
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.12
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	96.11
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.11
cd02034	116	CooC The accessory protein CooC, which contains a	96.11
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.1
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	96.09
TIGR00101	199	ureG urease accessory protein UreG. This model rep	96.08
PLN02165	334	adenylate isopentenyltransferase	96.08
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.08
COG0237	201	CoaE Dephospho-CoA kinase [Coenzyme metabolism]	96.08
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	96.08
PLN03046	460	D-glycerate 3-kinase; Provisional	96.07
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	96.07
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	96.07
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	96.06
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	96.06
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.05
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	96.05
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.05
PF13245	76	AAA_19: Part of AAA domain	96.04
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	96.03
cd01673	193	dNK Deoxyribonucleoside kinase (dNK) catalyzes the	96.03
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	96.02
cd03116	159	MobB Molybdenum is an essential trace element in t	96.01
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	96.01
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.01
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	96.01
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	96.01
PRK12338	319	hypothetical protein; Provisional	96.01
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	96.0
PRK10416	318	signal recognition particle-docking protein FtsY;	96.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	96.0
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	96.0
cd03115	173	SRP The signal recognition particle (SRP) mediates	96.0
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.0
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.99
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.98
COG3903	414	Predicted ATPase [General function prediction only	95.98

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.90  E-value=4e-24  Score=186.59  Aligned_cols=114  Identities=32%  Similarity=0.504  Sum_probs=105.5

Q ss_pred             eeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-ce--------------------------
Q 039127           26 LGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-VN--------------------------   75 (162)
Q Consensus        26 vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-~~--------------------------   75 (162)
                      ||.+.   .+.+.|..++       ..+++|+||||+||||||+.++|+.. +.                          
T Consensus       161 VG~e~~~~kl~~~L~~d~-------~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~  233 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDD-------VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILE  233 (889)
T ss_pred             ccHHHHHHHHHHHhccCC-------CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHH
Confidence            99999   8888888877       38999999999999999999999987 44                          


Q ss_pred             -----------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChhhHhh-hCCCCe
Q 039127           76 -----------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASI-MGTMPA  125 (162)
Q Consensus        76 -----------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~-~~~~~~  125 (162)
                                                   |++||||||  +...|+.+..++|...+||+|++|||+..|+.. +++...
T Consensus       234 ~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW--~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~  311 (889)
T KOG4658|consen  234 RLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIW--EEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYP  311 (889)
T ss_pred             HhccCCcccchhhHHHHHHHHHHHhccCceEEEEeccc--ccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCcc
Confidence                                         999999999  888899999999998889999999999999998 777778


Q ss_pred             eeCCCCCHHHHHHHHhhCCCCCC
Q 039127          126 YELKKLVNDNCLLIFSQHPSGTR  148 (162)
Q Consensus       126 ~~l~~L~~~~~~~lf~~~af~~~  148 (162)
                      +++++|+.++||.||++.||...
T Consensus       312 ~~v~~L~~~eaW~LF~~~v~~~~  334 (889)
T KOG4658|consen  312 IEVECLTPEEAWDLFQKKVGPNT  334 (889)
T ss_pred             ccccccCccccHHHHHHhhcccc
Confidence            99999999999999999998763

>PLN03210 Resistant to P

Probab=99.90  E-value=2e-23  Score=187.71  Aligned_cols=126  Identities=18%  Similarity=0.174  Sum_probs=103.4

Q ss_pred             CCCCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc---------------------
Q 039127           19 VPSVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV---------------------   74 (162)
Q Consensus        19 ~~~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~---------------------   74 (162)
                      +.+...+|||+.   ++..+|...     ..+.++++||||||+||||||+++|++...                     
T Consensus       180 ~~~~~~~vG~~~~l~~l~~lL~l~-----~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~  254 (1153)
T PLN03210        180 SNDFEDFVGIEDHIAKMSSLLHLE-----SEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYS  254 (1153)
T ss_pred             CcccccccchHHHHHHHHHHHccc-----cCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhcc
Confidence            345578999999   554444322     246899999999999999999999654210                     


Q ss_pred             ------------------------------------------eEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecC
Q 039127           75 ------------------------------------------NFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTR  112 (162)
Q Consensus        75 ------------------------------------------~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR  112 (162)
                                                                ++|+||||+|  +..+|+.+.....+.++||+||||||
T Consensus       255 ~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~--~~~~l~~L~~~~~~~~~GsrIIiTTr  332 (1153)
T PLN03210        255 SANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLD--DQDVLDALAGQTQWFGSGSRIIVITK  332 (1153)
T ss_pred             cccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCC--CHHHHHHHHhhCccCCCCcEEEEEeC
Confidence                                                      0799999999  88999999877766788999999999


Q ss_pred             ChhhHhhhCCCCeeeCCCCCHHHHHHHHhhCCCCCCCCC
Q 039127          113 NQGVASIMGTMPAYELKKLVNDNCLLIFSQHPSGTREIV  151 (162)
Q Consensus       113 ~~~v~~~~~~~~~~~l~~L~~~~~~~lf~~~af~~~~~~  151 (162)
                      +..++..++..+.|+++.|+.++||+||+++||+...+.
T Consensus       333 d~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~  371 (1153)
T PLN03210        333 DKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPP  371 (1153)
T ss_pred             cHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCc
Confidence            999998777778999999999999999999999876543

syringae 6; Provisional

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

Probab=99.89  E-value=5.9e-24  Score=164.90  Aligned_cols=111  Identities=31%  Similarity=0.477  Sum_probs=85.8

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC--ce---------------------------------
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT--VN---------------------------------   75 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~--~~---------------------------------   75 (162)
                      +|.+.|....     .+.++|+|+||||+||||||..++++..  ..                                 
T Consensus         7 ~l~~~L~~~~-----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~   81 (287)
T PF00931_consen    7 KLKDWLLDNS-----NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSI   81 (287)
T ss_dssp             HHHHHHHTTT-----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STS
T ss_pred             HHHHHhhCCC-----CCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccccccccccccccccccccc
Confidence            6778887743     4689999999999999999999998832  22                                 


Q ss_pred             ---------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChhhHhhhCC-CCeeeCCCCCH
Q 039127           76 ---------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGT-MPAYELKKLVN  133 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~~~-~~~~~l~~L~~  133 (162)
                                           ||+||||+|  +...|+.+...++....||+||+|||+..++..++. ...+++++|+.
T Consensus        82 ~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~--~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   82 SDPKDIEELQDQLRELLKDKRCLLVLDDVW--DEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             SCCSSHHHHHHHHHHHHCCTSEEEEEEEE---SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             ccccccccccccchhhhccccceeeeeeec--cccccccccccccccccccccccccccccccccccccccccccccccc
Confidence                                 999999999  888999998888877789999999999998876654 56899999999


Q ss_pred             HHHHHHHhhCCCCCC
Q 039127          134 DNCLLIFSQHPSGTR  148 (162)
Q Consensus       134 ~~~~~lf~~~af~~~  148 (162)
                      ++|++||++.++...
T Consensus       160 ~ea~~L~~~~~~~~~  174 (287)
T PF00931_consen  160 EEALELFKKRAGRKE  174 (287)
T ss_dssp             HHHHHHHHHHHTSHS
T ss_pred             ccccccccccccccc
Confidence            999999999988665

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.

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

Probab=99.29  E-value=1.6e-11  Score=98.04  Aligned_cols=113  Identities=16%  Similarity=0.245  Sum_probs=87.3

Q ss_pred             CCCceeeehH-----HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce--------------------
Q 039127           21 SVKLWLGREE-----GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN--------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~-----~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------   75 (162)
                      +..+++|.+.     .++..++...      .+....+||++|+||||||+.+.......                    
T Consensus        22 ~lde~vGQ~HLlg~~~~lrr~v~~~------~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~gvkdlr~i~e~   95 (436)
T COG2256          22 SLDEVVGQEHLLGEGKPLRRAVEAG------HLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSGVKDLREIIEE   95 (436)
T ss_pred             CHHHhcChHhhhCCCchHHHHHhcC------CCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccccHHHHHHHHHH
Confidence            4578889888     5566655544      47778899999999999999998765543                    


Q ss_pred             ----------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE--ecCChhhH---hhhCCCCeeeCCCCCHHHHHHHH
Q 039127           76 ----------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV--TTRNQGVA---SIMGTMPAYELKKLVNDNCLLIF  140 (162)
Q Consensus        76 ----------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii--TTR~~~v~---~~~~~~~~~~l~~L~~~~~~~lf  140 (162)
                                .+|.+|.|+..+..+.+.|++.+   ..|.-++|  ||.|+...   ...+...++.+++|+.++-..++
T Consensus        96 a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~v---E~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l  172 (436)
T COG2256          96 ARKNRLLGRRTILFLDEIHRFNKAQQDALLPHV---ENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLL  172 (436)
T ss_pred             HHHHHhcCCceEEEEehhhhcChhhhhhhhhhh---cCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHH
Confidence                      78999999988888888876554   45776666  77776542   33445568999999999999999


Q ss_pred             hh
Q 039127          141 SQ  142 (162)
Q Consensus       141 ~~  142 (162)
                      .+
T Consensus       173 ~r  174 (436)
T COG2256         173 KR  174 (436)
T ss_pred             HH
Confidence            87

>PF05729 NACHT: NACHT domain

Probab=99.26  E-value=3.5e-11  Score=85.54  Aligned_cols=95  Identities=17%  Similarity=0.175  Sum_probs=68.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------------------------
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------------------------   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------------------------   75 (162)
                      +++.|+|.+|+|||++++.++......                                                     
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKN   80 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcC
Confidence            478899999999999999887543322                                                     


Q ss_pred             --EEEEEeCCCCCChh-------hHHHHH-hhccc-cCCCcEEEEecCChhh---HhhhCCCCeeeCCCCCHHHHHHHHh
Q 039127           76 --FNFALDDTWKEKYV-------DWTNMR-DLFAA-VASRSKVIVTTRNQGV---ASIMGTMPAYELKKLVNDNCLLIFS  141 (162)
Q Consensus        76 --~LlVlDdv~~~~~~-------~~~~l~-~~l~~-~~~gs~iiiTTR~~~v---~~~~~~~~~~~l~~L~~~~~~~lf~  141 (162)
                        +++|+|++++....       .+..+. ..+.. ..++.++++|+|....   .........+++.+|++++..+++.
T Consensus        81 ~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  160 (166)
T PF05729_consen   81 KRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLR  160 (166)
T ss_pred             CceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHH
Confidence              89999999853221       122322 33332 3568899999999766   3334444579999999999999998


Q ss_pred             hC
Q 039127          142 QH  143 (162)
Q Consensus       142 ~~  143 (162)
                      +.
T Consensus       161 ~~  162 (166)
T PF05729_consen  161 KY  162 (166)
T ss_pred             HH
Confidence            75

>PRK06893 DNA replication initiation factor; Validated

Probab=99.23  E-value=3.1e-11  Score=91.42  Aligned_cols=123  Identities=18%  Similarity=0.204  Sum_probs=78.9

Q ss_pred             CCceeeehH-HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC-----Cce--------------------
Q 039127           22 VKLWLGREE-GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK-----TVN--------------------   75 (162)
Q Consensus        22 ~~~~vGr~~-~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~-----~~~--------------------   75 (162)
                      -.+|+|-+. ..+..+....   .....+.+.++|.+|+|||+|++.+++..     ...                    
T Consensus        15 fd~f~~~~~~~~~~~~~~~~---~~~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~   91 (229)
T PRK06893         15 LDNFYADNNLLLLDSLRKNF---IDLQQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQYFSPAVLENLEQ   91 (229)
T ss_pred             ccccccCChHHHHHHHHHHh---hccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhhhhHHHHhhccc
Confidence            356665445 3333333211   01223568899999999999999998653     111                    


Q ss_pred             -EEEEEeCCCCCC-hhhHH-HHHhhcccc-CCCcEEEE-ecCC---------hhhHhhhCCCCeeeCCCCCHHHHHHHHh
Q 039127           76 -FNFALDDTWKEK-YVDWT-NMRDLFAAV-ASRSKVIV-TTRN---------QGVASIMGTMPAYELKKLVNDNCLLIFS  141 (162)
Q Consensus        76 -~LlVlDdv~~~~-~~~~~-~l~~~l~~~-~~gs~iii-TTR~---------~~v~~~~~~~~~~~l~~L~~~~~~~lf~  141 (162)
                       -+|++||+|... ...|+ .+...+... ..|+.+++ |+..         +.+.+.+.....+++++++.++.+++++
T Consensus        92 ~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~  171 (229)
T PRK06893         92 QDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQ  171 (229)
T ss_pred             CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHH
Confidence             489999999532 34455 344444432 34555544 5544         3566666666789999999999999999


Q ss_pred             hCCCCC
Q 039127          142 QHPSGT  147 (162)
Q Consensus       142 ~~af~~  147 (162)
                      +.++..
T Consensus       172 ~~a~~~  177 (229)
T PRK06893        172 RNAYQR  177 (229)
T ss_pred             HHHHHc
Confidence            887643

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

Probab=99.08  E-value=6.2e-10  Score=88.46  Aligned_cols=113  Identities=15%  Similarity=0.264  Sum_probs=85.6

Q ss_pred             CCCceeeehH-----HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce--------------------
Q 039127           21 SVKLWLGREE-----GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN--------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~-----~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------   75 (162)
                      ...+.||.+.     .++..+++.+      .++.+.+||.+|.||||||+.+.+..+..                    
T Consensus       136 tL~dyvGQ~hlv~q~gllrs~ieq~------~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a~t~dvR~i  209 (554)
T KOG2028|consen  136 TLDDYVGQSHLVGQDGLLRSLIEQN------RIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNAKTNDVRDI  209 (554)
T ss_pred             hHHHhcchhhhcCcchHHHHHHHcC------CCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccccchHHHHHH
Confidence            3467788877     5777777665      57888899999999999999998766554                    


Q ss_pred             --------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE--ecCChhhH---hhhCCCCeeeCCCCCHHHH
Q 039127           76 --------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV--TTRNQGVA---SIMGTMPAYELKKLVNDNC  136 (162)
Q Consensus        76 --------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii--TTR~~~v~---~~~~~~~~~~l~~L~~~~~  136 (162)
                                    -+|.+|.++..+..+.+.+   ||...+|+-++|  ||.|....   ..+..-.++.|++|..++.
T Consensus       210 fe~aq~~~~l~krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v  286 (554)
T KOG2028|consen  210 FEQAQNEKSLTKRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAV  286 (554)
T ss_pred             HHHHHHHHhhhcceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHH
Confidence                          6888999997777776665   444556776665  88876542   3344445899999999999


Q ss_pred             HHHHhh
Q 039127          137 LLIFSQ  142 (162)
Q Consensus       137 ~~lf~~  142 (162)
                      ..++.+
T Consensus       287 ~~iL~r  292 (554)
T KOG2028|consen  287 VTILMR  292 (554)
T ss_pred             HHHHHH
Confidence            988876

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.98  E-value=1.4e-09  Score=85.30  Aligned_cols=120  Identities=17%  Similarity=0.082  Sum_probs=76.7

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      .+|+|+++   .+..++....  ........+.++|++|+|||+||+.+.+.....                        
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~--~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~   81 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAK--MRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNLEE   81 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHH--hcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCchhHHHHHHhccc
Confidence            57899999   4444443211  011234567899999999999999998775433                        


Q ss_pred             -EEEEEeCCCCCChhhHHHHHhhccc-------------------cCCCcEEEEecCChhhHhhhC-C-CCeeeCCCCCH
Q 039127           76 -FNFALDDTWKEKYVDWTNMRDLFAA-------------------VASRSKVIVTTRNQGVASIMG-T-MPAYELKKLVN  133 (162)
Q Consensus        76 -~LlVlDdv~~~~~~~~~~l~~~l~~-------------------~~~gs~iiiTTR~~~v~~~~~-~-~~~~~l~~L~~  133 (162)
                       .++++|+++.......+.+...+..                   ..+.+-|..||+...+...+. . ...+++++++.
T Consensus        82 ~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~  161 (305)
T TIGR00635        82 GDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTV  161 (305)
T ss_pred             CCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCccccCHHHHhhcceEEEeCCCCH
Confidence             5899999985554444444433211                   112344556777654433221 1 23578999999


Q ss_pred             HHHHHHHhhCC
Q 039127          134 DNCLLIFSQHP  144 (162)
Q Consensus       134 ~~~~~lf~~~a  144 (162)
                      ++..+++.+.+
T Consensus       162 ~e~~~il~~~~  172 (305)
T TIGR00635       162 EELAEIVSRSA  172 (305)
T ss_pred             HHHHHHHHHHH
Confidence            99999998765

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

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.97  E-value=5.4e-09  Score=85.59  Aligned_cols=112  Identities=14%  Similarity=0.202  Sum_probs=77.1

Q ss_pred             CCceeeehH---H---HHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce--------------------
Q 039127           22 VKLWLGREE---G---TVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN--------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~---i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------   75 (162)
                      ..+++|++.   .   +.+++.. .      ....+.++|.+|+||||||+.+++.....                    
T Consensus        11 l~d~vGq~~~v~~~~~L~~~i~~-~------~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~~~~~ir~ii~~   83 (413)
T PRK13342         11 LDEVVGQEHLLGPGKPLRRMIEA-G------RLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTSGVKDLREVIEE   83 (413)
T ss_pred             HHHhcCcHHHhCcchHHHHHHHc-C------CCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccccHHHHHHHHHH
Confidence            467888887   2   4444433 2      35567889999999999999998654322                    


Q ss_pred             ----------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE--ecCChhh---HhhhCCCCeeeCCCCCHHHHHHHH
Q 039127           76 ----------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV--TTRNQGV---ASIMGTMPAYELKKLVNDNCLLIF  140 (162)
Q Consensus        76 ----------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii--TTR~~~v---~~~~~~~~~~~l~~L~~~~~~~lf  140 (162)
                                .++++|+++..+...++.|...+..   |..+++  ||.+...   .........+++.+++.++...++
T Consensus        84 ~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le~---~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL  160 (413)
T PRK13342         84 ARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLL  160 (413)
T ss_pred             HHHhhhcCCceEEEEechhhhCHHHHHHHHHHhhc---CcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHH
Confidence                      5899999997777777777766553   444444  3444321   122233357899999999999999


Q ss_pred             hhC
Q 039127          141 SQH  143 (162)
Q Consensus       141 ~~~  143 (162)
                      .+.
T Consensus       161 ~~~  163 (413)
T PRK13342        161 KRA  163 (413)
T ss_pred             HHH
Confidence            874

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

Probab=98.96  E-value=3.1e-09  Score=79.34  Aligned_cols=111  Identities=20%  Similarity=0.240  Sum_probs=64.5

Q ss_pred             eeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce--------------------------
Q 039127           25 WLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN--------------------------   75 (162)
Q Consensus        25 ~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------------   75 (162)
                      |+||+.   .|.+.+.++.       .+.+.|+|..|+|||+|++.+.+..+..                          
T Consensus         1 F~gR~~el~~l~~~l~~~~-------~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~   73 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGP-------SQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETS   73 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH---------SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhc-------CcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHH
Confidence            689999   5555554432       4678899999999999999987766321                          


Q ss_pred             ----------------------------------------------EEEEEeCCCCCC------hhhHHHHHhhccc---
Q 039127           76 ----------------------------------------------FNFALDDTWKEK------YVDWTNMRDLFAA---  100 (162)
Q Consensus        76 ----------------------------------------------~LlVlDdv~~~~------~~~~~~l~~~l~~---  100 (162)
                                                                    .++|+|++....      ......+...+..   
T Consensus        74 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~  153 (234)
T PF01637_consen   74 LADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLS  153 (234)
T ss_dssp             HHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccc
Confidence                                                          899999997433      1222334444443   


Q ss_pred             cCCCcEEEEecCChhhHhh--------hCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          101 VASRSKVIVTTRNQGVASI--------MGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       101 ~~~gs~iiiTTR~~~v~~~--------~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ..+.+ +++++....+...        .+....+.+++|+.+++++++...
T Consensus       154 ~~~~~-~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~  203 (234)
T PF01637_consen  154 QQNVS-IVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKEL  203 (234)
T ss_dssp             -TTEE-EEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHH
T ss_pred             cCCce-EEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHH
Confidence            33334 4444444433332        222335999999999999999874

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

>PRK09087 hypothetical protein; Validated

Probab=98.93  E-value=1.7e-08  Score=76.40  Aligned_cols=96  Identities=16%  Similarity=0.084  Sum_probs=68.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce-----------------EEEEEeCCCCCChhhHHHHHhhccc-cCCCcEEEE
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------FNFALDDTWKEKYVDWTNMRDLFAA-VASRSKVIV  109 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iii  109 (162)
                      .+.+.|+|..|+|||+|++.++......                 -++++||++.... .-+.+...+.. ...|..+|+
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~iDDi~~~~~-~~~~lf~l~n~~~~~g~~ili  122 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSDALLIHPNEIGSDAANAAAEGPVLIEDIDAGGF-DETGLFHLINSVRQAGTSLLM  122 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcCCEEecHHHcchHHHHhhhcCeEEEECCCCCCC-CHHHHHHHHHHHHhCCCeEEE
Confidence            3568999999999999999988655443                 2688999974321 12334443332 234677999


Q ss_pred             ecCC---------hhhHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          110 TTRN---------QGVASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       110 TTR~---------~~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      |++.         +.+.+.+....++++++++.++-..++.+++
T Consensus       123 ts~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~  166 (226)
T PRK09087        123 TSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLF  166 (226)
T ss_pred             ECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHH
Confidence            8874         3445555666789999999999999998775

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.92  E-value=2.9e-09  Score=84.65  Aligned_cols=124  Identities=16%  Similarity=0.084  Sum_probs=77.3

Q ss_pred             CCCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce---------------------
Q 039127           20 PSVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------   75 (162)
Q Consensus        20 ~~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------   75 (162)
                      ....+|+|++.   .+...+....  ..+.....+.++|++|+|||+||+.+++.....                     
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~~~--~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~~l~~~l~~   99 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEAAK--KRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDLAAILTN   99 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHH--hcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChHHHHHHHHh
Confidence            35578999999   3322332211  012335567899999999999999998775432                     


Q ss_pred             ----EEEEEeCCCCCChhhHHHHHhhcccc-------------------CCCcEEEEecCChhhHhhhCC--CCeeeCCC
Q 039127           76 ----FNFALDDTWKEKYVDWTNMRDLFAAV-------------------ASRSKVIVTTRNQGVASIMGT--MPAYELKK  130 (162)
Q Consensus        76 ----~LlVlDdv~~~~~~~~~~l~~~l~~~-------------------~~gs~iiiTTR~~~v~~~~~~--~~~~~l~~  130 (162)
                          .++++|+++..+....+.+...+...                   .+.+-|..|++...+...+..  ...+++.+
T Consensus       100 l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~~  179 (328)
T PRK00080        100 LEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEF  179 (328)
T ss_pred             cccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceeecCCCceEEeecCCcccCCHHHHHhcCeeeecCC
Confidence                58899999854443333333322110                   123445567775544332211  23589999


Q ss_pred             CCHHHHHHHHhhCCC
Q 039127          131 LVNDNCLLIFSQHPS  145 (162)
Q Consensus       131 L~~~~~~~lf~~~af  145 (162)
                      ++.++..+++.+.+-
T Consensus       180 ~~~~e~~~il~~~~~  194 (328)
T PRK00080        180 YTVEELEKIVKRSAR  194 (328)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999987653

>PF13173 AAA_14: AAA domain

Probab=98.90  E-value=9.4e-09  Score=70.95  Aligned_cols=87  Identities=22%  Similarity=0.231  Sum_probs=65.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC--ce-------------------------------EEEEEeCCCCCChhhHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT--VN-------------------------------FNFALDDTWKEKYVDWTNM   94 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~--~~-------------------------------~LlVlDdv~~~~~~~~~~l   94 (162)
                      .+++.|.|+.|+|||||++.++.+..  .+                               .+++||++.  ....|...
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iDEiq--~~~~~~~~   79 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPDLLEYFLELIKPGKKYIFIDEIQ--YLPDWEDA   79 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhhhHHHHHHhhccCCcEEEEehhh--hhccHHHH
Confidence            36889999999999999998886654  11                               579999999  66778777


Q ss_pred             HhhccccCCCcEEEEecCChhhHhh------hCCCCeeeCCCCCHHHH
Q 039127           95 RDLFAAVASRSKVIVTTRNQGVASI------MGTMPAYELKKLVNDNC  136 (162)
Q Consensus        95 ~~~l~~~~~gs~iiiTTR~~~v~~~------~~~~~~~~l~~L~~~~~  136 (162)
                      ...+....+..+|++|+.+......      .+....+++.||+-.|.
T Consensus        80 lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   80 LKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             HHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            7777665566789999988765532      12223689999997763

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

Probab=98.90  E-value=3.5e-08  Score=74.07  Aligned_cols=123  Identities=16%  Similarity=0.156  Sum_probs=74.1

Q ss_pred             CCCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------
Q 039127           21 SVKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------   75 (162)
                      ...+|+|.+.  +-...+..... ..+....-+.+||++|+||||||..+.+.....                       
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~-~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~~dl~~il~~l~  100 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAK-KRGEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKAGDLAAILTNLK  100 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHH-CTTS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SCHHHHHHHHT--
T ss_pred             CHHHccCcHHHHhhhHHHHHHHH-hcCCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhHHHHHHHHHhcC
Confidence            5689999999  22222221100 012357778899999999999999999887665                       


Q ss_pred             --EEEEEeCCCCCChhhHHHHHhhcccc------C-------------CCcEEEEecCChhhHhhhCCCC--eeeCCCCC
Q 039127           76 --FNFALDDTWKEKYVDWTNMRDLFAAV------A-------------SRSKVIVTTRNQGVASIMGTMP--AYELKKLV  132 (162)
Q Consensus        76 --~LlVlDdv~~~~~~~~~~l~~~l~~~------~-------------~gs~iiiTTR~~~v~~~~~~~~--~~~l~~L~  132 (162)
                        -+|.+|.++..+..+.+.|...+.++      +             +-+-|=.|||...+...+...-  ..+++..+
T Consensus       101 ~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~  180 (233)
T PF05496_consen  101 EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIVLRLEFYS  180 (233)
T ss_dssp             TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEEEE----T
T ss_pred             CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcceecchhcCC
Confidence              67888999988888877777665421      1             1234556888876665444432  45799999


Q ss_pred             HHHHHHHHhhCC
Q 039127          133 NDNCLLIFSQHP  144 (162)
Q Consensus       133 ~~~~~~lf~~~a  144 (162)
                      .+|-..+..+.+
T Consensus       181 ~~el~~Iv~r~a  192 (233)
T PF05496_consen  181 EEELAKIVKRSA  192 (233)
T ss_dssp             HHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHH
Confidence            999999988765

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

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

Probab=98.86  E-value=2e-08  Score=87.12  Aligned_cols=115  Identities=16%  Similarity=0.232  Sum_probs=77.9

Q ss_pred             CCCceeeehH-----HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce--------------------
Q 039127           21 SVKLWLGREE-----GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN--------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~-----~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------   75 (162)
                      ...+|+|++.     ..+..+....      ....+.++|++|+||||||+.+++.....                    
T Consensus        26 tldd~vGQe~ii~~~~~L~~~i~~~------~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~~i~dir~~i~~   99 (725)
T PRK13341         26 TLEEFVGQDHILGEGRLLRRAIKAD------RVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAGVKDLRAEVDR   99 (725)
T ss_pred             cHHHhcCcHHHhhhhHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhhhhHHHHHHHHH
Confidence            3467899888     2333334333      35567899999999999999997654322                    


Q ss_pred             -----------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE--ecCChh--hH-hhhCCCCeeeCCCCCHHHHHHH
Q 039127           76 -----------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV--TTRNQG--VA-SIMGTMPAYELKKLVNDNCLLI  139 (162)
Q Consensus        76 -----------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii--TTR~~~--v~-~~~~~~~~~~l~~L~~~~~~~l  139 (162)
                                 .+++||+++..+...++.|...+.   .|+.+++  ||.+..  +. ........+.+.+|+.++...+
T Consensus       100 a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi~~I  176 (725)
T PRK13341        100 AKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQL  176 (725)
T ss_pred             HHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHHHHH
Confidence                       489999999777777777776554   3555555  344432  11 1222234799999999999999


Q ss_pred             HhhCC
Q 039127          140 FSQHP  144 (162)
Q Consensus       140 f~~~a  144 (162)
                      +.+.+
T Consensus       177 L~~~l  181 (725)
T PRK13341        177 LKRAL  181 (725)
T ss_pred             HHHHH
Confidence            88643

>PRK06620 hypothetical protein; Validated

Probab=98.83  E-value=3.4e-08  Score=74.15  Aligned_cols=93  Identities=15%  Similarity=0.160  Sum_probs=64.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce---------------EEEEEeCCCCCChhhHHHHHhhccc-cCCCcEEEEecC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN---------------FNFALDDTWKEKYVDWTNMRDLFAA-VASRSKVIVTTR  112 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------~LlVlDdv~~~~~~~~~~l~~~l~~-~~~gs~iiiTTR  112 (162)
                      +.+.|||.+|+|||+|++.+++.....               -++++||++..+..   .+...+.. ...|..+|+|++
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~~~~~~~~~~~~~d~lliDdi~~~~~~---~lf~l~N~~~e~g~~ilits~  121 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAYIIKDIFFNEEILEKYNAFIIEDIENWQEP---ALLHIFNIINEKQKYLLLTSS  121 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCEEcchhhhchhHHhcCCEEEEeccccchHH---HHHHHHHHHHhcCCEEEEEcC
Confidence            568899999999999999887765432               37889999832221   23222221 245678999987


Q ss_pred             Chh-------hHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          113 NQG-------VASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       113 ~~~-------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ...       +.+.+...-++++++++.++...++++.+
T Consensus       122 ~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~  160 (214)
T PRK06620        122 DKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHF  160 (214)
T ss_pred             CCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHH
Confidence            532       33444455579999999999888887764

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.83  E-value=2e-08  Score=76.39  Aligned_cols=97  Identities=16%  Similarity=0.187  Sum_probs=66.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC-----ce---------------------EEEEEeCCCCCC-hhhHHH-HHhhcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT-----VN---------------------FNFALDDTWKEK-YVDWTN-MRDLFA   99 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~-----~~---------------------~LlVlDdv~~~~-~~~~~~-l~~~l~   99 (162)
                      .+.+.|+|+.|+|||+|++.+++...     +.                     -++++||+.... ...|+. +...+.
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~~~~~~~~~~~~~dlliiDdi~~~~~~~~~~~~lf~l~n  124 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAWFVPEVLEGMEQLSLVCIDNIECIAGDELWEMAIFDLYN  124 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhhhhHHHHHHhhhCCEEEEeChhhhcCCHHHHHHHHHHHH
Confidence            35788999999999999998876432     11                     279999997432 234543 323332


Q ss_pred             c-cCCC-cEEEEecCCh---------hhHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          100 A-VASR-SKVIVTTRNQ---------GVASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       100 ~-~~~g-s~iiiTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      . ...| .++|+||++.         .+.+.+.+..++++.+++.++-.+++.+++
T Consensus       125 ~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a  180 (235)
T PRK08084        125 RILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRA  180 (235)
T ss_pred             HHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHH
Confidence            2 1233 3689999764         344555566789999999999999988754

>PRK08727 hypothetical protein; Validated

Probab=98.79  E-value=2.3e-08  Score=75.97  Aligned_cols=97  Identities=16%  Similarity=0.098  Sum_probs=65.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce--------------------------EEEEEeCCCCCC-hhhHH-HHHhhccc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN--------------------------FNFALDDTWKEK-YVDWT-NMRDLFAA  100 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------------~LlVlDdv~~~~-~~~~~-~l~~~l~~  100 (162)
                      ..+.|+|..|+|||+|++.+++....+                          -+||+||+.... ...|. .+...+..
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~l~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~  121 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAAGRLRDALEALEGRSLVALDGLESIAGQREDEVALFDFHNR  121 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhhhhHHHHHHHHhcCCEEEEeCcccccCChHHHHHHHHHHHH
Confidence            458899999999999999986542211                          589999997432 12343 33333332


Q ss_pred             -cCCCcEEEEecCCh---------hhHhhhCCCCeeeCCCCCHHHHHHHHhhCCC
Q 039127          101 -VASRSKVIVTTRNQ---------GVASIMGTMPAYELKKLVNDNCLLIFSQHPS  145 (162)
Q Consensus       101 -~~~gs~iiiTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~af  145 (162)
                       ..+|..+|+||+..         .+.+.+.....+++++++.++-..++.+++.
T Consensus       122 ~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~  176 (233)
T PRK08727        122 ARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERAQ  176 (233)
T ss_pred             HHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHHH
Confidence             23466799999863         2333344455799999999999999998653

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.77  E-value=4.7e-08  Score=73.32  Aligned_cols=96  Identities=11%  Similarity=0.120  Sum_probs=63.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc---e-----------------------EEEEEeCCCCCChh-h-HHHHHhhcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV---N-----------------------FNFALDDTWKEKYV-D-WTNMRDLFA   99 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~---~-----------------------~LlVlDdv~~~~~~-~-~~~l~~~l~   99 (162)
                      ...+.|+|.+|+|||+||+.+++....   .                       -++|+||++..+.. . .+.+...+.
T Consensus        38 ~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~lLvIDdi~~l~~~~~~~~~L~~~l~  117 (226)
T TIGR03420        38 DRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQADPEVLEGLEQADLVCLDDVEAIAGQPEWQEALFHLYN  117 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHhHHHHHhhcccCCEEEEeChhhhcCChHHHHHHHHHHH
Confidence            467889999999999999998755321   1                       37999999843322 2 344544443


Q ss_pred             c-cCCCcEEEEecCChh---------hHhhhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          100 A-VASRSKVIVTTRNQG---------VASIMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       100 ~-~~~gs~iiiTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      . ...+..+|+||+...         +...+.....+++.+++.++...++...
T Consensus       118 ~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~  171 (226)
T TIGR03420       118 RVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSR  171 (226)
T ss_pred             HHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHH
Confidence            2 123457888887532         2222322346899999999989888764

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.

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

Probab=98.72  E-value=4.1e-07  Score=69.94  Aligned_cols=96  Identities=14%  Similarity=0.066  Sum_probs=64.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce----------------------------------------------------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------------------------------------   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------------------------------------   75 (162)
                      ...+.|+|.+|+|||||++.+++.....                                                    
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~~~  122 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFAAG  122 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHhCC
Confidence            4578899999999999999998764411                                                    


Q ss_pred             --EEEEEeCCCCCChhhHHHHHhhcccc---CCCcEEEEecCChhhHhhhC----------CCCeeeCCCCCHHHHHHHH
Q 039127           76 --FNFALDDTWKEKYVDWTNMRDLFAAV---ASRSKVIVTTRNQGVASIMG----------TMPAYELKKLVNDNCLLIF  140 (162)
Q Consensus        76 --~LlVlDdv~~~~~~~~~~l~~~l~~~---~~gs~iiiTTR~~~v~~~~~----------~~~~~~l~~L~~~~~~~lf  140 (162)
                        .++|+||++..+...++.+.......   .....|++|.... ....+.          ....+++.+|+.++...++
T Consensus       123 ~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~l  201 (269)
T TIGR03015       123 KRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREETREYI  201 (269)
T ss_pred             CCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHHH
Confidence              79999999976666777765433221   1222445655433 221111          1235789999999999988


Q ss_pred             hhCC
Q 039127          141 SQHP  144 (162)
Q Consensus       141 ~~~a  144 (162)
                      ...+
T Consensus       202 ~~~l  205 (269)
T TIGR03015       202 EHRL  205 (269)
T ss_pred             HHHH
Confidence            7653

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.

>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=98.72  E-value=2.3e-08  Score=75.32  Aligned_cols=120  Identities=14%  Similarity=0.148  Sum_probs=72.3

Q ss_pred             CCCceeeehH----HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc-----e----------------
Q 039127           21 SVKLWLGREE----GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV-----N----------------   75 (162)
Q Consensus        21 ~~~~~vGr~~----~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-----~----------------   75 (162)
                      ....++|-..    .....+....    +.....+.|+|..|+|||.|.+++++....     +                
T Consensus         7 Fdnfv~g~~N~~a~~~~~~ia~~~----~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~   82 (219)
T PF00308_consen    7 FDNFVVGESNELAYAAAKAIAENP----GERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADA   82 (219)
T ss_dssp             CCCS--TTTTHHHHHHHHHHHHST----TTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHH
T ss_pred             cccCCcCCcHHHHHHHHHHHHhcC----CCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHH
Confidence            3445567533    4444454443    123445789999999999999999875321     1                


Q ss_pred             ----------------EEEEEeCCCCCC-hhhHH-HHHhhccc-cCCCcEEEEecCCh---------hhHhhhCCCCeee
Q 039127           76 ----------------FNFALDDTWKEK-YVDWT-NMRDLFAA-VASRSKVIVTTRNQ---------GVASIMGTMPAYE  127 (162)
Q Consensus        76 ----------------~LlVlDdv~~~~-~~~~~-~l~~~l~~-~~~gs~iiiTTR~~---------~v~~~~~~~~~~~  127 (162)
                                      =+|++||++... ...|. .+...+.. ...|.++|+|+...         .+.+.+...-+++
T Consensus        83 ~~~~~~~~~~~~~~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~  162 (219)
T PF00308_consen   83 LRDGEIEEFKDRLRSADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVE  162 (219)
T ss_dssp             HHTTSHHHHHHHHCTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEE
T ss_pred             HHcccchhhhhhhhcCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhh
Confidence                            489999998432 22333 33333332 24577899999653         2334444555799


Q ss_pred             CCCCCHHHHHHHHhhCC
Q 039127          128 LKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       128 l~~L~~~~~~~lf~~~a  144 (162)
                      +.+++.++...++.+.|
T Consensus       163 l~~pd~~~r~~il~~~a  179 (219)
T PF00308_consen  163 LQPPDDEDRRRILQKKA  179 (219)
T ss_dssp             E----HHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHH
Confidence            99999999999998765

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.

>PRK05642 DNA replication initiation factor; Validated

Probab=98.71  E-value=1.1e-07  Score=72.33  Aligned_cols=98  Identities=16%  Similarity=0.187  Sum_probs=66.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC---ce-----------------------EEEEEeCCCCC-ChhhHHH-HHhhcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT---VN-----------------------FNFALDDTWKE-KYVDWTN-MRDLFA   99 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~---~~-----------------------~LlVlDdv~~~-~~~~~~~-l~~~l~   99 (162)
                      ...+.|+|..|+|||+|++.+++...   .+                       =+|++||+... ....|+. +...+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~~~~~~~~~~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n  124 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRGPELLDNLEQYELVCLDDLDVIAGKADWEEALFHLFN  124 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhhhHHHHHhhhhCCEEEEechhhhcCChHHHHHHHHHHH
Confidence            35678999999999999999875321   11                       26899999733 2234443 444444


Q ss_pred             c-cCCCcEEEEecCChh---------hHhhhCCCCeeeCCCCCHHHHHHHHhhCCC
Q 039127          100 A-VASRSKVIVTTRNQG---------VASIMGTMPAYELKKLVNDNCLLIFSQHPS  145 (162)
Q Consensus       100 ~-~~~gs~iiiTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~~~af  145 (162)
                      . ...|..+|+|++...         +.+.+....++++++++.++...++++++.
T Consensus       125 ~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~  180 (234)
T PRK05642        125 RLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRAS  180 (234)
T ss_pred             HHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHH
Confidence            3 234677899887532         233344445799999999999999985543

>PLN03025 replication factor C subunit; Provisional

Probab=98.69  E-value=1.1e-07  Score=75.38  Aligned_cols=118  Identities=13%  Similarity=0.178  Sum_probs=77.9

Q ss_pred             CCCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC-----Cce------------------
Q 039127           21 SVKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK-----TVN------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~-----~~~------------------   75 (162)
                      ...+++|.++  +.+..+....      +.+-+.++|.+|+||||+|+.+.+..     ...                  
T Consensus        11 ~l~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~~vr~~   84 (319)
T PLN03025         11 KLDDIVGNEDAVSRLQVIARDG------NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGIDVVRNK   84 (319)
T ss_pred             CHHHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHHHHHHH
Confidence            3467889887  3333333333      24456799999999999998876542     000                  


Q ss_pred             ----------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHh-hhCCCCeeeCCCCCHHHHH
Q 039127           76 ----------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVAS-IMGTMPAYELKKLVNDNCL  137 (162)
Q Consensus        76 ----------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~-~~~~~~~~~l~~L~~~~~~  137 (162)
                                      -++++|+++..+......|...+......+++++++... .+.. .......+++.+++.++..
T Consensus        85 i~~~~~~~~~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l~  164 (319)
T PLN03025         85 IKMFAQKKVTLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEIL  164 (319)
T ss_pred             HHHHHhccccCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHHH
Confidence                            389999999877777777877776545566677666442 2211 1122236899999999988


Q ss_pred             HHHhhCC
Q 039127          138 LIFSQHP  144 (162)
Q Consensus       138 ~lf~~~a  144 (162)
                      ..+...+
T Consensus       165 ~~L~~i~  171 (319)
T PLN03025        165 GRLMKVV  171 (319)
T ss_pred             HHHHHHH
Confidence            8887654

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.68  E-value=8.4e-08  Score=72.29  Aligned_cols=95  Identities=21%  Similarity=0.233  Sum_probs=61.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce----------------------EEEEEeCCCCCChhhHHHHHhhcccc-CCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------FNFALDDTWKEKYVDWTNMRDLFAAV-ASR  104 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~-~~g  104 (162)
                      ...+.|+|..|+|||+||+.+++.....                      -++++||++..+......+...+... ..+
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~  121 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLLAFDFDPEAELYAVDDVERLDDAQQIALFNLFNRVRAHG  121 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHHHHhhcccCCEEEEeChhhcCchHHHHHHHHHHHHHHcC
Confidence            4567899999999999999998753111                      47999999854444444555555431 234


Q ss_pred             c-EEEEecCChhhH--------hhhCCCCeeeCCCCCHHHHHHHHhh
Q 039127          105 S-KVIVTTRNQGVA--------SIMGTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       105 s-~iiiTTR~~~v~--------~~~~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                      . .+++|++.....        +.+.....+++.+++.++-..++.+
T Consensus       122 ~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~  168 (227)
T PRK08903        122 QGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKA  168 (227)
T ss_pred             CcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHH
Confidence            4 366666653211        1222235789999999887777665

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.67  E-value=3.2e-07  Score=73.99  Aligned_cols=116  Identities=11%  Similarity=0.141  Sum_probs=80.9

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-------------------------   73 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-------------------------   73 (162)
                      -.+++|.+.   .+.+.+..+.      -...+.++|+.|+||||+|+.+.+...                         
T Consensus        15 ~~~iiGq~~~~~~l~~~~~~~~------~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~~~~~~~~~   88 (363)
T PRK14961         15 FRDIIGQKHIVTAISNGLSLGR------IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICKEIEKGLCL   88 (363)
T ss_pred             hhhccChHHHHHHHHHHHHcCC------CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            478899999   4444444333      345678999999999999988865321                         


Q ss_pred             ----------ce--------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHhh-hC
Q 039127           74 ----------VN--------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVASI-MG  121 (162)
Q Consensus        74 ----------~~--------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~-~~  121 (162)
                                ..                    -++|+|+++..+...++.+...+.......++|++|.+ ..+... .+
T Consensus        89 d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~S  168 (363)
T PRK14961         89 DLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILS  168 (363)
T ss_pred             ceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHh
Confidence                      00                    38999999977777788888888765556666666544 333322 22


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ....+++.+++.++....+...
T Consensus       169 Rc~~~~~~~l~~~el~~~L~~~  190 (363)
T PRK14961        169 RCLQFKLKIISEEKIFNFLKYI  190 (363)
T ss_pred             hceEEeCCCCCHHHHHHHHHHH
Confidence            2347999999999988877654

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

Probab=98.67  E-value=1.5e-07  Score=64.59  Aligned_cols=68  Identities=16%  Similarity=0.073  Sum_probs=46.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC---ce------------------------------------EEEEEeCCCCCCh
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT---VN------------------------------------FNFALDDTWKEKY   88 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~---~~------------------------------------~LlVlDdv~~~~~   88 (162)
                      .+.+.|+|.+|+|||++++.+++...   ..                                    .++++||++....
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lilDe~~~~~~   98 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSR   98 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHhhccCCCeEEEEeChhhhhH
Confidence            45788999999999999999987641   11                                    7899999984323


Q ss_pred             hhHHHHHhhcccc------CCCcEEEEecCChh
Q 039127           89 VDWTNMRDLFAAV------ASRSKVIVTTRNQG  115 (162)
Q Consensus        89 ~~~~~l~~~l~~~------~~gs~iiiTTR~~~  115 (162)
                      .....+...+...      ..+..+|+||....
T Consensus        99 ~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          99 GAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             HHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence            3334444444332      35677888887654

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.66  E-value=2.5e-07  Score=77.44  Aligned_cols=118  Identities=16%  Similarity=0.164  Sum_probs=83.4

Q ss_pred             CCCceeeehH--H-HHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc----------e------------
Q 039127           21 SVKLWLGREE--G-TVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV----------N------------   75 (162)
Q Consensus        21 ~~~~~vGr~~--~-i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~----------~------------   75 (162)
                      .-.+++|.+.  . +.+.+..+.      -...+.++|..|+||||+|+.+++...-          .            
T Consensus        19 ~f~dliGq~~vv~~L~~ai~~~r------i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C~~C~~i~   92 (507)
T PRK06645         19 NFAELQGQEVLVKVLSYTILNDR------LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQCTNCISFN   92 (507)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC------CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCChHHHHHh
Confidence            3468899988  3 333333322      3457889999999999999988653210          0            


Q ss_pred             -------------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEE-EecCChhhH
Q 039127           76 -------------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVI-VTTRNQGVA  117 (162)
Q Consensus        76 -------------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-iTTR~~~v~  117 (162)
                                                           -++|+|+++..+...|..|...+......+.+| +||+.+.+.
T Consensus        93 ~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~  172 (507)
T PRK06645         93 NHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIP  172 (507)
T ss_pred             cCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhh
Confidence                                                 589999999877888999988887655555554 465555554


Q ss_pred             hhh-CCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          118 SIM-GTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       118 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ..+ .....+++.+++.++....+.+.+
T Consensus       173 ~tI~SRc~~~ef~~ls~~el~~~L~~i~  200 (507)
T PRK06645        173 ATIISRCQRYDLRRLSFEEIFKLLEYIT  200 (507)
T ss_pred             HHHHhcceEEEccCCCHHHHHHHHHHHH
Confidence            433 233468999999999998887665

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.64  E-value=2.6e-07  Score=73.19  Aligned_cols=117  Identities=13%  Similarity=0.166  Sum_probs=75.1

Q ss_pred             CCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-----c--------------------
Q 039127           22 VKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-----V--------------------   74 (162)
Q Consensus        22 ~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-----~--------------------   74 (162)
                      ..+++|++.  +.+..+....      ..+.+.++|.+|+|||++|+.+.+...     .                    
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~   87 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVE   87 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhc
Confidence            467889888  3333333332      234577999999999999987543210     0                    


Q ss_pred             --------------------------------------eEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-h
Q 039127           75 --------------------------------------NFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-G  115 (162)
Q Consensus        75 --------------------------------------~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~  115 (162)
                                                            .-++|+||++..+...+..+...+......+++|+|+.+. .
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~  167 (337)
T PRK12402         88 DPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSK  167 (337)
T ss_pred             CcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhh
Confidence                                                  0279999998655556666766665544556777776543 2


Q ss_pred             hHhhh-CCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          116 VASIM-GTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       116 v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      +...+ .....+.+.+++.++...++...+
T Consensus       168 ~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~  197 (337)
T PRK12402        168 LIPPIRSRCLPLFFRAPTDDELVDVLESIA  197 (337)
T ss_pred             CchhhcCCceEEEecCCCHHHHHHHHHHHH
Confidence            22222 223468899999999888887653

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.60  E-value=1.1e-07  Score=77.09  Aligned_cols=119  Identities=17%  Similarity=0.071  Sum_probs=70.7

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-----ce------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-----VN------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-----~~------------------   75 (162)
                      +..++||++   ++...|...-   .+.....+.|+|.+|+|||++++.++++..     ..                  
T Consensus        29 P~~l~~Re~e~~~l~~~l~~~~---~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~  105 (394)
T PRK00411         29 PENLPHREEQIEELAFALRPAL---RGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSE  105 (394)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHh---CCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHH
Confidence            367999998   4444442211   112334577999999999999999875431     00                  


Q ss_pred             ----------------------------------EEEEEeCCCCCC----hhhHHHHHhhccccCCCcE--EEEecCChh
Q 039127           76 ----------------------------------FNFALDDTWKEK----YVDWTNMRDLFAAVASRSK--VIVTTRNQG  115 (162)
Q Consensus        76 ----------------------------------~LlVlDdv~~~~----~~~~~~l~~~l~~~~~gs~--iiiTTR~~~  115 (162)
                                                        .++|||+++...    .+.+..+...+.. ..+++  +|.++....
T Consensus       106 i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~  184 (394)
T PRK00411        106 IARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLT  184 (394)
T ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcc
Confidence                                              689999998421    2233333333222 22332  455555443


Q ss_pred             hHhhhC-------CCCeeeCCCCCHHHHHHHHhhCC
Q 039127          116 VASIMG-------TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       116 v~~~~~-------~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      +.....       ....+.+.+++.++..+++..++
T Consensus       185 ~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~  220 (394)
T PRK00411        185 FLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRV  220 (394)
T ss_pred             hhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHH
Confidence            322111       12357899999999999988654

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.60  E-value=4.3e-07  Score=71.38  Aligned_cols=117  Identities=15%  Similarity=0.156  Sum_probs=76.5

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      +-.+++|+++   .+..++-. .      ..+.+.++|..|+|||++|+.+.+.....                      
T Consensus        15 ~~~~~~g~~~~~~~l~~~i~~-~------~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~~~~   87 (319)
T PRK00440         15 TLDEIVGQEEIVERLKSYVKE-K------NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDERGIDVIRN   87 (319)
T ss_pred             cHHHhcCcHHHHHHHHHHHhC-C------CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEeccccccchHHHHH
Confidence            3467899988   44444433 2      23456899999999999999886642100                      


Q ss_pred             ----------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhH-hhhCCCCeeeCCCCCHHHHH
Q 039127           76 ----------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVA-SIMGTMPAYELKKLVNDNCL  137 (162)
Q Consensus        76 ----------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~-~~~~~~~~~~l~~L~~~~~~  137 (162)
                                      -++++|+++......+..+...+......+.+|+++... .+. ........+++.+++.++..
T Consensus        88 ~i~~~~~~~~~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~  167 (319)
T PRK00440         88 KIKEFARTAPVGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVA  167 (319)
T ss_pred             HHHHHHhcCCCCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHH
Confidence                            378999998666666677777766555556677666432 221 11122336889999999988


Q ss_pred             HHHhhCC
Q 039127          138 LIFSQHP  144 (162)
Q Consensus       138 ~lf~~~a  144 (162)
                      ..+.+.+
T Consensus       168 ~~l~~~~  174 (319)
T PRK00440        168 ERLRYIA  174 (319)
T ss_pred             HHHHHHH
Confidence            7777654

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.60  E-value=4.1e-07  Score=75.72  Aligned_cols=119  Identities=13%  Similarity=0.153  Sum_probs=78.7

Q ss_pred             CCCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           21 SVKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        21 ~~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      .-.+++|.+.  ..+...+..+     .-...+.++|++|+||||+|+.+.+...-                        
T Consensus        12 ~~~divGq~~i~~~L~~~i~~~-----~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~   86 (472)
T PRK14962         12 TFSEVVGQDHVKKLIINALKKN-----SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFM   86 (472)
T ss_pred             CHHHccCcHHHHHHHHHHHHcC-----CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCC
Confidence            3578999988  4333333333     12356789999999999999988653210                        


Q ss_pred             e-------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHhhh-C
Q 039127           75 N-------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVASIM-G  121 (162)
Q Consensus        75 ~-------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~~~-~  121 (162)
                      .                               -++++|+++..+...++.|...+........+|+ ||....+...+ .
T Consensus        87 dv~el~aa~~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~S  166 (472)
T PRK14962         87 DVIELDAASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIIS  166 (472)
T ss_pred             ccEEEeCcccCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhc
Confidence            0                               4899999986666677778777765443444444 44333443332 3


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ....+++.+++.++....+.+.+
T Consensus       167 R~~vv~f~~l~~~el~~~L~~i~  189 (472)
T PRK14962        167 RCQVIEFRNISDELIIKRLQEVA  189 (472)
T ss_pred             CcEEEEECCccHHHHHHHHHHHH
Confidence            33478999999999888887654

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.59  E-value=4.2e-07  Score=78.71  Aligned_cols=117  Identities=12%  Similarity=0.133  Sum_probs=81.7

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      -.+++|.+.   .+.+++-.+.      -...+.++|..|+||||+|+.+.+...-                        
T Consensus        15 FdEVIGQe~Vv~~L~~aL~~gR------L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~   88 (830)
T PRK07003         15 FASLVGQEHVVRALTHALDGGR------LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFV   88 (830)
T ss_pred             HHHHcCcHHHHHHHHHHHhcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCc
Confidence            478999988   4444443332      2456679999999999999866542210                        


Q ss_pred             e-------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHhhh-C
Q 039127           75 N-------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVASIM-G  121 (162)
Q Consensus        75 ~-------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~~~-~  121 (162)
                      .                               -++|||+++..+...|..|+..+..-....++|++|.+. .+...+ +
T Consensus        89 DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrS  168 (830)
T PRK07003         89 DYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLS  168 (830)
T ss_pred             eEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhh
Confidence            0                               478999999888888999988887655667766666553 333222 2


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      .-..+++..++.++..+.+.+.+
T Consensus       169 RCq~f~Fk~Ls~eeIv~~L~~Il  191 (830)
T PRK07003        169 RCLQFNLKQMPAGHIVSHLERIL  191 (830)
T ss_pred             heEEEecCCcCHHHHHHHHHHHH
Confidence            22469999999999988887653

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.59  E-value=4.5e-07  Score=76.01  Aligned_cols=117  Identities=11%  Similarity=0.108  Sum_probs=80.9

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-----c----------------e--
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-----V----------------N--   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-----~----------------~--   75 (162)
                      -.+++|.+.   .+.+++....      -...+.++|++|+||||+|+.+++...     .                .  
T Consensus        13 ~~dvvGq~~v~~~L~~~i~~~~------l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~i~~~~h~d   86 (504)
T PRK14963         13 FDEVVGQEHVKEVLLAALRQGR------LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLAVRRGAHPD   86 (504)
T ss_pred             HHHhcChHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHHHhcCCCCc
Confidence            467899888   3333333332      345678999999999999988764431     0                0  


Q ss_pred             -------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEec-CChhhHhhh-CC
Q 039127           76 -------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTT-RNQGVASIM-GT  122 (162)
Q Consensus        76 -------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTT-R~~~v~~~~-~~  122 (162)
                                                     -++|+|+++..+...+..|...+........+|++| ....+...+ ..
T Consensus        87 v~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SR  166 (504)
T PRK14963         87 VLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSR  166 (504)
T ss_pred             eEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcc
Confidence                                           589999999777788888888887655555555554 334443323 22


Q ss_pred             CCeeeCCCCCHHHHHHHHhhCC
Q 039127          123 MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       123 ~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ...+++.+++.++....+.+.+
T Consensus       167 c~~~~f~~ls~~el~~~L~~i~  188 (504)
T PRK14963        167 TQHFRFRRLTEEEIAGKLRRLL  188 (504)
T ss_pred             eEEEEecCCCHHHHHHHHHHHH
Confidence            3479999999999999887754

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=7.1e-07  Score=75.31  Aligned_cols=116  Identities=13%  Similarity=0.091  Sum_probs=81.5

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------------------------   73 (162)
                      .-.+++|.+.   .+.+.+....      -...+.++|+.|+||||+|+.+++...                        
T Consensus        14 ~f~diiGq~~~v~~L~~~i~~~r------l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~   87 (546)
T PRK14957         14 SFAEVAGQQHALNSLVHALETQK------VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSF   87 (546)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCC
Confidence            3468899999   4555554433      345677999999999999998865221                        


Q ss_pred             ---------ce----------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEE-EecCChhhHhh-h
Q 039127           74 ---------VN----------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVI-VTTRNQGVASI-M  120 (162)
Q Consensus        74 ---------~~----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-iTTR~~~v~~~-~  120 (162)
                               ..                      -++|+|+++..+...++.|+..+........+| +||....+... .
T Consensus        88 ~dlieidaas~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~  167 (546)
T PRK14957         88 IDLIEIDAASRTGVEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTIL  167 (546)
T ss_pred             CceEEeecccccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHH
Confidence                     00                      589999999888888999998888655555555 56554444422 2


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhh
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                      .....+++.+++.++....+.+
T Consensus       168 SRc~~~~f~~Ls~~eI~~~L~~  189 (546)
T PRK14957        168 SRCIQLHLKHISQADIKDQLKI  189 (546)
T ss_pred             HheeeEEeCCCCHHHHHHHHHH
Confidence            3334799999999987766665

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.57  E-value=6.9e-07  Score=79.28  Aligned_cols=117  Identities=15%  Similarity=0.134  Sum_probs=76.5

Q ss_pred             CCCceeeehHHHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-ce------------------------
Q 039127           21 SVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-VN------------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-~~------------------------   75 (162)
                      ..+.++-|.. +.+.|-..      ...+++.|.|++|.||||++..+..... ..                        
T Consensus        12 ~~~~~~~R~r-l~~~l~~~------~~~~~~~v~apaG~GKTtl~~~~~~~~~~~~w~~l~~~d~~~~~f~~~l~~~l~~   84 (903)
T PRK04841         12 RLHNTVVRER-LLAKLSGA------NNYRLVLVTSPAGYGKTTLISQWAAGKNNLGWYSLDESDNQPERFASYLIAALQQ   84 (903)
T ss_pred             CccccCcchH-HHHHHhcc------cCCCeEEEECCCCCCHHHHHHHHHHhCCCeEEEecCcccCCHHHHHHHHHHHHHH
Confidence            3467777777 55555432      2577899999999999999999865432 11                        


Q ss_pred             --------------------------------------EEEEEeCCCCCChhhHH-HHHhhccccCCCcEEEEecCChhh
Q 039127           76 --------------------------------------FNFALDDTWKEKYVDWT-NMRDLFAAVASRSKVIVTTRNQGV  116 (162)
Q Consensus        76 --------------------------------------~LlVlDdv~~~~~~~~~-~l~~~l~~~~~gs~iiiTTR~~~v  116 (162)
                                                            .+|||||++..+..... .+...+.....+.++|+|||...-
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~  164 (903)
T PRK04841         85 ATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPP  164 (903)
T ss_pred             hcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCC
Confidence                                                  89999999854333333 333333334556688899998421


Q ss_pred             H---hhhCCCCeeeCC----CCCHHHHHHHHhhCC
Q 039127          117 A---SIMGTMPAYELK----KLVNDNCLLIFSQHP  144 (162)
Q Consensus       117 ~---~~~~~~~~~~l~----~L~~~~~~~lf~~~a  144 (162)
                      .   ..........+.    +|+.+|+..+|....
T Consensus       165 ~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~  199 (903)
T PRK04841        165 LGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRL  199 (903)
T ss_pred             CchHhHHhcCcceecCHHhCCCCHHHHHHHHHhcc
Confidence            1   111122345566    899999999997653

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.54  E-value=9.5e-07  Score=75.62  Aligned_cols=117  Identities=12%  Similarity=0.137  Sum_probs=82.5

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      -.+++|.+.   .+.+++..+.      -...+.++|..|+||||+|+.+.+...-                        
T Consensus        14 FddVIGQe~vv~~L~~aI~~gr------l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~~I~~g~hp   87 (702)
T PRK14960         14 FNELVGQNHVSRALSSALERGR------LHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCKAVNEGRFI   87 (702)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHHHHhcCCCC
Confidence            478999998   4555554433      3467889999999999999887543210                        


Q ss_pred             -----------e--------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhH-hhhC
Q 039127           75 -----------N--------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVA-SIMG  121 (162)
Q Consensus        75 -----------~--------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~-~~~~  121 (162)
                                 .                    -++|+|+++..+...+..|+..+.....+..+|++|.+ ..+. ....
T Consensus        88 DviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlS  167 (702)
T PRK14960         88 DLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVIS  167 (702)
T ss_pred             ceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHH
Confidence                       0                    48999999987888888888888765556666666654 3332 2223


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ....+++.+++.++....+.+.+
T Consensus       168 RCq~feFkpLs~eEI~k~L~~Il  190 (702)
T PRK14960        168 RCLQFTLRPLAVDEITKHLGAIL  190 (702)
T ss_pred             hhheeeccCCCHHHHHHHHHHHH
Confidence            33479999999999887776543

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.54  E-value=1.2e-06  Score=69.32  Aligned_cols=115  Identities=14%  Similarity=0.105  Sum_probs=83.7

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC------Cc----------e--------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK------TV----------N--------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~------~~----------~--------   75 (162)
                      .+++|.+.   .+.+++-.+.      -...+.++|+.|+|||++|+.+++..      ..          .        
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~~------~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~   77 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKNR------FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD   77 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcCC------CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH
Confidence            46778777   5555554433      35677899999999999998887631      00          0        


Q ss_pred             -----------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh-hHhh-hCCCCeeeCCCCCHHHH
Q 039127           76 -----------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG-VASI-MGTMPAYELKKLVNDNC  136 (162)
Q Consensus        76 -----------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~~~-~~~~~~~~l~~L~~~~~  136 (162)
                                       -++|+|+++..+...++.|+..+.....++.+|++|.+.+ +... ......+++.+++.++.
T Consensus        78 ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~  157 (313)
T PRK05564         78 IRNIIEEVNKKPYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEI  157 (313)
T ss_pred             HHHHHHHHhcCcccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHH
Confidence                             5888999887788899999999998777888888876543 2222 22234789999999998


Q ss_pred             HHHHhhC
Q 039127          137 LLIFSQH  143 (162)
Q Consensus       137 ~~lf~~~  143 (162)
                      ...+.+.
T Consensus       158 ~~~l~~~  164 (313)
T PRK05564        158 EKFISYK  164 (313)
T ss_pred             HHHHHHH
Confidence            8777654

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.52  E-value=1.7e-06  Score=68.15  Aligned_cols=115  Identities=12%  Similarity=0.103  Sum_probs=72.9

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ...+++|.+.   .+..++....      -...+.++|.+|+|||++|+.+++.....                      
T Consensus        19 ~~~~~~~~~~~~~~l~~~~~~~~------~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~~~~~~i~~~l~~~~   92 (316)
T PHA02544         19 TIDECILPAADKETFKSIVKKGR------IPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSDCRIDFVRNRLTRFA   92 (316)
T ss_pred             cHHHhcCcHHHHHHHHHHHhcCC------CCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCcccHHHHHHHHHHHH
Confidence            4478899988   4544444322      34577779999999999999987643210                      


Q ss_pred             ---------EEEEEeCCCCC-ChhhHHHHHhhccccCCCcEEEEecCChh-hHh-hhCCCCeeeCCCCCHHHHHHHHh
Q 039127           76 ---------FNFALDDTWKE-KYVDWTNMRDLFAAVASRSKVIVTTRNQG-VAS-IMGTMPAYELKKLVNDNCLLIFS  141 (162)
Q Consensus        76 ---------~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~~-~~~~~~~~~l~~L~~~~~~~lf~  141 (162)
                               -++|+|+++.. .......+...+.....++++|+||.... +.. .......+.+...+.++...++.
T Consensus        93 ~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~il~  170 (316)
T PHA02544         93 STVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMK  170 (316)
T ss_pred             HhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHHHHH
Confidence                     47999999855 33444555555555556778888886532 111 11222357777777777665543

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.51  E-value=1.1e-06  Score=73.00  Aligned_cols=118  Identities=9%  Similarity=0.015  Sum_probs=81.7

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc-----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV-----------------------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-----------------------   74 (162)
                      .-.+++|.+.   .+..++....      -...+.++|..|+||||+|+.+++...-                       
T Consensus        16 ~f~dvVGQe~iv~~L~~~i~~~r------i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~   89 (484)
T PRK14956         16 FFRDVIHQDLAIGALQNALKSGK------IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCLEITKGIS   89 (484)
T ss_pred             CHHHHhChHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHHHHHccCC
Confidence            3468899988   4444444433      2346789999999999999988643210                       


Q ss_pred             -e-------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEE-EEecCChhhHhhh-
Q 039127           75 -N-------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKV-IVTTRNQGVASIM-  120 (162)
Q Consensus        75 -~-------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i-iiTTR~~~v~~~~-  120 (162)
                       .                               -++|+|+++..+...++.|+..+........+ +.||....+...+ 
T Consensus        90 ~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~  169 (484)
T PRK14956         90 SDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETIL  169 (484)
T ss_pred             ccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHH
Confidence             0                               48999999988888999998888654444444 4555555554333 


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ..-..|.+.+++.++....+.+.+
T Consensus       170 SRCq~~~f~~ls~~~i~~~L~~i~  193 (484)
T PRK14956        170 SRCQDFIFKKVPLSVLQDYSEKLC  193 (484)
T ss_pred             hhhheeeecCCCHHHHHHHHHHHH
Confidence            333469999999988887777653

>PRK04195 replication factor C large subunit; Provisional

Probab=98.51  E-value=8.5e-07  Score=74.09  Aligned_cols=119  Identities=16%  Similarity=0.105  Sum_probs=76.8

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ...+++|++.   .+.+|+..-.   .+...+.+.|+|++|+||||+|+.+++.....                      
T Consensus        12 ~l~dlvg~~~~~~~l~~~l~~~~---~g~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~~~~i~~~i~~~   88 (482)
T PRK04195         12 TLSDVVGNEKAKEQLREWIESWL---KGKPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIERVAGEA   88 (482)
T ss_pred             CHHHhcCCHHHHHHHHHHHHHHh---cCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccccHHHHHHHHHHh
Confidence            4468999988   5555554322   11225688899999999999999998765422                      


Q ss_pred             -----------EEEEEeCCCCCCh----hhHHHHHhhccccCCCcEEEEecCCh-hhH--hhhCCCCeeeCCCCCHHHHH
Q 039127           76 -----------FNFALDDTWKEKY----VDWTNMRDLFAAVASRSKVIVTTRNQ-GVA--SIMGTMPAYELKKLVNDNCL  137 (162)
Q Consensus        76 -----------~LlVlDdv~~~~~----~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~--~~~~~~~~~~l~~L~~~~~~  137 (162)
                                 -++|+|++++...    ..+..+...+.. . ...+|+++.+. ...  ........+++.+++.++..
T Consensus        89 ~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~-~-~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~~i~  166 (482)
T PRK04195         89 ATSGSLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK-A-KQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIV  166 (482)
T ss_pred             hccCcccCCCCeEEEEecCcccccccchhHHHHHHHHHHc-C-CCCEEEeccCccccchhhHhccceEEEecCCCHHHHH
Confidence                       4899999985432    345666666552 2 33455555432 221  11222346889999999988


Q ss_pred             HHHhhCC
Q 039127          138 LIFSQHP  144 (162)
Q Consensus       138 ~lf~~~a  144 (162)
                      ..+.+.+
T Consensus       167 ~~L~~i~  173 (482)
T PRK04195        167 PVLKRIC  173 (482)
T ss_pred             HHHHHHH
Confidence            8877654

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.50  E-value=1.6e-06  Score=76.39  Aligned_cols=116  Identities=13%  Similarity=0.159  Sum_probs=82.4

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      -.+++|.+.   .+.+++..+.      -...+.++|..|+||||+|+.+++...-                        
T Consensus        15 FddIIGQe~Iv~~LknaI~~~r------l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~   88 (944)
T PRK14949         15 FEQMVGQSHVLHALTNALTQQR------LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFV   88 (944)
T ss_pred             HHHhcCcHHHHHHHHHHHHhCC------CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCc
Confidence            468999999   4555554433      2456689999999999999888643210                        


Q ss_pred             -----------e--------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHhh-hC
Q 039127           75 -----------N--------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVASI-MG  121 (162)
Q Consensus        75 -----------~--------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~~-~~  121 (162)
                                 +                    -++|+|+++..+...++.|+..+..-....++|+ ||....+... ..
T Consensus        89 DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlS  168 (944)
T PRK14949         89 DLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLS  168 (944)
T ss_pred             eEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHH
Confidence                       0                    4899999998888999999888876555555555 4444544432 22


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ....|++.+|+.++....+.+.
T Consensus       169 RCq~f~fkpLs~eEI~~~L~~i  190 (944)
T PRK14949        169 RCLQFNLKSLTQDEIGTQLNHI  190 (944)
T ss_pred             hheEEeCCCCCHHHHHHHHHHH
Confidence            2347999999999998888764

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.44  E-value=1.6e-06  Score=70.00  Aligned_cols=100  Identities=16%  Similarity=0.078  Sum_probs=64.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC--------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE--------   86 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~--------   86 (162)
                      .+-+.++|++|+|||++|+.+++.....                                 .+|++|+++..        
T Consensus       156 p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~  235 (364)
T TIGR01242       156 PKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSG  235 (364)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCC
Confidence            4558899999999999999998765433                                 58999998732        


Q ss_pred             ---ChhhHHHHHhhc---cc--cCCCcEEEEecCChhhH-hh-hC---CCCeeeCCCCCHHHHHHHHhhCCCCC
Q 039127           87 ---KYVDWTNMRDLF---AA--VASRSKVIVTTRNQGVA-SI-MG---TMPAYELKKLVNDNCLLIFSQHPSGT  147 (162)
Q Consensus        87 ---~~~~~~~l~~~l---~~--~~~gs~iiiTTR~~~v~-~~-~~---~~~~~~l~~L~~~~~~~lf~~~af~~  147 (162)
                         +...+..+...+   ..  ...+..||.||...... .. ..   -...+++...+.++..++|+.++.+.
T Consensus       236 ~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~  309 (364)
T TIGR01242       236 TSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKM  309 (364)
T ss_pred             CCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcC
Confidence               111222232222   21  12355777787754322 11 11   13468899999999999998876443

Many proteins may score above the trusted cutoff because an internal

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.43  E-value=1.4e-06  Score=74.56  Aligned_cols=116  Identities=13%  Similarity=0.150  Sum_probs=81.4

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      -.+++|.+.   .+.+.+..+.      -...+.++|..|+||||+|+.+.+...-                        
T Consensus        15 FddVIGQe~vv~~L~~al~~gR------LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~C~sC~~I~   88 (700)
T PRK12323         15 FTTLVGQEHVVRALTHALEQQR------LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQCRACTEID   88 (700)
T ss_pred             HHHHcCcHHHHHHHHHHHHhCC------CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcccHHHHHHH
Confidence            478999999   4555554443      3456789999999999999887532210                        


Q ss_pred             -----e-------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcE-EEEecCChhhH
Q 039127           75 -----N-------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSK-VIVTTRNQGVA  117 (162)
Q Consensus        75 -----~-------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~-iiiTTR~~~v~  117 (162)
                           .                               -++|+|+++..+...++.|+..+..-..... |++||....+.
T Consensus        89 aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLl  168 (700)
T PRK12323         89 AGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIP  168 (700)
T ss_pred             cCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhh
Confidence                 0                               4899999998888899999888876444554 55566555554


Q ss_pred             hhhC-CCCeeeCCCCCHHHHHHHHhhC
Q 039127          118 SIMG-TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       118 ~~~~-~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ..+- .-..+.+..++.++....+.+.
T Consensus       169 pTIrSRCq~f~f~~ls~eei~~~L~~I  195 (700)
T PRK12323        169 VTVLSRCLQFNLKQMPPGHIVSHLDAI  195 (700)
T ss_pred             hHHHHHHHhcccCCCChHHHHHHHHHH
Confidence            3322 2236889999999988877654

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=3.3e-06  Score=72.24  Aligned_cols=116  Identities=16%  Similarity=0.206  Sum_probs=80.5

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC---------c---------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT---------V---------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~---------~---------------   74 (162)
                      -.+++|.+.   .+.+++....      -...+.++|..|+||||+|+.+.+...         .               
T Consensus        15 f~dviGQe~vv~~L~~~l~~~r------l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~C~~C~~i~   88 (618)
T PRK14951         15 FSEMVGQEHVVQALTNALTQQR------LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGVCQACRDID   88 (618)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCccHHHHHHH
Confidence            478899777   4444444433      346778999999999999988832210         0               


Q ss_pred             -----e-------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEE-EecCChhhH
Q 039127           75 -----N-------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVI-VTTRNQGVA  117 (162)
Q Consensus        75 -----~-------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-iTTR~~~v~  117 (162)
                           .                               -++|+|+++..+...++.|+..+..-.....+| +||..+.+.
T Consensus        89 ~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil  168 (618)
T PRK14951         89 SGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVP  168 (618)
T ss_pred             cCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhh
Confidence                 0                               489999999888889999988887655555555 455444443


Q ss_pred             h-hhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          118 S-IMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       118 ~-~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      . .......+++.+++.++....+.+.
T Consensus       169 ~TIlSRc~~~~f~~Ls~eei~~~L~~i  195 (618)
T PRK14951        169 VTVLSRCLQFNLRPMAPETVLEHLTQV  195 (618)
T ss_pred             HHHHHhceeeecCCCCHHHHHHHHHHH
Confidence            2 2333347999999999988777654

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.40  E-value=3.2e-06  Score=71.89  Aligned_cols=117  Identities=19%  Similarity=0.204  Sum_probs=80.4

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc-----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV-----------------------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-----------------------   74 (162)
                      .-.+++|++.   .+.+.+..+.      -...+.++|+.|+||||+|+.+.+...-                       
T Consensus        14 ~F~dIIGQe~iv~~L~~aI~~~r------l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr~i~~~~h   87 (605)
T PRK05896         14 NFKQIIGQELIKKILVNAILNNK------LTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQS   87 (605)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC------CCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHHcCCC
Confidence            4578999998   4444443333      3467889999999999999887543210                       


Q ss_pred             ------------e--------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHh-hh
Q 039127           75 ------------N--------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVAS-IM  120 (162)
Q Consensus        75 ------------~--------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~-~~  120 (162)
                                  .                    -++|+|+++..+...+..|...+........+|+ |+....+.. ..
T Consensus        88 ~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~  167 (605)
T PRK05896         88 VDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTII  167 (605)
T ss_pred             CceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHH
Confidence                        0                    4799999997777888888888876555555554 444444432 23


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .....+++.+++.++....+...
T Consensus       168 SRcq~ieF~~Ls~~eL~~~L~~i  190 (605)
T PRK05896        168 SRCQRYNFKKLNNSELQELLKSI  190 (605)
T ss_pred             hhhhhcccCCCCHHHHHHHHHHH
Confidence            33346899999999988777654

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.39  E-value=3.2e-06  Score=72.59  Aligned_cols=117  Identities=14%  Similarity=0.113  Sum_probs=81.3

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc-----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV-----------------------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-----------------------   74 (162)
                      .-.+++|.+.   .+.+.+..+.      -...+.++|..|+||||+|+.+.+...-                       
T Consensus        14 ~f~divGQe~vv~~L~~~l~~~r------l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~~i~~g~~   87 (647)
T PRK07994         14 TFAEVVGQEHVLTALANALDLGR------LHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCREIEQGRF   87 (647)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHHHHHcCCC
Confidence            3478999988   3444443332      2355789999999999999887543210                       


Q ss_pred             ------------e--------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEE-EEecCChhhHhh-h
Q 039127           75 ------------N--------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKV-IVTTRNQGVASI-M  120 (162)
Q Consensus        75 ------------~--------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i-iiTTR~~~v~~~-~  120 (162)
                                  .                    -++|+|+++..+...++.|+..+..-....++ ++||....+... .
T Consensus        88 ~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~  167 (647)
T PRK07994         88 VDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTIL  167 (647)
T ss_pred             CCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHH
Confidence                        0                    48999999988888999998888765555544 455555555432 2


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .....|++.+|+.++....+.+.
T Consensus       168 SRC~~~~f~~Ls~~ei~~~L~~i  190 (647)
T PRK07994        168 SRCLQFHLKALDVEQIRQQLEHI  190 (647)
T ss_pred             hhheEeeCCCCCHHHHHHHHHHH
Confidence            23347999999999998887754

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.39  E-value=2.6e-06  Score=73.40  Aligned_cols=116  Identities=14%  Similarity=0.149  Sum_probs=77.9

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC----c--------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT----V--------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~----~--------------------   74 (162)
                      -.+++|.+.   .+.+++....      -...+.++|..|+||||+|+.+.+...    .                    
T Consensus        15 FddIIGQe~vv~~L~~ai~~~r------l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~   88 (709)
T PRK08691         15 FADLVGQEHVVKALQNALDEGR------LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYV   88 (709)
T ss_pred             HHHHcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCcc
Confidence            478999999   4555554433      345778999999999999988755310    0                    


Q ss_pred             ---------e----------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHhh-hC
Q 039127           75 ---------N----------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVASI-MG  121 (162)
Q Consensus        75 ---------~----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~-~~  121 (162)
                               .                      -++|+|+++..+...+..|+..+.......++|++|.+ ..+... .+
T Consensus        89 DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrS  168 (709)
T PRK08691         89 DLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLS  168 (709)
T ss_pred             ceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHH
Confidence                     0                      48999999977777788888888754445556655543 333222 22


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ....+++.+++.++....+.+.
T Consensus       169 RC~~f~f~~Ls~eeI~~~L~~I  190 (709)
T PRK08691        169 RCLQFVLRNMTAQQVADHLAHV  190 (709)
T ss_pred             HHhhhhcCCCCHHHHHHHHHHH
Confidence            2235788899998887777654

>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=98.39  E-value=1.8e-06  Score=58.93  Aligned_cols=25  Identities=28%  Similarity=0.230  Sum_probs=22.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      |.|+|.+|+|||++|+.+++.....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~   25 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFP   25 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSE
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccc
Confidence            5689999999999999999887654

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 ....

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.37  E-value=5.2e-06  Score=66.35  Aligned_cols=117  Identities=10%  Similarity=0.135  Sum_probs=78.1

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------------------------   73 (162)
                      .-.+++|.+.   .+.+++....      -...+.++|.+|+|||++|+.+.....                        
T Consensus        12 ~~~~iig~~~~~~~l~~~~~~~~------~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~   85 (355)
T TIGR02397        12 TFEDVIGQEHIVQTLKNAIKNGR------IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSS   85 (355)
T ss_pred             cHhhccCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            3467899988   4555444333      345778999999999999977753310                        


Q ss_pred             -----------ce--------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh-hHh-hh
Q 039127           74 -----------VN--------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG-VAS-IM  120 (162)
Q Consensus        74 -----------~~--------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~~-~~  120 (162)
                                 ..                    -++|+|+++..+...+..+...+........+|++|.+.. +.. ..
T Consensus        86 ~~~~~~~~~~~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~  165 (355)
T TIGR02397        86 LDVIEIDAASNNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATIL  165 (355)
T ss_pred             CCEEEeeccccCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHH
Confidence                       00                    4889999986666777888888765555666666664433 222 22


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .....+++.+++.++....+...
T Consensus       166 sr~~~~~~~~~~~~~l~~~l~~~  188 (355)
T TIGR02397       166 SRCQRFDFKRIPLEDIVERLKKI  188 (355)
T ss_pred             hheeEEEcCCCCHHHHHHHHHHH
Confidence            23346889999999888777754

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

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=3.1e-06  Score=70.63  Aligned_cols=119  Identities=17%  Similarity=0.172  Sum_probs=81.5

Q ss_pred             CCCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC------C------------------c
Q 039127           21 SVKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK------T------------------V   74 (162)
Q Consensus        21 ~~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~------~------------------~   74 (162)
                      .-.+++|.+.  +.+...+..+     .-...+.++|..|+||||+|+.+....      .                  .
T Consensus        11 ~f~dliGQe~vv~~L~~a~~~~-----ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~   85 (491)
T PRK14964         11 SFKDLVGQDVLVRILRNAFTLN-----KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHP   85 (491)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcC-----CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCC
Confidence            3478899888  3333333322     123478899999999999998886521      0                  0


Q ss_pred             e-------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHhhh-C
Q 039127           75 N-------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVASIM-G  121 (162)
Q Consensus        75 ~-------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~~~-~  121 (162)
                      .                               -++|+|+++..+...++.|...+..-.+...+|+ ||..+.+...+ .
T Consensus        86 Dv~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~S  165 (491)
T PRK14964         86 DVIEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIIS  165 (491)
T ss_pred             CEEEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHH
Confidence            0                               4899999998778888899888887666665555 44444544332 3


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ....+++.+++.++....+.+.+
T Consensus       166 Rc~~~~f~~l~~~el~~~L~~ia  188 (491)
T PRK14964        166 RCQRFDLQKIPTDKLVEHLVDIA  188 (491)
T ss_pred             hheeeecccccHHHHHHHHHHHH
Confidence            33478999999998888777654

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.35  E-value=1e-05  Score=59.16  Aligned_cols=96  Identities=10%  Similarity=0.079  Sum_probs=69.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc--------------------------------------e--------------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV--------------------------------------N--------------   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~--------------------------------------~--------------   75 (162)
                      ...+.++|..|+|||++|+.+.....-                                      .              
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~~~~~~~~i~~i~~~~~~~~~   93 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEGQSIKVDQVRELVEFLSRTPQ   93 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccccCcCCHHHHHHHHHHHccCcc
Confidence            367889999999999999777543210                                      0              


Q ss_pred             ----EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHhh-hCCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 ----FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVASI-MGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ----~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                          -++|+|+++..+...++.|...+....+.+.+|++|++. .+... ......+++.+++.++....+.+.
T Consensus        94 ~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~  167 (188)
T TIGR00678        94 ESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ  167 (188)
T ss_pred             cCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc
Confidence                589999999777778888888887655566676666543 22222 223347999999999999888876

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

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.35  E-value=4e-06  Score=70.46  Aligned_cols=114  Identities=12%  Similarity=0.084  Sum_probs=78.4

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      -.+++|.+.   .+.+++....      -...+.++|..|+||||+|+.+.+...-                        
T Consensus        15 f~divGq~~v~~~L~~~~~~~~------l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~   88 (509)
T PRK14958         15 FQEVIGQAPVVRALSNALDQQY------LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFP   88 (509)
T ss_pred             HHHhcCCHHHHHHHHHHHHhCC------CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCc
Confidence            478999998   5555554443      2446789999999999999887653210                        


Q ss_pred             ---------e----------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHhhh-C
Q 039127           75 ---------N----------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVASIM-G  121 (162)
Q Consensus        75 ---------~----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~~~-~  121 (162)
                               +                      -++|+|+++..+...++.|+..+.......++|+ ||....+...+ .
T Consensus        89 d~~eidaas~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~S  168 (509)
T PRK14958         89 DLFEVDAASRTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLS  168 (509)
T ss_pred             eEEEEcccccCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHH
Confidence                     0                      4899999998888888888888876655665555 44444433222 2


Q ss_pred             CCCeeeCCCCCHHHHHHHHh
Q 039127          122 TMPAYELKKLVNDNCLLIFS  141 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~  141 (162)
                      ....+++.+++.++....+.
T Consensus       169 Rc~~~~f~~l~~~~i~~~l~  188 (509)
T PRK14958        169 RCLQFHLAQLPPLQIAAHCQ  188 (509)
T ss_pred             HhhhhhcCCCCHHHHHHHHH
Confidence            23368899999887665544

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.33  E-value=1.2e-05  Score=65.04  Aligned_cols=69  Identities=7%  Similarity=0.081  Sum_probs=51.6

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHhhh-CCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVASIM-GTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      -++|+|+++..+......|...+..-..++.+|++|.+. .+...+ ..-..+.+.+++.++..+++....
T Consensus       143 kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~  213 (365)
T PRK07471        143 RVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAG  213 (365)
T ss_pred             EEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhc
Confidence            588999999888888888888887655566666666654 333333 223479999999999999998753

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.32  E-value=3.2e-06  Score=65.15  Aligned_cols=98  Identities=9%  Similarity=0.017  Sum_probs=60.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC-------ce------------------------------EEEEEeCCCCCC--
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT-------VN------------------------------FNFALDDTWKEK--   87 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~-------~~------------------------------~LlVlDdv~~~~--   87 (162)
                      ...-+.++|.+|+||||+|+.+++...       ..                              -+|++|+++...  
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~~l~~~~~g~~~~~~~~~~~~a~~~VL~IDE~~~L~~~  120 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERADLVGEYIGHTAQKTREVIKKALGGVLFIDEAYSLARG  120 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHHHhhhhhccchHHHHHHHHHhccCCEEEEechhhhccC
Confidence            455677999999999999998864310       00                              588999997321  


Q ss_pred             ------hhhHHHHHhhccccCCCcEEEEecCChhhHh-------hhCC-CCeeeCCCCCHHHHHHHHhhCC
Q 039127           88 ------YVDWTNMRDLFAAVASRSKVIVTTRNQGVAS-------IMGT-MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        88 ------~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~-------~~~~-~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                            .+..+.+...+......-.+++++.......       .... ...+++++++.++-.+++.+.+
T Consensus       121 ~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~  191 (261)
T TIGR02881       121 GEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMV  191 (261)
T ss_pred             CccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHH
Confidence                  2344455555544333334555554433211       1111 2358899999999999988664

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

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.32  E-value=2.6e-06  Score=69.67  Aligned_cols=97  Identities=14%  Similarity=0.075  Sum_probs=62.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC-----ce--------------------------------EEEEEeCCCCCChh-
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT-----VN--------------------------------FNFALDDTWKEKYV-   89 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~-----~~--------------------------------~LlVlDdv~~~~~~-   89 (162)
                      ...+.|+|..|+|||+|++.+++...     ..                                -+|+|||++..... 
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~  215 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAGKE  215 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhcCCH
Confidence            34678999999999999999876431     11                                28999999742211 


Q ss_pred             -hHHHHHhhccc-cCCCcEEEEecCCh-h--------hHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           90 -DWTNMRDLFAA-VASRSKVIVTTRNQ-G--------VASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        90 -~~~~l~~~l~~-~~~gs~iiiTTR~~-~--------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                       ..+.+...+.. ...+..+|+||... .        +.+.+.....+++.+.+.++-..++.+.+
T Consensus       216 ~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~  281 (405)
T TIGR00362       216 RTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKA  281 (405)
T ss_pred             HHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHH
Confidence             12334443332 13355688877642 1        12222233468999999999999998775

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).

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.32  E-value=1.9e-06  Score=71.35  Aligned_cols=97  Identities=13%  Similarity=0.081  Sum_probs=63.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc---e--------------------------------EEEEEeCCCCCChh--h
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV---N--------------------------------FNFALDDTWKEKYV--D   90 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~---~--------------------------------~LlVlDdv~~~~~~--~   90 (162)
                      ..-+.|+|..|+|||+|++.+.+....   +                                -+|++||+......  .
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~~~  220 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKGAT  220 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcCChhh
Confidence            456789999999999999998875321   1                                38999998743221  2


Q ss_pred             HHHHHhhccc-cCCCcEEEEecCCh---------hhHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           91 WTNMRDLFAA-VASRSKVIVTTRNQ---------GVASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        91 ~~~l~~~l~~-~~~gs~iiiTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      .+.+...+.. ...|..||+||...         .+.+.+...-.+.+.+++.++...++.+.+
T Consensus       221 qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~  284 (445)
T PRK12422        221 QEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKA  284 (445)
T ss_pred             HHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHH
Confidence            2334433322 12356788888552         122233334578999999999999998765

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.31  E-value=9e-06  Score=65.39  Aligned_cols=117  Identities=14%  Similarity=0.097  Sum_probs=79.9

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc-----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV-----------------------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-----------------------   74 (162)
                      ....++|.+.   .+...+....      -...+.++|..|+||||+|..+.+..--                       
T Consensus        21 ~~~~l~Gh~~a~~~L~~a~~~gr------l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~~~c~~c~~   94 (351)
T PRK09112         21 ENTRLFGHEEAEAFLAQAYREGK------LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPDPASPVWRQ   94 (351)
T ss_pred             chhhccCcHHHHHHHHHHHHcCC------CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCCCCCHHHHH
Confidence            4478899998   4444443333      3457889999999999999755322100                       


Q ss_pred             ------------------------e-----------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcE-
Q 039127           75 ------------------------N-----------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSK-  106 (162)
Q Consensus        75 ------------------------~-----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~-  106 (162)
                                              +                       -++|+|+++..+....+.|+..+..-..... 
T Consensus        95 i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~f  174 (351)
T PRK09112         95 IAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALF  174 (351)
T ss_pred             HHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceE
Confidence                                    0                       5889999998888888888888876444444 


Q ss_pred             EEEecCChhhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          107 VIVTTRNQGVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       107 iiiTTR~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      |++|++...+...+ ..-..+++.+++.++...++...
T Consensus       175 iLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~  212 (351)
T PRK09112        175 ILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHL  212 (351)
T ss_pred             EEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHh
Confidence            45555544443322 22347999999999999999874

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.31  E-value=5.9e-06  Score=72.91  Aligned_cols=117  Identities=13%  Similarity=0.093  Sum_probs=81.5

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC---c--------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT---V--------------------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~---~--------------------   74 (162)
                      .-.+++|.+.   .|.+.+..+.      -...+.++|..|+||||+|+.+.+...   .                    
T Consensus        13 ~f~eiiGqe~v~~~L~~~i~~~r------i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~   86 (824)
T PRK07764         13 TFAEVIGQEHVTEPLSTALDSGR------INHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGP   86 (824)
T ss_pred             CHHHhcCcHHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCC
Confidence            3468899888   4555554433      235678999999999999988744331   0                    


Q ss_pred             -e---------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHhh
Q 039127           75 -N---------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVASI  119 (162)
Q Consensus        75 -~---------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~~  119 (162)
                       .                                 -++|||+++..+...++.|+..+..-...+.+|+ |+....+...
T Consensus        87 ~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~T  166 (824)
T PRK07764         87 GSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGT  166 (824)
T ss_pred             CCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHH
Confidence             0                                 4889999998888999999999887655665554 5444445433


Q ss_pred             h-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          120 M-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       120 ~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      + .....|++..++.++....+.+.
T Consensus       167 IrSRc~~v~F~~l~~~~l~~~L~~i  191 (824)
T PRK07764        167 IRSRTHHYPFRLVPPEVMRGYLERI  191 (824)
T ss_pred             HHhheeEEEeeCCCHHHHHHHHHHH
Confidence            3 33347899999988887766653

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.31  E-value=8.8e-06  Score=69.35  Aligned_cols=117  Identities=13%  Similarity=0.116  Sum_probs=81.6

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------------------------   73 (162)
                      .-.+++|.+.   .+.+++..+.      -...+.++|..|+||||+|+.+.+...                        
T Consensus        11 ~f~eivGq~~i~~~L~~~i~~~r------~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~~~~   84 (584)
T PRK14952         11 TFAEVVGQEHVTEPLSSALDAGR------INHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCVALAPNGP   84 (584)
T ss_pred             cHHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHHHhhcccC
Confidence            3478899888   4555544433      345678999999999999988764321                        


Q ss_pred             --ce-------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEE-EecCChhhHhh
Q 039127           74 --VN-------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVI-VTTRNQGVASI  119 (162)
Q Consensus        74 --~~-------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-iTTR~~~v~~~  119 (162)
                        ..                               -++|+|+++..+...++.|+..+..-.....+| +||..+.+...
T Consensus        85 ~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~T  164 (584)
T PRK14952         85 GSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPT  164 (584)
T ss_pred             CCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHH
Confidence              00                               489999999888889999988888655555544 45555554433


Q ss_pred             -hCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          120 -MGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       120 -~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                       ......+++.+++.++....+.+.
T Consensus       165 I~SRc~~~~F~~l~~~~i~~~L~~i  189 (584)
T PRK14952        165 IRSRTHHYPFRLLPPRTMRALIARI  189 (584)
T ss_pred             HHHhceEEEeeCCCHHHHHHHHHHH
Confidence             333457999999998877777553

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.30  E-value=3.9e-06  Score=69.58  Aligned_cols=97  Identities=13%  Similarity=0.119  Sum_probs=65.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC-----ce----------------------------------EEEEEeCCCCCC-
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT-----VN----------------------------------FNFALDDTWKEK-   87 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~-----~~----------------------------------~LlVlDdv~~~~-   87 (162)
                      ..-+.|+|..|+|||+|++.+.+...     .+                                  -+|++||+.... 
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~~  220 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFLSY  220 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccccC
Confidence            34578999999999999999977321     11                                  389999997432 


Q ss_pred             -hhhHHHHHhhccc-cCCCcEEEEecCCh---------hhHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           88 -YVDWTNMRDLFAA-VASRSKVIVTTRNQ---------GVASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        88 -~~~~~~l~~~l~~-~~~gs~iiiTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                       ....+.+...+.. ...|..||+|+...         .+.+.+...-++.+++++.++...++.+++
T Consensus       221 k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~  288 (450)
T PRK14087        221 KEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEI  288 (450)
T ss_pred             CHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHH
Confidence             2223445444443 23455788887643         223334444578899999999999998775

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=3.8e-06  Score=68.60  Aligned_cols=118  Identities=11%  Similarity=0.099  Sum_probs=77.5

Q ss_pred             CCCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-------------------------
Q 039127           21 SVKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-------------------------   73 (162)
                      .-.+++|.+.  +.+...+..+     .-...+.++|+.|+||||+|+.+.+...                         
T Consensus        14 ~~~eiiGq~~~~~~L~~~~~~~-----~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~   88 (397)
T PRK14955         14 KFADITAQEHITRTIQNSLRMG-----RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCR   88 (397)
T ss_pred             cHhhccChHHHHHHHHHHHHhC-----CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHH
Confidence            3468899888  3333333322     2345688999999999999987653220                         


Q ss_pred             ------------------c--e------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEec-CCh
Q 039127           74 ------------------V--N------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTT-RNQ  114 (162)
Q Consensus        74 ------------------~--~------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTT-R~~  114 (162)
                                        .  .                  -++|+|+++..+...++.+...+....+.+.+|++| +..
T Consensus        89 ~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~  168 (397)
T PRK14955         89 DFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELH  168 (397)
T ss_pred             HHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChH
Confidence                              0  0                  489999999777778888888887655566655544 444


Q ss_pred             hhHhhhC-CCCeeeCCCCCHHHHHHHHhhC
Q 039127          115 GVASIMG-TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       115 ~v~~~~~-~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .+...+. ....+++.+++.++....+...
T Consensus       169 kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~  198 (397)
T PRK14955        169 KIPATIASRCQRFNFKRIPLEEIQQQLQGI  198 (397)
T ss_pred             HhHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            4433221 1236888999988877666653

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

Probab=98.29  E-value=5.5e-06  Score=64.70  Aligned_cols=117  Identities=13%  Similarity=0.133  Sum_probs=81.2

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ...++.|.+.   -+.+.+.. .      ..+.+..+|++|.|||+-|..+....--.                      
T Consensus        34 t~de~~gQe~vV~~L~~a~~~-~------~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr  106 (346)
T KOG0989|consen   34 TFDELAGQEHVVQVLKNALLR-R------ILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVR  106 (346)
T ss_pred             cHHhhcchHHHHHHHHHHHhh-c------CCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchh
Confidence            4467888888   44455554 2      47788999999999999887765443221                      


Q ss_pred             ------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEE-EEecCChhhHhhhC-CCCeeeCC
Q 039127           76 ------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKV-IVTTRNQGVASIMG-TMPAYELK  129 (162)
Q Consensus        76 ------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i-iiTTR~~~v~~~~~-~~~~~~l~  129 (162)
                                              -.+|||+++....+.|..|+..+...++.++. +||+--..+...+. .-.-|...
T Consensus       107 ~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk  186 (346)
T KOG0989|consen  107 EKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFK  186 (346)
T ss_pred             hhhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCC
Confidence                                    47899999999999999999998876666654 44543332222211 11248889


Q ss_pred             CCCHHHHHHHHhhCC
Q 039127          130 KLVNDNCLLIFSQHP  144 (162)
Q Consensus       130 ~L~~~~~~~lf~~~a  144 (162)
                      +|.+++...-++..+
T Consensus       187 ~L~d~~iv~rL~~Ia  201 (346)
T KOG0989|consen  187 KLKDEDIVDRLEKIA  201 (346)
T ss_pred             CcchHHHHHHHHHHH
Confidence            999988887777665

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.29  E-value=3.1e-06  Score=70.12  Aligned_cols=97  Identities=13%  Similarity=0.054  Sum_probs=64.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC-----ce--------------------------------EEEEEeCCCCCCh--
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT-----VN--------------------------------FNFALDDTWKEKY--   88 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~-----~~--------------------------------~LlVlDdv~~~~~--   88 (162)
                      ...+.|+|..|+|||+|++.+.+...     ..                                -+|+|||++....  
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~  227 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAGKE  227 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhhcCCH
Confidence            45678999999999999999886532     11                                2899999974211  


Q ss_pred             hhHHHHHhhccc-cCCCcEEEEecCChh---------hHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           89 VDWTNMRDLFAA-VASRSKVIVTTRNQG---------VASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        89 ~~~~~l~~~l~~-~~~gs~iiiTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ...+.+...+.. ...|..+++||....         +.+.+....++++++.+.++...++.+.+
T Consensus       228 ~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~  293 (450)
T PRK00149        228 RTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKA  293 (450)
T ss_pred             HHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHH
Confidence            122334443322 123556888876531         22333344579999999999999998875

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.29  E-value=3.2e-06  Score=66.08  Aligned_cols=94  Identities=14%  Similarity=0.115  Sum_probs=59.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc-------e------------------------------EEEEEeCCCCC------
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV-------N------------------------------FNFALDDTWKE------   86 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~-------~------------------------------~LlVlDdv~~~------   86 (162)
                      -+.++|.+|.|||++|+.++.....       .                              -+|+||++...      
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~~~~~g~~~~~~~~~~~~a~~gvL~iDEi~~L~~~~~~  139 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEILKRAMGGVLFIDEAYYLYRPDNE  139 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHhHhhcccchHHHHHHHHHccCcEEEEechhhhccCCCc
Confidence            4679999999999999554332110       0                              57889998622      


Q ss_pred             ---ChhhHHHHHhhccccCCCcEEEEecCChhhHhhh--C------CCCeeeCCCCCHHHHHHHHhhC
Q 039127           87 ---KYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIM--G------TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        87 ---~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~--~------~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                         ..+.+..|...+.....+.+||.++.........  .      -...+++.+++.+|-..++.+.
T Consensus       140 ~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~  207 (284)
T TIGR02880       140 RDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLM  207 (284)
T ss_pred             cchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHH
Confidence               2333455666665444455666666543322211  1      0235899999999999998765

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

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.28  E-value=9.9e-06  Score=65.32  Aligned_cols=118  Identities=10%  Similarity=0.136  Sum_probs=77.4

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc----------e------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV----------N------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~----------~------------   75 (162)
                      .-.+++|.+.   .+.+.+..+.      -.+.+.++|..|+|||++|+.+.+....          .            
T Consensus        15 ~~~~iig~~~~~~~l~~~i~~~~------~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~   88 (367)
T PRK14970         15 TFDDVVGQSHITNTLLNAIENNH------LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNN   88 (367)
T ss_pred             cHHhcCCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCC
Confidence            4567899998   4444444332      3457889999999999999887654210          0            


Q ss_pred             ---------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEec-CChhhHh-hhCCCCeeeCCCCC
Q 039127           76 ---------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTT-RNQGVAS-IMGTMPAYELKKLV  132 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTT-R~~~v~~-~~~~~~~~~l~~L~  132 (162)
                                           -++++|+++......+..+...+........+|++| ....+.. .......+++.+++
T Consensus        89 ~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~  168 (367)
T PRK14970         89 SVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRIT  168 (367)
T ss_pred             CHHHHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCcc
Confidence                                 489999998656666777777765434445555444 4333332 22333478999999


Q ss_pred             HHHHHHHHhhCC
Q 039127          133 NDNCLLIFSQHP  144 (162)
Q Consensus       133 ~~~~~~lf~~~a  144 (162)
                      .++....+...+
T Consensus       169 ~~~l~~~l~~~~  180 (367)
T PRK14970        169 IKDIKEHLAGIA  180 (367)
T ss_pred             HHHHHHHHHHHH
Confidence            998887776543

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.28  E-value=1.1e-05  Score=65.85  Aligned_cols=120  Identities=11%  Similarity=0.073  Sum_probs=79.3

Q ss_pred             CceeeehH---HHHHHhhcCCCC---CCCCCeEEEEEEcCCCcchHHHHHHHHcc---CC--------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSE---TIDGGFFVIPIIGMGGSGNTTPALPVYND---KT--------------------   73 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~---~~~~~~~vv~I~G~gGiGKTtLa~~~~~~---~~--------------------   73 (162)
                      .+++|.+.   .+.+.+..+...   ....-...+.++|+.|+|||++|+.+.+.   ..                    
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~h   84 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTH   84 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            46788877   444444433200   00012467889999999999999887531   10                    


Q ss_pred             --c----------e--------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHhhh
Q 039127           74 --V----------N--------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVASIM  120 (162)
Q Consensus        74 --~----------~--------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~~  120 (162)
                        .          .                    -++++|+++..+......|...+....++..+|++|.+ ..+...+
T Consensus        85 pD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTI  164 (394)
T PRK07940         85 PDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTI  164 (394)
T ss_pred             CCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHH
Confidence              0          0                    47889999988888888888887765556656665555 4444332


Q ss_pred             -CCCCeeeCCCCCHHHHHHHHhh
Q 039127          121 -GTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       121 -~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                       ..-..+.+.+++.++....+..
T Consensus       165 rSRc~~i~f~~~~~~~i~~~L~~  187 (394)
T PRK07940        165 RSRCRHVALRTPSVEAVAEVLVR  187 (394)
T ss_pred             HhhCeEEECCCCCHHHHHHHHHH
Confidence             2334799999999999888864

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.27  E-value=3.1e-06  Score=67.89  Aligned_cols=45  Identities=18%  Similarity=0.064  Sum_probs=31.8

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ..++||++   ++...|...-   .+.....+.|+|++|+|||++++.+++
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~---~~~~~~~i~I~G~~GtGKT~l~~~~~~   62 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPIL---RGSRPSNVFIYGKTGTGKTAVTKYVMK   62 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHH---cCCCCCcEEEECCCCCCHHHHHHHHHH
Confidence            47999999   4555543211   112345688999999999999998874

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.

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.27  E-value=1.1e-05  Score=69.06  Aligned_cols=117  Identities=15%  Similarity=0.157  Sum_probs=81.2

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------c-----e-----------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------V-----N-----------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------~-----~-----------   75 (162)
                      .-.+++|.+.   .+.+.+..+.      -...+.++|..|+||||+|+.+.+...      .     .           
T Consensus        22 ~f~dliGq~~~v~~L~~~~~~gr------i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~c~~C~~i   95 (598)
T PRK09111         22 TFDDLIGQEAMVRTLTNAFETGR------IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGVGEHCQAI   95 (598)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC------CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcccHHHHHH
Confidence            3468999998   4444444333      345788999999999999988854221      0     0           


Q ss_pred             --------------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhh
Q 039127           76 --------------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGV  116 (162)
Q Consensus        76 --------------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v  116 (162)
                                                            -++|+|+++..+....+.|...+..-...+.+|+ |+....+
T Consensus        96 ~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kl  175 (598)
T PRK09111         96 MEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKV  175 (598)
T ss_pred             hcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhh
Confidence                                                  4899999997777888888888876555666554 5444444


Q ss_pred             Hhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          117 ASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       117 ~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ...+ .....+++..++.++....+.+.
T Consensus       176 l~tI~SRcq~~~f~~l~~~el~~~L~~i  203 (598)
T PRK09111        176 PVTVLSRCQRFDLRRIEADVLAAHLSRI  203 (598)
T ss_pred             hHHHHhheeEEEecCCCHHHHHHHHHHH
Confidence            3322 22347899999999888877764

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.25  E-value=1e-05  Score=68.34  Aligned_cols=116  Identities=16%  Similarity=0.158  Sum_probs=77.2

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      -.+++|.+.   .+.+++....      -...+.++|..|+||||+|+.+.....-                        
T Consensus        15 f~divGq~~v~~~L~~~i~~~~------~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~   88 (527)
T PRK14969         15 FSELVGQEHVVRALTNALEQQR------LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFV   88 (527)
T ss_pred             HHHhcCcHHHHHHHHHHHHcCC------CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            468899998   4444444433      2456789999999999999887533210                        


Q ss_pred             ---------e----------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHhhh-C
Q 039127           75 ---------N----------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVASIM-G  121 (162)
Q Consensus        75 ---------~----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~~~-~  121 (162)
                               .                      -++|+|+++..+...++.|...+........+|+ ||..+.+...+ .
T Consensus        89 d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~S  168 (527)
T PRK14969         89 DLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLS  168 (527)
T ss_pred             ceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHH
Confidence                     0                      4899999998888888888888876555555555 44444333211 1


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .-..+++.+++.++....+.+.
T Consensus       169 Rc~~~~f~~l~~~~i~~~L~~i  190 (527)
T PRK14969        169 RCLQFNLKQMPPPLIVSHLQHI  190 (527)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHH
Confidence            1235888889888877666543

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.25  E-value=1.1e-05  Score=68.90  Aligned_cols=118  Identities=12%  Similarity=0.112  Sum_probs=79.6

Q ss_pred             CCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc-------------------------
Q 039127           22 VKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV-------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-------------------------   74 (162)
                      -.+++|.+.  +.+.......     .-...+.++|..|+||||+|+.+.+...-                         
T Consensus        15 f~dIiGQe~v~~~L~~ai~~~-----ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~~i~~g~hpD   89 (624)
T PRK14959         15 FAEVAGQETVKAILSRAAQEN-----RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCRKVTQGMHVD   89 (624)
T ss_pred             HHHhcCCHHHHHHHHHHHHcC-----CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHHHHhcCCCCc
Confidence            467899888  4444434332     23467889999999999999887644310                         


Q ss_pred             --------e----------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEec-CChhhHhh-hCC
Q 039127           75 --------N----------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTT-RNQGVASI-MGT  122 (162)
Q Consensus        75 --------~----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTT-R~~~v~~~-~~~  122 (162)
                              .                      -++|+|+++..+...+..|...+..-.....+|++| ....+... ...
T Consensus        90 v~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SR  169 (624)
T PRK14959         90 VVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSR  169 (624)
T ss_pred             eEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhh
Confidence                    0                      488999999877888888888876544445555544 43444432 222


Q ss_pred             CCeeeCCCCCHHHHHHHHhhCC
Q 039127          123 MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       123 ~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ...+++.+++.++....+...+
T Consensus       170 cq~i~F~pLs~~eL~~~L~~il  191 (624)
T PRK14959        170 CQHFTFTRLSEAGLEAHLTKVL  191 (624)
T ss_pred             hhccccCCCCHHHHHHHHHHHH
Confidence            3468999999999888777643

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.24  E-value=3.1e-06  Score=72.09  Aligned_cols=96  Identities=9%  Similarity=0.036  Sum_probs=65.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc-----e--------------------------------EEEEEeCCCCCC-hhh
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV-----N--------------------------------FNFALDDTWKEK-YVD   90 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~-----~--------------------------------~LlVlDdv~~~~-~~~   90 (162)
                      ..+.|+|..|+|||.|++.+++....     +                                =+|+|||+.... .+.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~gke~  394 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDKES  394 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccCCHH
Confidence            34789999999999999998875321     1                                279999997432 222


Q ss_pred             H-HHHHhhccc-cCCCcEEEEecCCh---------hhHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           91 W-TNMRDLFAA-VASRSKVIVTTRNQ---------GVASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        91 ~-~~l~~~l~~-~~~gs~iiiTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      | +.|...+.. ...|..||+||...         .+.+.+...-+++|.+.+.+.-..++.+++
T Consensus       395 tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka  459 (617)
T PRK14086        395 TQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKA  459 (617)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHH
Confidence            3 234443332 23356688888762         233344455578999999999999998875

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=98.23  E-value=5.2e-06  Score=67.59  Aligned_cols=98  Identities=16%  Similarity=0.134  Sum_probs=69.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce------------------------------------EEEEEeCCCCCC-hh
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------------------FNFALDDTWKEK-YV   89 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------------------~LlVlDdv~~~~-~~   89 (162)
                      ....+.|||..|+|||.|++++.+.....                                    =++++||++... .+
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y~~dlllIDDiq~l~gk~  191 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYSLDLLLIDDIQFLAGKE  191 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhhccCeeeechHhHhcCCh
Confidence            46788899999999999999997765332                                    189999997421 11


Q ss_pred             h-HHHHHhhccc-cCCCcEEEEecCCh---------hhHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           90 D-WTNMRDLFAA-VASRSKVIVTTRNQ---------GVASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        90 ~-~~~l~~~l~~-~~~gs~iiiTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      . .+.+...|.. ...|..||+|++..         .+.+.+.+.-.+++.+++.+....++.+.+
T Consensus       192 ~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka  257 (408)
T COG0593         192 RTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKA  257 (408)
T ss_pred             hHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHH
Confidence            2 2334444433 23345899999652         344555566689999999999999998854

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.23  E-value=6.4e-06  Score=73.13  Aligned_cols=111  Identities=11%  Similarity=0.138  Sum_probs=68.7

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc----------e-------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV----------N-------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~----------~-------------   75 (162)
                      ...++||+.   .+++.|....       ..-+.++|.+|+|||++|+.+.++...          +             
T Consensus       186 ld~~iGr~~ei~~~i~~l~r~~-------~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~  258 (852)
T TIGR03345       186 IDPVLGRDDEIRQMIDILLRRR-------QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGA  258 (852)
T ss_pred             CCcccCCHHHHHHHHHHHhcCC-------cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhccc
Confidence            468899999   5555555544       334569999999999999988765310          0             


Q ss_pred             -----------------------EEEEEeCCCCCCh-----hhHH---HHHhhccccCCCc-EEEEecCChhhH------
Q 039127           76 -----------------------FNFALDDTWKEKY-----VDWT---NMRDLFAAVASRS-KVIVTTRNQGVA------  117 (162)
Q Consensus        76 -----------------------~LlVlDdv~~~~~-----~~~~---~l~~~l~~~~~gs-~iiiTTR~~~v~------  117 (162)
                                             .+|++|+++....     ...+   .|++.+   .+|. ++|-+|......      
T Consensus       259 ~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l---~~G~l~~IgaTT~~e~~~~~~~d  335 (852)
T TIGR03345       259 SVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPAL---ARGELRTIAATTWAEYKKYFEKD  335 (852)
T ss_pred             ccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHh---hCCCeEEEEecCHHHHhhhhhcc
Confidence                                   7899999874210     1111   233333   3343 455555443221      


Q ss_pred             -hhhCCCCeeeCCCCCHHHHHHHHhh
Q 039127          118 -SIMGTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       118 -~~~~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                       .....-..+.+.+++.++...+|+.
T Consensus       336 ~AL~rRf~~i~v~eps~~~~~~iL~~  361 (852)
T TIGR03345       336 PALTRRFQVVKVEEPDEETAIRMLRG  361 (852)
T ss_pred             HHHHHhCeEEEeCCCCHHHHHHHHHH
Confidence             1122334799999999999999753

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

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

Probab=98.22  E-value=8.6e-06  Score=71.34  Aligned_cols=112  Identities=13%  Similarity=0.133  Sum_probs=68.7

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC----------ce-------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT----------VN-------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~----------~~-------------   75 (162)
                      ...++||++   .+++.|....       ..-+.++|.+|+|||++|+.++++..          .+             
T Consensus       181 l~~~igr~~ei~~~~~~L~~~~-------~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~l~a~~  253 (731)
T TIGR02639       181 IDPLIGREDELERTIQVLCRRK-------KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGSLLAGT  253 (731)
T ss_pred             CCcccCcHHHHHHHHHHHhcCC-------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHHHhhhc
Confidence            357899999   5665554443       33456999999999999998876531          00             


Q ss_pred             ----------------------EEEEEeCCCCCC---------hhhHHHHHhhccccCCCc-EEEEecCChhhH------
Q 039127           76 ----------------------FNFALDDTWKEK---------YVDWTNMRDLFAAVASRS-KVIVTTRNQGVA------  117 (162)
Q Consensus        76 ----------------------~LlVlDdv~~~~---------~~~~~~l~~~l~~~~~gs-~iiiTTR~~~v~------  117 (162)
                                            .+|++|+++...         .+..+.|+..+.   .|. ++|-+|...+..      
T Consensus       254 ~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~---~g~i~~IgaTt~~e~~~~~~~d  330 (731)
T TIGR02639       254 KYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS---SGKLRCIGSTTYEEYKNHFEKD  330 (731)
T ss_pred             cccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh---CCCeEEEEecCHHHHHHHhhhh
Confidence                                  689999987321         122333444333   333 334443332211      


Q ss_pred             -hhhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          118 -SIMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       118 -~~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                       .....-..+++.+++.++...+++..
T Consensus       331 ~al~rRf~~i~v~~p~~~~~~~il~~~  357 (731)
T TIGR02639       331 RALSRRFQKIDVGEPSIEETVKILKGL  357 (731)
T ss_pred             HHHHHhCceEEeCCCCHHHHHHHHHHH
Confidence             11122346899999999999999853

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.21  E-value=3e-06  Score=57.94  Aligned_cols=25  Identities=28%  Similarity=0.227  Sum_probs=19.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+.+.|+|.+|+|||++++.+.+..
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHh
Confidence            4678899999999999999998764

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.20  E-value=8.5e-06  Score=70.03  Aligned_cols=43  Identities=23%  Similarity=0.163  Sum_probs=31.7

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ..++++|++.   .+...+...       ....+.|+|.+|+||||||+.+++
T Consensus       152 ~~~~iiGqs~~~~~l~~~ia~~-------~~~~vlL~Gp~GtGKTTLAr~i~~  197 (615)
T TIGR02903       152 AFSEIVGQERAIKALLAKVASP-------FPQHIILYGPPGVGKTTAARLALE  197 (615)
T ss_pred             cHHhceeCcHHHHHHHHHHhcC-------CCCeEEEECCCCCCHHHHHHHHHH
Confidence            3467899988   454444322       245688999999999999998864

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

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.17  E-value=2.5e-05  Score=67.09  Aligned_cols=117  Identities=12%  Similarity=0.075  Sum_probs=78.9

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC---------------c--------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT---------------V--------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~---------------~--------   74 (162)
                      .-.+++|.+.   .+.+.+..+.      -...+.++|..|+||||+|+.+.+...               .        
T Consensus        14 ~f~eivGQe~i~~~L~~~i~~~r------i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC   87 (620)
T PRK14954         14 KFADITAQEHITHTIQNSLRMDR------VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESC   87 (620)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC------CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHH
Confidence            3478899888   4444443333      345688999999999999977653220               0        


Q ss_pred             -----------------e-----------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEE-EecCC
Q 039127           75 -----------------N-----------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVI-VTTRN  113 (162)
Q Consensus        75 -----------------~-----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-iTTR~  113 (162)
                                       .                       -++|+|+++..+...++.|...+..-...+.+| +|++.
T Consensus        88 ~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~  167 (620)
T PRK14954         88 RDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTEL  167 (620)
T ss_pred             HHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCCh
Confidence                             0                       489999999777778888888887655555544 45444


Q ss_pred             hhhHhh-hCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          114 QGVASI-MGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       114 ~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ..+... ......+++.+++.++....+.+.
T Consensus       168 ~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i  198 (620)
T PRK14954        168 HKIPATIASRCQRFNFKRIPLDEIQSQLQMI  198 (620)
T ss_pred             hhhhHHHHhhceEEecCCCCHHHHHHHHHHH
Confidence            444432 334457999999998877666543

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.17  E-value=1.7e-05  Score=65.88  Aligned_cols=117  Identities=11%  Similarity=0.126  Sum_probs=77.7

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------------------------   73 (162)
                      .-.+++|.+.   .+.+.+..+.      -...+.++|..|+|||++|+.+.+...                        
T Consensus        15 ~~~diiGq~~~v~~L~~~i~~~~------i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~   88 (451)
T PRK06305         15 TFSEILGQDAVVAVLKNALRFNR------AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGT   88 (451)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC------CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCC
Confidence            3578999888   4444444332      246778999999999999988754210                        


Q ss_pred             ------------c--e------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEec-CChhhHhh-
Q 039127           74 ------------V--N------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTT-RNQGVASI-  119 (162)
Q Consensus        74 ------------~--~------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTT-R~~~v~~~-  119 (162)
                                  .  .                  -++|+|+++..+....+.|...+........+|++| +...+... 
T Consensus        89 ~~d~~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI  168 (451)
T PRK06305         89 SLDVLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTI  168 (451)
T ss_pred             CCceEEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHH
Confidence                        0  0                  588999998766677777888877654555565555 33333322 


Q ss_pred             hCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          120 MGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       120 ~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ......+++.+++.++....+.+.
T Consensus       169 ~sRc~~v~f~~l~~~el~~~L~~~  192 (451)
T PRK06305        169 LSRCQKMHLKRIPEETIIDKLALI  192 (451)
T ss_pred             HHhceEEeCCCCCHHHHHHHHHHH
Confidence            223347899999999887776654

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.16  E-value=1.8e-05  Score=68.89  Aligned_cols=115  Identities=14%  Similarity=0.118  Sum_probs=76.6

Q ss_pred             CceeeehHHHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------
Q 039127           23 KLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------   75 (162)
Q Consensus        23 ~~~vGr~~~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------   75 (162)
                      ...+-|.. +++.|....      +.+.+.|.-++|.|||||+-.........                           
T Consensus        19 ~~~v~R~r-L~~~L~~~~------~~RL~li~APAGfGKttl~aq~~~~~~~~~~v~Wlslde~dndp~rF~~yLi~al~   91 (894)
T COG2909          19 DNYVVRPR-LLDRLRRAN------DYRLILISAPAGFGKTTLLAQWRELAADGAAVAWLSLDESDNDPARFLSYLIAALQ   91 (894)
T ss_pred             ccccccHH-HHHHHhcCC------CceEEEEeCCCCCcHHHHHHHHHHhcCcccceeEeecCCccCCHHHHHHHHHHHHH
Confidence            34444555 777777654      68999999999999999998886422222                           


Q ss_pred             ---------------------------------------EEEEEeCCCCC-ChhhHHHHHhhccccCCCcEEEEecCChh
Q 039127           76 ---------------------------------------FNFALDDTWKE-KYVDWTNMRDLFAAVASRSKVIVTTRNQG  115 (162)
Q Consensus        76 ---------------------------------------~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iiiTTR~~~  115 (162)
                                                             ..+||||.+-. ++.-...+...+.....+-.+++|||+..
T Consensus        92 ~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP  171 (894)
T COG2909          92 QATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRP  171 (894)
T ss_pred             HhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCC
Confidence                                                   69999998743 33333445555555667889999999964


Q ss_pred             hHhhh---CCCCeee----CCCCCHHHHHHHHhhCC
Q 039127          116 VASIM---GTMPAYE----LKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       116 v~~~~---~~~~~~~----l~~L~~~~~~~lf~~~a  144 (162)
                      -....   -....++    .-.++.+|+-.+|....
T Consensus       172 ~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~  207 (894)
T COG2909         172 QLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRG  207 (894)
T ss_pred             CCcccceeehhhHHhcChHhhcCChHHHHHHHHHcC
Confidence            32211   1112222    23478999999998763

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.16  E-value=1.6e-05  Score=64.85  Aligned_cols=99  Identities=17%  Similarity=0.109  Sum_probs=63.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-------   86 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-------   86 (162)
                      ..+-+.++|.+|+|||++|+.+++.....                                 .+|+||+++..       
T Consensus       164 ~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~  243 (389)
T PRK03992        164 PPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDS  243 (389)
T ss_pred             CCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhHhhccchHHHHHHHHHHHHhcCCeEEEEechhhhhcccccC
Confidence            34567899999999999999998755432                                 58899998732       


Q ss_pred             ----ChhhHHHHHhhccc-----cCCCcEEEEecCChhhH-h-hhC---CCCeeeCCCCCHHHHHHHHhhCCC
Q 039127           87 ----KYVDWTNMRDLFAA-----VASRSKVIVTTRNQGVA-S-IMG---TMPAYELKKLVNDNCLLIFSQHPS  145 (162)
Q Consensus        87 ----~~~~~~~l~~~l~~-----~~~gs~iiiTTR~~~v~-~-~~~---~~~~~~l~~L~~~~~~~lf~~~af  145 (162)
                          +.+.+..+...+..     ...+..||.||...+.. . ...   -...+++...+.++..++|+.+..
T Consensus       244 ~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~  316 (389)
T PRK03992        244 GTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTR  316 (389)
T ss_pred             CCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhc
Confidence                11222233333211     11244677777654322 1 111   133689999999999999987653

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=2.6e-05  Score=66.76  Aligned_cols=118  Identities=9%  Similarity=0.124  Sum_probs=78.3

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------------------------   73 (162)
                      .-.+++|.+.   .+.+++....      -...+.++|..|+||||+|+.+.+...                        
T Consensus        14 ~~~eiiGq~~~~~~L~~~i~~~~------i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c~~i~~~~   87 (585)
T PRK14950         14 TFAELVGQEHVVQTLRNAIAEGR------VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMCRAIAEGS   87 (585)
T ss_pred             CHHHhcCCHHHHHHHHHHHHhCC------CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHHHHHhcCC
Confidence            3478999888   3444444333      345677999999999999988753210                        


Q ss_pred             ----------ce----------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEec-CChhhHhhh
Q 039127           74 ----------VN----------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTT-RNQGVASIM  120 (162)
Q Consensus        74 ----------~~----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTT-R~~~v~~~~  120 (162)
                                ..                      -++|+|+++..+.+.++.|...+........+|+++ ....+...+
T Consensus        88 ~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI  167 (585)
T PRK14950         88 AVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATI  167 (585)
T ss_pred             CCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHH
Confidence                      00                      589999998777777888888877655566555554 333333322


Q ss_pred             -CCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          121 -GTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       121 -~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                       .....+.+..++.++....+.+.+
T Consensus       168 ~SR~~~i~f~~l~~~el~~~L~~~a  192 (585)
T PRK14950        168 LSRCQRFDFHRHSVADMAAHLRKIA  192 (585)
T ss_pred             HhccceeeCCCCCHHHHHHHHHHHH
Confidence             223468888888888777666543

>CHL00181 cbbX CbbX; Provisional

Probab=98.14  E-value=1.6e-05  Score=62.25  Aligned_cols=95  Identities=13%  Similarity=0.092  Sum_probs=61.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC----------ce---------------------------EEEEEeCCCCC------
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT----------VN---------------------------FNFALDDTWKE------   86 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~----------~~---------------------------~LlVlDdv~~~------   86 (162)
                      .+.++|.+|+|||++|+.+++...          ..                           -+|++|++...      
T Consensus        61 ~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~l~~a~ggVLfIDE~~~l~~~~~~  140 (287)
T CHL00181         61 HMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLVGQYIGHTAPKTKEVLKKAMGGVLFIDEAYYLYKPDNE  140 (287)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHHHHHhccchHHHHHHHHHccCCEEEEEccchhccCCCc
Confidence            467899999999999999954321          00                           47899999631      


Q ss_pred             ---ChhhHHHHHhhccccCCCcEEEEecCChhhHhhh-------C-CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 ---KYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIM-------G-TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 ---~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~-------~-~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                         ..+....|...+........||.++....+....       . -...+++.+++.++..+++.+.+
T Consensus       141 ~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l  209 (287)
T CHL00181        141 RDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIML  209 (287)
T ss_pred             cchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHH
Confidence               2334455555555444455677777544332211       1 12368999999999998887654

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.14  E-value=4.2e-05  Score=64.56  Aligned_cols=117  Identities=14%  Similarity=0.168  Sum_probs=80.5

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-----c------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-----V------------------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-----~------------------   74 (162)
                      .-.+++|.+.   .+...+-...      -...+.++|..|+||||+|+.+.+..-     .                  
T Consensus        12 ~fdeiiGqe~v~~~L~~~I~~gr------l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h   85 (535)
T PRK08451         12 HFDELIGQESVSKTLSLALDNNR------LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRH   85 (535)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC------CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCC
Confidence            3478999887   4444443332      345778999999999999987654320     0                  


Q ss_pred             --------------e------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHh-hh
Q 039127           75 --------------N------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVAS-IM  120 (162)
Q Consensus        75 --------------~------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~-~~  120 (162)
                                    .                  -++|+|+++..+.+.++.|+..+..-...+.+|++|.+. .+.. ..
T Consensus        86 ~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~  165 (535)
T PRK08451         86 IDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATIL  165 (535)
T ss_pred             CeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHH
Confidence                          0                  489999999888888999988887665666666655442 2222 22


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .....+++.+++.++....+.+.
T Consensus       166 SRc~~~~F~~Ls~~ei~~~L~~I  188 (535)
T PRK08451        166 SRTQHFRFKQIPQNSIISHLKTI  188 (535)
T ss_pred             hhceeEEcCCCCHHHHHHHHHHH
Confidence            22347899999999887777643

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.14  E-value=1.3e-05  Score=66.34  Aligned_cols=97  Identities=14%  Similarity=0.038  Sum_probs=62.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc-----e---------------------------------EEEEEeCCCCC-Ch
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV-----N---------------------------------FNFALDDTWKE-KY   88 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~-----~---------------------------------~LlVlDdv~~~-~~   88 (162)
                      ..-+.|+|.+|+|||+|++.+++....     +                                 -+|++||++.. +.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~~  209 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIGK  209 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhhcCc
Confidence            345889999999999999988875311     1                                 27999999732 11


Q ss_pred             hh-HHHHHhhccc-cCCCcEEEEecCC-hh--------hHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           89 VD-WTNMRDLFAA-VASRSKVIVTTRN-QG--------VASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        89 ~~-~~~l~~~l~~-~~~gs~iiiTTR~-~~--------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      .. .+.+...+.. ...|..+|+||.. ..        +.+.+...-++.+++.+.+.-..++++.+
T Consensus       210 ~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~  276 (440)
T PRK14088        210 TGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKML  276 (440)
T ss_pred             HHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHH
Confidence            11 1234333322 1235578888753 22        11223334478899999999999998775

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=98.13  E-value=2.6e-05  Score=65.99  Aligned_cols=117  Identities=17%  Similarity=0.159  Sum_probs=73.2

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc-------C-C-ce-------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND-------K-T-VN-------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~-------~-~-~~-------------   75 (162)
                      +-.+++|.+.   .+...+....       ..-+.|+|.+|+|||++|+.+++.       . . ..             
T Consensus        63 ~f~~iiGqs~~i~~l~~al~~~~-------~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~~~~~  135 (531)
T TIGR02902        63 SFDEIIGQEEGIKALKAALCGPN-------PQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATTARFD  135 (531)
T ss_pred             CHHHeeCcHHHHHHHHHHHhCCC-------CceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccccccCC
Confidence            3357999988   4444443332       334569999999999999988631       0 0 00             


Q ss_pred             -----------------------------------------EEEEEeCCCCCChhhHHHHHhhcccc-------------
Q 039127           76 -----------------------------------------FNFALDDTWKEKYVDWTNMRDLFAAV-------------  101 (162)
Q Consensus        76 -----------------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~-------------  101 (162)
                                                               =.|+||++...+...+..|...+...             
T Consensus       136 ~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q~~LL~~Le~~~~~~~~~~~~~~~  215 (531)
T TIGR02902       136 ERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQMNKLLKVLEDRKVFLDSAYYNSEN  215 (531)
T ss_pred             ccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHHHHHHHHHHhCeeeeccccccccC
Confidence                                                     17888999887788888877655321             


Q ss_pred             ---------------CCCcEEEE-ecCChh-hHh-hhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          102 ---------------ASRSKVIV-TTRNQG-VAS-IMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       102 ---------------~~gs~iii-TTR~~~-v~~-~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                                     ....++|. ||++.. +.. .......+.+.+|+.++-..++++.+
T Consensus       216 ~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrsR~~~I~f~pL~~eei~~Il~~~a  276 (531)
T TIGR02902       216 PNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRSRCVEIFFRPLLDEEIKEIAKNAA  276 (531)
T ss_pred             cccccchhhhcccCcccceEEEEEecCCcccCChHHhhhhheeeCCCCCHHHHHHHHHHHH
Confidence                           01125554 455432 111 11222357899999999888888754

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=2.4e-05  Score=66.76  Aligned_cols=115  Identities=12%  Similarity=0.134  Sum_probs=78.2

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC----c--------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT----V--------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~----~--------------------   74 (162)
                      -.+++|.+.   .+.+.+..+.      -...+.++|..|+||||+|+.+.+...    .                    
T Consensus        15 f~~iiGq~~v~~~L~~~i~~~~------~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~~i~~g~~~   88 (576)
T PRK14965         15 FSDLTGQEHVSRTLQNAIDTGR------VAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCVEITEGRSV   88 (576)
T ss_pred             HHHccCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHHHHhcCCCC
Confidence            468999988   4555554433      345678999999999999987754321    0                    


Q ss_pred             -----e--------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEE-EecCChhhHhhh-C
Q 039127           75 -----N--------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVI-VTTRNQGVASIM-G  121 (162)
Q Consensus        75 -----~--------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-iTTR~~~v~~~~-~  121 (162)
                           .                          -++|+|+++..+...++.|...+..-.....+| +||..+.+...+ .
T Consensus        89 d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~S  168 (576)
T PRK14965         89 DVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILS  168 (576)
T ss_pred             CeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHH
Confidence                 0                          478999999878888888888887655555554 555555554332 2


Q ss_pred             CCCeeeCCCCCHHHHHHHHhh
Q 039127          122 TMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~  142 (162)
                      ....+++.+++.++....+..
T Consensus       169 Rc~~~~f~~l~~~~i~~~L~~  189 (576)
T PRK14965        169 RCQRFDFRRIPLQKIVDRLRY  189 (576)
T ss_pred             hhhhhhcCCCCHHHHHHHHHH
Confidence            234678888888877666654

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.10  E-value=3.3e-05  Score=66.35  Aligned_cols=117  Identities=12%  Similarity=0.137  Sum_probs=82.2

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------------------------   73 (162)
                      .-.+++|.+.   .+.+++..+.      -...+.++|..|+||||+|+.+.....                        
T Consensus        15 ~f~~viGq~~~~~~L~~~i~~~~------l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~   88 (614)
T PRK14971         15 TFESVVGQEALTTTLKNAIATNK------LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQR   88 (614)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC------CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCC
Confidence            3468899888   5555554433      345688999999999999987654321                        


Q ss_pred             --------------ce------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHhhh
Q 039127           74 --------------VN------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVASIM  120 (162)
Q Consensus        74 --------------~~------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~~~  120 (162)
                                    +.                  -++|+|+++..+...++.|...+..-...+.+|+ |++...+...+
T Consensus        89 ~~n~~~ld~~~~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI  168 (614)
T PRK14971         89 SYNIHELDAASNNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTI  168 (614)
T ss_pred             CCceEEecccccCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHH
Confidence                          00                  4899999998888889999988886555665544 55555544333


Q ss_pred             -CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          121 -GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       121 -~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                       .....+++.+++.++....+.+.
T Consensus       169 ~SRc~iv~f~~ls~~ei~~~L~~i  192 (614)
T PRK14971        169 LSRCQIFDFNRIQVADIVNHLQYV  192 (614)
T ss_pred             HhhhheeecCCCCHHHHHHHHHHH
Confidence             33447999999999988777653

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.09  E-value=1.4e-05  Score=70.85  Aligned_cols=43  Identities=21%  Similarity=0.206  Sum_probs=32.6

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++||++   .+++.|....       ..-+.++|.+|+|||++|+.++...
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~-------~~n~lL~G~pGvGKTal~~~la~~i  224 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRT-------KNNPILIGEPGVGKTAIAEGLAQRI  224 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccc-------cCCeEEECCCCCCHHHHHHHHHHHH
Confidence            56899999   6666665544       2344699999999999998887653

>PRK08116 hypothetical protein; Validated

Probab=98.09  E-value=5.1e-06  Score=64.44  Aligned_cols=65  Identities=23%  Similarity=0.258  Sum_probs=44.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce--------------------------------------EEEEEeCCCCCChhhH
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN--------------------------------------FNFALDDTWKEKYVDW   91 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------------------------~LlVlDdv~~~~~~~~   91 (162)
                      -+.++|..|+|||+||..+++....+                                      =||||||+.......|
T Consensus       116 gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e~~t~~  195 (268)
T PRK08116        116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLVNADLLILDDLGAERDTEW  195 (268)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhcCCCEEEEecccCCCCCHH
Confidence            47799999999999999998763211                                      4899999953333444


Q ss_pred             H--HHHhhccc-cCCCcEEEEecCCh
Q 039127           92 T--NMRDLFAA-VASRSKVIVTTRNQ  114 (162)
Q Consensus        92 ~--~l~~~l~~-~~~gs~iiiTTR~~  114 (162)
                      .  .+...+.. ...+..+|+||...
T Consensus       196 ~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        196 AREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            3  34444432 23466799999764

>PRK08181 transposase; Validated

Probab=98.09  E-value=3.6e-06  Score=65.27  Aligned_cols=65  Identities=18%  Similarity=0.142  Sum_probs=42.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC-----ce------------------------------EEEEEeCCCCCChhhH--H
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT-----VN------------------------------FNFALDDTWKEKYVDW--T   92 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~-----~~------------------------------~LlVlDdv~~~~~~~~--~   92 (162)
                      -+.++|.+|+|||.||..+.+...     +.                              -|||+||+.......|  .
T Consensus       108 nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~~~dLLIIDDlg~~~~~~~~~~  187 (269)
T PRK08181        108 NLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKLDKFDLLILDDLAYVTKDQAETS  187 (269)
T ss_pred             eEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHhcCCEEEEeccccccCCHHHHH
Confidence            578999999999999998864321     11                              4899999964333233  2


Q ss_pred             HHHhhccccCCCcEEEEecCCh
Q 039127           93 NMRDLFAAVASRSKVIVTTRNQ  114 (162)
Q Consensus        93 ~l~~~l~~~~~gs~iiiTTR~~  114 (162)
                      .+...+........+||||...
T Consensus       188 ~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        188 VLFELISARYERRSILITANQP  209 (269)
T ss_pred             HHHHHHHHHHhCCCEEEEcCCC
Confidence            3444444322224589998774

>PRK06526 transposase; Provisional

Probab=98.07  E-value=4.3e-06  Score=64.37  Aligned_cols=65  Identities=17%  Similarity=0.118  Sum_probs=41.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------EEEEEeCCCCCChhhH--
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------FNFALDDTWKEKYVDW--   91 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------~LlVlDdv~~~~~~~~--   91 (162)
                      ..+.++|.+|+|||+||..+.+.....                                   -+||+||+.......+  
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g~~~~~~~~~  178 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVGYIPFEPEAA  178 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHHhccCCEEEEcccccCCCCHHHH
Confidence            457899999999999999875532211                                   4899999974322222  


Q ss_pred             HHHHhhccc-cCCCcEEEEecCCh
Q 039127           92 TNMRDLFAA-VASRSKVIVTTRNQ  114 (162)
Q Consensus        92 ~~l~~~l~~-~~~gs~iiiTTR~~  114 (162)
                      +.+...+.. ..+++ +|+||...
T Consensus       179 ~~L~~li~~r~~~~s-~IitSn~~  201 (254)
T PRK06526        179 NLFFQLVSSRYERAS-LIVTSNKP  201 (254)
T ss_pred             HHHHHHHHHHHhcCC-EEEEcCCC
Confidence            234444332 22344 88888774

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.07  E-value=5.5e-05  Score=63.38  Aligned_cols=117  Identities=14%  Similarity=0.088  Sum_probs=78.2

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------------------------   73 (162)
                      .-.+++|.+.   .+.+++....      -...+.++|..|+||||+|+.++....                        
T Consensus        14 ~f~diiGq~~i~~~L~~~i~~~~------i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~   87 (486)
T PRK14953         14 FFKEVIGQEIVVRILKNAVKLQR------VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSF   87 (486)
T ss_pred             cHHHccChHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCC
Confidence            3467889988   4555554433      345677899999999999988754321                        


Q ss_pred             -----------c-----e---------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHhh-h
Q 039127           74 -----------V-----N---------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVASI-M  120 (162)
Q Consensus        74 -----------~-----~---------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~~-~  120 (162)
                                 .     +               -++|+|+++..+...++.|...+........+|+ ||+...+... .
T Consensus        88 ~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~  167 (486)
T PRK14953         88 PDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTIL  167 (486)
T ss_pred             CcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHH
Confidence                       0     0               4889999987777778888888776544554544 4444443322 2


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .....+++.+++.++....+.+.
T Consensus       168 SRc~~i~f~~ls~~el~~~L~~i  190 (486)
T PRK14953        168 SRCQRFIFSKPTKEQIKEYLKRI  190 (486)
T ss_pred             HhceEEEcCCCCHHHHHHHHHHH
Confidence            23346889999998877766653

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.07  E-value=3.1e-06  Score=61.10  Aligned_cols=48  Identities=23%  Similarity=0.295  Sum_probs=27.9

Q ss_pred             ceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           24 LWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        24 ~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .|+||++   ++...|.  .  ......+.+.|+|.+|+|||+|.+.++......
T Consensus         1 ~fvgR~~e~~~l~~~l~--~--~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLD--A--AQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTG--G--TSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH--H--HHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3799999   4444442  2  234556899999999999999999887766554

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.05  E-value=8.9e-06  Score=71.68  Aligned_cols=47  Identities=23%  Similarity=0.246  Sum_probs=31.1

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+.||++   +|...|...-  .+.....++.|+|.+|.|||++++.+.+.
T Consensus       755 D~LPhREeEIeeLasfL~paI--kgsgpnnvLYIyG~PGTGKTATVK~VLrE  804 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGI--KQSGSNQILYISGMPGTGKTATVYSVIQL  804 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHH--hcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            57889999   3333332211  01123356789999999999999988643

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.04  E-value=2.6e-06  Score=62.17  Aligned_cols=66  Identities=20%  Similarity=0.260  Sum_probs=39.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------EEEEEeCCCCCChhhHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------FNFALDDTWKEKYVDWT   92 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------~LlVlDdv~~~~~~~~~   92 (162)
                      ..-+.++|..|+|||.||..+.+....+                                   =||||||+-......|.
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~~~dlLilDDlG~~~~~~~~  126 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLKRVDLLILDDLGYEPLSEWE  126 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHHTSSCEEEETCTSS---HHH
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccccccEecccccceeeecccc
Confidence            3468899999999999998886543222                                   58999999754444443


Q ss_pred             H--HHhhcccc-CCCcEEEEecCCh
Q 039127           93 N--MRDLFAAV-ASRSKVIVTTRNQ  114 (162)
Q Consensus        93 ~--l~~~l~~~-~~gs~iiiTTR~~  114 (162)
                      .  +...+... .+. .+||||...
T Consensus       127 ~~~l~~ii~~R~~~~-~tIiTSN~~  150 (178)
T PF01695_consen  127 AELLFEIIDERYERK-PTIITSNLS  150 (178)
T ss_dssp             HHCTHHHHHHHHHT--EEEEEESS-
T ss_pred             cccchhhhhHhhccc-CeEeeCCCc
Confidence            2  22222221 223 588888764

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.

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=98.04  E-value=6.3e-05  Score=64.05  Aligned_cols=118  Identities=8%  Similarity=0.046  Sum_probs=81.5

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------------------------   73 (162)
                      .-.+++|.+.   .+.+++....      -...+.++|..|+||||+|+.+.+..-                        
T Consensus        14 ~f~diiGqe~iv~~L~~~i~~~~------i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~~i~~~~~   87 (563)
T PRK06647         14 DFNSLEGQDFVVETLKHSIESNK------IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCKSIDNDNS   87 (563)
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHHHHHcCCC
Confidence            3478999888   5555554433      355788999999999999988865321                        


Q ss_pred             -----------ce--------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEec-CChhhHhh-h
Q 039127           74 -----------VN--------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTT-RNQGVASI-M  120 (162)
Q Consensus        74 -----------~~--------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTT-R~~~v~~~-~  120 (162)
                                 ..                    -++|+|+++..+...++.|...+..-.....+|++| ....+... .
T Consensus        88 ~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~  167 (563)
T PRK06647         88 LDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIK  167 (563)
T ss_pred             CCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHH
Confidence                       00                    489999999878888888888887655555555544 43444332 2


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      .....+++.+++.++....+...+
T Consensus       168 SRc~~~~f~~l~~~el~~~L~~i~  191 (563)
T PRK06647        168 SRCQHFNFRLLSLEKIYNMLKKVC  191 (563)
T ss_pred             HhceEEEecCCCHHHHHHHHHHHH
Confidence            233468899999888877776544

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=98.03  E-value=6e-05  Score=64.20  Aligned_cols=117  Identities=10%  Similarity=0.131  Sum_probs=78.8

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC---c--------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT---V--------------------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~---~--------------------   74 (162)
                      .-.+++|.+.   .+.+.+....      -...+.++|..|+|||++|+.+....-   .                    
T Consensus        14 ~f~~viGq~~v~~~L~~~i~~~~------~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~~i~~g~~   87 (559)
T PRK05563         14 TFEDVVGQEHITKTLKNAIKQGK------ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICKAITNGSL   87 (559)
T ss_pred             cHHhccCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHHHHhcCCC
Confidence            3578999998   4555554433      346677899999999999988744321   0                    


Q ss_pred             -----------e---------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEE-EEecCChhhHhhh-
Q 039127           75 -----------N---------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKV-IVTTRNQGVASIM-  120 (162)
Q Consensus        75 -----------~---------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i-iiTTR~~~v~~~~-  120 (162)
                                 .                     -++|+|+++..+...+..|...+..-.....+ +.||....+...+ 
T Consensus        88 ~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~  167 (559)
T PRK05563         88 MDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATIL  167 (559)
T ss_pred             CCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHH
Confidence                       0                     58899999977778888888887754444444 4455544443322 


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .....+++.+++.++....+...
T Consensus       168 SRc~~~~f~~~~~~ei~~~L~~i  190 (559)
T PRK05563        168 SRCQRFDFKRISVEDIVERLKYI  190 (559)
T ss_pred             hHheEEecCCCCHHHHHHHHHHH
Confidence            23346888899988887777654

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=98.03  E-value=4.6e-05  Score=54.74  Aligned_cols=57  Identities=11%  Similarity=0.095  Sum_probs=38.5

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh-hHhhh-CCCCeeeCCCCC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG-VASIM-GTMPAYELKKLV  132 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~~~~-~~~~~~~l~~L~  132 (162)
                      -++|+|+++..+.+.+..|+..+..-...+.+|++|.+.. +...+ ..-..+.+.+||
T Consensus       104 KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  104 KVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             EEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEEEE----
T ss_pred             eEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEEecCCCC
Confidence            5899999999999999999999988777888888877754 33333 333457776664

...

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.01  E-value=8.3e-05  Score=64.65  Aligned_cols=116  Identities=10%  Similarity=0.164  Sum_probs=80.0

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC----C--------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK----T--------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~----~--------------------   73 (162)
                      .-.+++|.+.   .+.+.+....      -...+.++|+.|+|||++|+.++...    .                    
T Consensus        16 ~f~dIiGQe~~v~~L~~aI~~~r------l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dv   89 (725)
T PRK07133         16 TFDDIVGQDHIVQTLKNIIKSNK------ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDI   89 (725)
T ss_pred             CHHHhcCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcE
Confidence            3468899888   4555554433      35677899999999999998875321    0                    


Q ss_pred             ----------c---e---------------EEEEEeCCCCCChhhHHHHHhhccccCCCcE-EEEecCChhhHhh-hCCC
Q 039127           74 ----------V---N---------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSK-VIVTTRNQGVASI-MGTM  123 (162)
Q Consensus        74 ----------~---~---------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~-iiiTTR~~~v~~~-~~~~  123 (162)
                                +   +               -++|+|+++..+...+..|+..+..-..... |++|++...+... ....
T Consensus        90 ieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRc  169 (725)
T PRK07133         90 IEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRV  169 (725)
T ss_pred             EEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhc
Confidence                      0   0               4899999998788888888888776444544 4455555555432 3333


Q ss_pred             CeeeCCCCCHHHHHHHHhh
Q 039127          124 PAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       124 ~~~~l~~L~~~~~~~lf~~  142 (162)
                      ..+++.+++.++....+..
T Consensus       170 q~ieF~~L~~eeI~~~L~~  188 (725)
T PRK07133        170 QRFNFRRISEDEIVSRLEF  188 (725)
T ss_pred             eeEEccCCCHHHHHHHHHH
Confidence            4799999999998877765

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.00  E-value=6.8e-05  Score=64.55  Aligned_cols=115  Identities=12%  Similarity=0.179  Sum_probs=76.5

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      -.+++|.+.   .+.+++....      -...+.++|..|+||||+|+.+++...-                        
T Consensus        15 f~~liGq~~i~~~L~~~l~~~r------l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~C~~i~~g~   88 (620)
T PRK14948         15 FDELVGQEAIATTLKNALISNR------IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCELCRAIAAGN   88 (620)
T ss_pred             HhhccChHHHHHHHHHHHHcCC------CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHHHHHHhcCC
Confidence            467889888   4444444432      2356789999999999999887543210                        


Q ss_pred             -------e--------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEE-EecCChhhHhhh
Q 039127           75 -------N--------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVI-VTTRNQGVASIM  120 (162)
Q Consensus        75 -------~--------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~ii-iTTR~~~v~~~~  120 (162)
                             .                          -++|+|+++..+.+.+..|+..+..-.....+| +|+....+...+
T Consensus        89 h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTI  168 (620)
T PRK14948         89 ALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTI  168 (620)
T ss_pred             CccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHH
Confidence                   0                          489999999888888889988887644445444 454434333322


Q ss_pred             -CCCCeeeCCCCCHHHHHHHHhh
Q 039127          121 -GTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       121 -~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                       .....+++..++.++....+.+
T Consensus       169 rSRc~~~~f~~l~~~ei~~~L~~  191 (620)
T PRK14948        169 ISRCQRFDFRRIPLEAMVQHLSE  191 (620)
T ss_pred             HhheeEEEecCCCHHHHHHHHHH
Confidence             2234678888888887766654

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

Probab=98.00  E-value=0.00011  Score=64.59  Aligned_cols=121  Identities=13%  Similarity=0.108  Sum_probs=76.3

Q ss_pred             CceeeehH---HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ..++|.+.   .+.+.+.....-  ..+....++.++|+.|+|||+||+.++......                      
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~  533 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAP  533 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCC
Confidence            56788888   444444421100  011234567899999999999999886544211                      


Q ss_pred             ---------------------EEEEEeCCCCCChhhHHHHHhhcccc----C-------CCcEEEEecCChh--h-----
Q 039127           76 ---------------------FNFALDDTWKEKYVDWTNMRDLFAAV----A-------SRSKVIVTTRNQG--V-----  116 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~~~~~~~~l~~~l~~~----~-------~gs~iiiTTR~~~--v-----  116 (162)
                                           .+++||+++..+++.+..|...+..+    .       ..+.+|.||....  +     
T Consensus       534 ~gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g~~~~~~~~~  613 (731)
T TIGR02639       534 PGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAGASEMSKPPI  613 (731)
T ss_pred             CCCcccchhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcchhhhhhccC
Confidence                                 59999999988888888888877543    1       1234666663310  0     


Q ss_pred             ---------------Hh-----hhCC-CCeeeCCCCCHHHHHHHHhhC
Q 039127          117 ---------------AS-----IMGT-MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       117 ---------------~~-----~~~~-~~~~~l~~L~~~~~~~lf~~~  143 (162)
                                     ..     ..+. +.++.+.+|+.++...++...
T Consensus       614 ~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~  661 (731)
T TIGR02639       614 GFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKF  661 (731)
T ss_pred             CcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHH
Confidence                           00     1111 347889999999888887653

>PRK09183 transposase/IS protein; Provisional

Probab=97.98  E-value=8.6e-06  Score=62.87  Aligned_cols=65  Identities=18%  Similarity=0.168  Sum_probs=41.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC-----Cce-------------------------------EEEEEeCCCCCChhhH-
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK-----TVN-------------------------------FNFALDDTWKEKYVDW-   91 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~-----~~~-------------------------------~LlVlDdv~~~~~~~~-   91 (162)
                      ..+.|+|.+|+|||+||..+.+..     .+.                               -++|+||+.......+ 
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~~~~~dlLiiDdlg~~~~~~~~  182 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRGVMAPRLLIIDEIGYLPFSQEE  182 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHHhcCCCEEEEcccccCCCChHH
Confidence            457799999999999999885432     111                               4899999974322222 


Q ss_pred             -HHHHhhcccc-CCCcEEEEecCCh
Q 039127           92 -TNMRDLFAAV-ASRSKVIVTTRNQ  114 (162)
Q Consensus        92 -~~l~~~l~~~-~~gs~iiiTTR~~  114 (162)
                       +.+...+... .+++ +|+||...
T Consensus       183 ~~~lf~li~~r~~~~s-~iiTsn~~  206 (259)
T PRK09183        183 ANLFFQVIAKRYEKGS-MILTSNLP  206 (259)
T ss_pred             HHHHHHHHHHHHhcCc-EEEecCCC
Confidence             2344444332 2344 88888763

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.98  E-value=2.6e-05  Score=68.36  Aligned_cols=113  Identities=15%  Similarity=0.165  Sum_probs=68.0

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc----------e--------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV----------N--------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~----------~--------------   75 (162)
                      ..++||++   .+++.|....       ..-+.++|.+|+|||++|+.+++....          .              
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~-------~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~~~~llaG~~  258 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRR-------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTK  258 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccC-------CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEeccHHHHhcccc
Confidence            46899999   5666555533       223458999999999999988754200          0              


Q ss_pred             ---------------------EEEEEeCCCCC--------ChhhHHHHHhhccccCCCcEEEEecCChhhHh-------h
Q 039127           76 ---------------------FNFALDDTWKE--------KYVDWTNMRDLFAAVASRSKVIVTTRNQGVAS-------I  119 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~-------~  119 (162)
                                           .+|++|+++..        .......+..++...+ .-++|-+|.......       .
T Consensus       259 ~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g-~i~vIgATt~~E~~~~~~~D~AL  337 (758)
T PRK11034        259 YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTTYQEFSNIFEKDRAL  337 (758)
T ss_pred             hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhCC-CeEEEecCChHHHHHHhhccHHH
Confidence                                 68999998731        1122222333333222 224444444333211       1


Q ss_pred             hCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          120 MGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       120 ~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ...-+.+.+++++.++...++...
T Consensus       338 ~rRFq~I~v~ePs~~~~~~IL~~~  361 (758)
T PRK11034        338 ARRFQKIDITEPSIEETVQIINGL  361 (758)
T ss_pred             HhhCcEEEeCCCCHHHHHHHHHHH
Confidence            122346999999999999999853

>PRK12377 putative replication protein; Provisional

Probab=97.98  E-value=1.1e-05  Score=61.80  Aligned_cols=65  Identities=17%  Similarity=0.079  Sum_probs=43.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce------------------------------------EEEEEeCCCCCChhhH-
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN------------------------------------FNFALDDTWKEKYVDW-   91 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------------------~LlVlDdv~~~~~~~~-   91 (162)
                      ..+.++|.+|+|||+||..+.+....+                                    -||||||+.......| 
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~~~~s~~~  181 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQELCKVDLLVLDEIGIQRETKNE  181 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCCCCHHH
Confidence            568899999999999999987765322                                    4899999953333333 


Q ss_pred             -HHHHhhcccc-CCCcEEEEecCC
Q 039127           92 -TNMRDLFAAV-ASRSKVIVTTRN  113 (162)
Q Consensus        92 -~~l~~~l~~~-~~gs~iiiTTR~  113 (162)
                       +.|...+... .+...+||||..
T Consensus       182 ~~~l~~ii~~R~~~~~ptiitSNl  205 (248)
T PRK12377        182 QVVLNQIIDRRTASMRSVGMLTNL  205 (248)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEcCC
Confidence             3344444432 223457888865

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.95  E-value=1.7e-05  Score=55.26  Aligned_cols=65  Identities=15%  Similarity=0.125  Sum_probs=50.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce----------------------EEEEEeCCCCCChhhHHHHHhhcccc-CCCcE
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN----------------------FNFALDDTWKEKYVDWTNMRDLFAAV-ASRSK  106 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~  106 (162)
                      -|.|+|..|+||+++|+.++......                      -.++|+|++..+......+...+... ....|
T Consensus        23 pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~~~~l~~a~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~R  102 (138)
T PF14532_consen   23 PVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLPAELLEQAKGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVR  102 (138)
T ss_dssp             -EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTCHHHHHHCTTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSE
T ss_pred             cEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCcHHHHHHcCCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeE
Confidence            45699999999999999998765543                      47789999987888888888887753 45679


Q ss_pred             EEEecCCh
Q 039127          107 VIVTTRNQ  114 (162)
Q Consensus       107 iiiTTR~~  114 (162)
                      +|.||...
T Consensus       103 lI~ss~~~  110 (138)
T PF14532_consen  103 LIASSSQD  110 (138)
T ss_dssp             EEEEECC-
T ss_pred             EEEEeCCC
Confidence            99998754

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.95  E-value=4.5e-05  Score=67.92  Aligned_cols=42  Identities=21%  Similarity=0.257  Sum_probs=31.1

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..++||+.   .+++.|....       ...+.++|.+|+|||++|+.+.++
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~-------~~n~lL~G~pGvGKT~l~~~la~~  217 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRT-------KNNPVLIGEPGVGKTAIVEGLAQR  217 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCC-------CCceEEEcCCCCCHHHHHHHHHHH
Confidence            56899999   5555554433       334558999999999999887765

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.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.95  E-value=5.8e-05  Score=67.20  Aligned_cols=44  Identities=20%  Similarity=0.247  Sum_probs=32.9

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...++||+.   .+++.|....       ...+.++|.+|+|||+||+.+....
T Consensus       177 l~~vigr~~ei~~~i~iL~r~~-------~~n~lL~G~pGvGKT~l~~~la~~i  223 (857)
T PRK10865        177 LDPVIGRDEEIRRTIQVLQRRT-------KNNPVLIGEPGVGKTAIVEGLAQRI  223 (857)
T ss_pred             CCcCCCCHHHHHHHHHHHhcCC-------cCceEEECCCCCCHHHHHHHHHHHh
Confidence            357899999   5555555443       3355699999999999998887654

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.94  E-value=5.1e-05  Score=57.85  Aligned_cols=90  Identities=14%  Similarity=0.207  Sum_probs=57.0

Q ss_pred             CCCceeeehH---HHH---HHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-------------------
Q 039127           21 SVKLWLGREE---GTV---ELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~---~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------   75 (162)
                      ....++|.+.   .++   ..++...      ...-+-+||..|.|||++++.+.+....+                   
T Consensus        25 ~l~~L~Gie~Qk~~l~~Nt~~Fl~G~------pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~l~~l~   98 (249)
T PF05673_consen   25 RLDDLIGIERQKEALIENTEQFLQGL------PANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGDLPELL   98 (249)
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHcCC------CCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhccHHHHH
Confidence            4468889887   222   2233333      34456689999999999999998766554                   


Q ss_pred             ---------EEEEEeCCCCC-ChhhHHHHHhhcccc---CCCc-EEEEecCChhh
Q 039127           76 ---------FNFALDDTWKE-KYVDWTNMRDLFAAV---ASRS-KVIVTTRNQGV  116 (162)
Q Consensus        76 ---------~LlVlDdv~~~-~~~~~~~l~~~l~~~---~~gs-~iiiTTR~~~v  116 (162)
                               |+|.+||+.-. +...+..|+..|..+   .+.. .|..||..+++
T Consensus        99 ~~l~~~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHL  153 (249)
T PF05673_consen   99 DLLRDRPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHL  153 (249)
T ss_pred             HHHhcCCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhc
Confidence                     89999998632 444566676666532   2223 34445544443

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.93  E-value=1.2e-05  Score=55.89  Aligned_cols=48  Identities=19%  Similarity=0.135  Sum_probs=35.6

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce----------------------------------------EEEEEeCCCCCChhh
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN----------------------------------------FNFALDDTWKEKYVD   90 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~----------------------------------------~LlVlDdv~~~~~~~   90 (162)
                      |.++|.+|+|||+||+.++......                                        .+++||+++..+...
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~a~~~v   81 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINRAPPEV   81 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG--HHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcccCCHHH
Confidence            5689999999999999987665433                                        899999998555555


Q ss_pred             HHHHHhhc
Q 039127           91 WTNMRDLF   98 (162)
Q Consensus        91 ~~~l~~~l   98 (162)
                      +..|...+
T Consensus        82 ~~~L~~ll   89 (139)
T PF07728_consen   82 LESLLSLL   89 (139)
T ss_dssp             HHTTHHHH
T ss_pred             HHHHHHHH
Confidence            55555544

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.93  E-value=1.9e-05  Score=58.88  Aligned_cols=35  Identities=14%  Similarity=0.113  Sum_probs=22.7

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN  113 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~  113 (162)
                      .++|+|++.|.+..++..+...   .+.+|+++++--.
T Consensus       121 ~~iIvDEaQN~t~~~~k~ilTR---~g~~skii~~GD~  155 (205)
T PF02562_consen  121 AFIIVDEAQNLTPEELKMILTR---IGEGSKIIITGDP  155 (205)
T ss_dssp             EEEEE-SGGG--HHHHHHHHTT---B-TT-EEEEEE--
T ss_pred             eEEEEecccCCCHHHHHHHHcc---cCCCcEEEEecCc
Confidence            7999999998888877776554   4679999998744

; GO: 0005524 ATP binding; PDB: 3B85_A.

>CHL00176 ftsH cell division protein; Validated

Probab=97.93  E-value=7.7e-05  Score=64.35  Aligned_cols=122  Identities=15%  Similarity=0.074  Sum_probs=71.5

Q ss_pred             CceeeehH------HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-------------------
Q 039127           23 KLWLGREE------GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------   75 (162)
Q Consensus        23 ~~~vGr~~------~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------   75 (162)
                      .++.|.++      ++++.+......  .+....+-+.++|++|.|||+||+.+++.....                   
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~~g~~~~  262 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVGAA  262 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHhhhhhHH
Confidence            56888877      455554433200  011224457899999999999999998754322                   


Q ss_pred             --------------EEEEEeCCCCCC----------hhhHH----HHHhhccc--cCCCcEEEEecCChhhH-h-hhCC-
Q 039127           76 --------------FNFALDDTWKEK----------YVDWT----NMRDLFAA--VASRSKVIVTTRNQGVA-S-IMGT-  122 (162)
Q Consensus        76 --------------~LlVlDdv~~~~----------~~~~~----~l~~~l~~--~~~gs~iiiTTR~~~v~-~-~~~~-  122 (162)
                                    ++|++|+++...          ...+.    .+...+..  ...+-.+|.||...... . ...+ 
T Consensus       263 ~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRpG  342 (638)
T CHL00176        263 RVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPG  342 (638)
T ss_pred             HHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhccc
Confidence                          789999996320          11222    22222221  22344566676554322 1 1221 


Q ss_pred             --CCeeeCCCCCHHHHHHHHhhCC
Q 039127          123 --MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       123 --~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                        ...+.+...+.++-.++|+.++
T Consensus       343 RFd~~I~v~lPd~~~R~~IL~~~l  366 (638)
T CHL00176        343 RFDRQITVSLPDREGRLDILKVHA  366 (638)
T ss_pred             cCceEEEECCCCHHHHHHHHHHHH
Confidence              2467888888888888887664

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.92  E-value=0.00011  Score=58.66  Aligned_cols=68  Identities=4%  Similarity=-0.009  Sum_probs=50.5

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      -++|+|+++..+......|...+..-..++.+|++|.+. .+...+ +.-..+.+.+++.+++...+...
T Consensus       108 kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~  177 (328)
T PRK05707        108 KVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQA  177 (328)
T ss_pred             eEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHh
Confidence            456789999888999999999888755667676666664 443332 33346899999999999888765

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=97.91  E-value=2.1e-05  Score=52.58  Aligned_cols=19  Identities=37%  Similarity=0.321  Sum_probs=16.5

Q ss_pred             EEEEcCCCcchHHHHHHHH
Q 039127           51 IPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~   69 (162)
                      |-|+|.+|+|||+||+.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~   19 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELA   19 (107)
T ss_pred             CEEECCCCCCHHHHHHHHH
Confidence            4589999999999999854

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>PRK10536 hypothetical protein; Provisional

Probab=97.90  E-value=6.3e-05  Score=57.88  Aligned_cols=36  Identities=14%  Similarity=0.049  Sum_probs=26.0

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ  114 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~  114 (162)
                      -++|+|.+.+.+..+...+...   .+.+|++|++--..
T Consensus       178 ~~vIvDEaqn~~~~~~k~~ltR---~g~~sk~v~~GD~~  213 (262)
T PRK10536        178 AVVILDEAQNVTAAQMKMFLTR---LGENVTVIVNGDIT  213 (262)
T ss_pred             CEEEEechhcCCHHHHHHHHhh---cCCCCEEEEeCChh
Confidence            6899999997777665555544   45789999887543

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=97.89  E-value=4.4e-05  Score=59.29  Aligned_cols=123  Identities=15%  Similarity=0.126  Sum_probs=75.6

Q ss_pred             CCCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------
Q 039127           21 SVKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------   75 (162)
                      ...+|+|.++  +-++....... ..+....=+.++|++|.||||||..+++...++                       
T Consensus        24 ~l~efiGQ~~vk~~L~ifI~AAk-~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK~gDlaaiLt~Le  102 (332)
T COG2255          24 TLDEFIGQEKVKEQLQIFIKAAK-KRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEKPGDLAAILTNLE  102 (332)
T ss_pred             cHHHhcChHHHHHHHHHHHHHHH-hcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccChhhHHHHHhcCC
Confidence            4578999999  44444332210 123456677899999999999999999988776                       


Q ss_pred             --EEEEEeCCCCCChhhHHHHHhhcc--------ccCCC-----------cEEEEecCChhhHhhhCCC--CeeeCCCCC
Q 039127           76 --FNFALDDTWKEKYVDWTNMRDLFA--------AVASR-----------SKVIVTTRNQGVASIMGTM--PAYELKKLV  132 (162)
Q Consensus        76 --~LlVlDdv~~~~~~~~~~l~~~l~--------~~~~g-----------s~iiiTTR~~~v~~~~~~~--~~~~l~~L~  132 (162)
                        =.|.+|.++..+...-+-|-..+.        ..+++           .-|=.|||.-.+.+.+...  -..+++--+
T Consensus       103 ~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrdRFGi~~rlefY~  182 (332)
T COG2255         103 EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQRLEFYT  182 (332)
T ss_pred             cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhHHhcCCeeeeecCC
Confidence              467789988654433333322221        01222           2355688876655433221  145677777


Q ss_pred             HHHHHHHHhhCC
Q 039127          133 NDNCLLIFSQHP  144 (162)
Q Consensus       133 ~~~~~~lf~~~a  144 (162)
                      .+|-.++..+.|
T Consensus       183 ~~eL~~Iv~r~a  194 (332)
T COG2255         183 VEELEEIVKRSA  194 (332)
T ss_pred             HHHHHHHHHHHH
Confidence            777777766554

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.89  E-value=1.9e-05  Score=62.45  Aligned_cols=66  Identities=15%  Similarity=0.140  Sum_probs=47.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------EEEEEeCCCCCChhhHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------FNFALDDTWKEKYVDWT   92 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------~LlVlDdv~~~~~~~~~   92 (162)
                      ..-+.++|..|+|||.||.++++....+                                   =||||||+.......|.
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l~~~dlLiIDDiG~e~~s~~~  235 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAVKEAPVLMLDDIGAEQMSSWV  235 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHhcCCCEEEEecCCCccccHHH
Confidence            4568899999999999999998765322                                   58999999765566675


Q ss_pred             H--HHhhc-ccc-CCCcEEEEecCC
Q 039127           93 N--MRDLF-AAV-ASRSKVIVTTRN  113 (162)
Q Consensus        93 ~--l~~~l-~~~-~~gs~iiiTTR~  113 (162)
                      .  +...+ ... ..+..+|+||..
T Consensus       236 ~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        236 RDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             HHHHHHHHHHHHHHCCCeEEEECCC
Confidence            3  44433 322 345668889875

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=4.4e-05  Score=65.62  Aligned_cols=122  Identities=19%  Similarity=0.140  Sum_probs=77.7

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      .+-+|.++   +|++.|--..- ..+-.-++++++|++|+|||+|++.++.....+                        
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l-~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIG  401 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKL-TKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIG  401 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHH-hccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccccccccc
Confidence            45578777   67776632210 122345899999999999999999998665443                        


Q ss_pred             -----------------EEEEEeCCCCCCh----hhHHHHHhhccccCC-------------Cc-EEEEecCChh---hH
Q 039127           76 -----------------FNFALDDTWKEKY----VDWTNMRDLFAAVAS-------------RS-KVIVTTRNQG---VA  117 (162)
Q Consensus        76 -----------------~LlVlDdv~~~~~----~~~~~l~~~l~~~~~-------------gs-~iiiTTR~~~---v~  117 (162)
                                       -+++||.++....    +.-..|+..|....+             =| -+.|+|-|.-   .+
T Consensus       402 amPGrIiQ~mkka~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~tIP~  481 (782)
T COG0466         402 AMPGKIIQGMKKAGVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLDTIPA  481 (782)
T ss_pred             cCChHHHHHHHHhCCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCccccCCh
Confidence                             6899999875321    122233333321111             13 3566665532   24


Q ss_pred             hhhCCCCeeeCCCCCHHHHHHHHhhCCC
Q 039127          118 SIMGTMPAYELKKLVNDNCLLIFSQHPS  145 (162)
Q Consensus       118 ~~~~~~~~~~l~~L~~~~~~~lf~~~af  145 (162)
                      .++..++++++.+-+.+|-.++-+++..
T Consensus       482 PLlDRMEiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         482 PLLDRMEVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             HHhcceeeeeecCCChHHHHHHHHHhcc
Confidence            4566778999999999998888776643

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.85  E-value=0.00025  Score=54.78  Aligned_cols=68  Identities=15%  Similarity=0.127  Sum_probs=41.5

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhcccc----------------CCCcEEEEecCChhhH-------hhhCCCCeeeCCCCC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAV----------------ASRSKVIVTTRNQGVA-------SIMGTMPAYELKKLV  132 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~----------------~~gs~iiiTTR~~~v~-------~~~~~~~~~~l~~L~  132 (162)
                      ..+++|+++..+.+.+..|...+...                .+.-+||+|+......       .....-..+.+...+
T Consensus       107 ~~lllDEi~r~~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g~~~l~~aL~~R~~~i~i~~P~  186 (262)
T TIGR02640       107 FTLVYDEFTRSKPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAGVHETQDALLDRLITIFMDYPD  186 (262)
T ss_pred             CEEEEcchhhCCHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccceecccHHHHhhcEEEECCCCC
Confidence            46888999877777777777665321                1244778887653211       111111246677778


Q ss_pred             HHHHHHHHhhC
Q 039127          133 NDNCLLIFSQH  143 (162)
Q Consensus       133 ~~~~~~lf~~~  143 (162)
                      .++-.+++..+
T Consensus       187 ~~~e~~Il~~~  197 (262)
T TIGR02640       187 IDTETAILRAK  197 (262)
T ss_pred             HHHHHHHHHHh
Confidence            77777777765

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.84  E-value=0.00017  Score=57.60  Aligned_cols=97  Identities=12%  Similarity=0.144  Sum_probs=71.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC--------------------------ce-------------------------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT--------------------------VN-------------------------   75 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~--------------------------~~-------------------------   75 (162)
                      -...+.++|..|+|||++|+.+.+..-                          ..                         
T Consensus        27 l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~~~~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~  106 (329)
T PRK08058         27 LSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIDSGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSG  106 (329)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEeccccccCCHHHHHHHHHHHhhCC
Confidence            356778999999999999987743310                          00                         


Q ss_pred             -----EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 -----FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 -----~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                           -++|+|+++..+......|+..+..-...+.+|++|.+. .+...+ .....+++.+++.++....+...
T Consensus       107 ~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        107 VESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             cccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence                 488999999888888889999988766677677666553 333333 33447999999999998888754

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.83  E-value=9.2e-05  Score=65.91  Aligned_cols=91  Identities=18%  Similarity=0.169  Sum_probs=59.6

Q ss_pred             CceeeehH---HHHHHhhcCCC--CCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc---e-------------------
Q 039127           23 KLWLGREE---GTVELVLKDDS--ETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV---N-------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~---~-------------------   75 (162)
                      ..++|.+.   .+.+.+.....  ........++.++|+.|+|||.||+.+......   .                   
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~~~l~  645 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTVSRLK  645 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhhcccc
Confidence            57788888   45555432110  011234557889999999999999766443210   0                   


Q ss_pred             ------------------------EEEEEeCCCCCChhhHHHHHhhccccC-----------CCcEEEEecCC
Q 039127           76 ------------------------FNFALDDTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRN  113 (162)
Q Consensus        76 ------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~  113 (162)
                                              .+++||++...+++.++.|...+..+.           ..+-||+||..
T Consensus       646 g~~~gyvg~~~~g~L~~~v~~~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNl  718 (852)
T TIGR03345       646 GSPPGYVGYGEGGVLTEAVRRKPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNA  718 (852)
T ss_pred             CCCCCcccccccchHHHHHHhCCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCC
Confidence                                    589999999778888888887776542           34567777654

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

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.83  E-value=2.7e-05  Score=62.07  Aligned_cols=65  Identities=18%  Similarity=0.196  Sum_probs=44.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce-------------------------------------EEEEEeCCCCCChhhH
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN-------------------------------------FNFALDDTWKEKYVDW   91 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------------------------~LlVlDdv~~~~~~~~   91 (162)
                      ..+.++|..|+|||+||..+++....+                                     =||||||+.......|
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~~~DLLIIDDlG~e~~t~~  263 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLLINCDLLIIDDLGTEKITEF  263 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhccCCEEEEeccCCCCCCHH
Confidence            568899999999999999987654221                                     4899999964333333


Q ss_pred             --HHHHhhcccc-CCCcEEEEecCC
Q 039127           92 --TNMRDLFAAV-ASRSKVIVTTRN  113 (162)
Q Consensus        92 --~~l~~~l~~~-~~gs~iiiTTR~  113 (162)
                        ..+...+... ..+..+||||..
T Consensus       264 ~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        264 SKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEECCC
Confidence              3454444432 335568888875

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

Probab=97.81  E-value=0.00019  Score=58.68  Aligned_cols=97  Identities=16%  Similarity=0.097  Sum_probs=60.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-------   86 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-------   86 (162)
                      ..+-+.++|.+|+|||+||+.+++.....                                 .++++|+++..       
T Consensus       178 ~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l~~k~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~  257 (398)
T PTZ00454        178 PPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDA  257 (398)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHHHHhcchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccc
Confidence            35668899999999999999998765432                                 68999997631       


Q ss_pred             ----Chhh---HHHHHhhccc--cCCCcEEEEecCChhhH-h-hhCC---CCeeeCCCCCHHHHHHHHhhC
Q 039127           87 ----KYVD---WTNMRDLFAA--VASRSKVIVTTRNQGVA-S-IMGT---MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        87 ----~~~~---~~~l~~~l~~--~~~gs~iiiTTR~~~v~-~-~~~~---~~~~~l~~L~~~~~~~lf~~~  143 (162)
                          +...   +..+...+..  ...+..+|.||...+.. . ...+   ...+++...+.++...+|+.+
T Consensus       258 ~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~  328 (398)
T PTZ00454        258 QTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTI  328 (398)
T ss_pred             cCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHH
Confidence                0111   1222222221  12345677777664432 1 1221   335888888988888888754

>PRK06921 hypothetical protein; Provisional

Probab=97.80  E-value=4.1e-05  Score=59.32  Aligned_cols=66  Identities=18%  Similarity=0.302  Sum_probs=43.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc----e------------------------------EEEEEeCCCC-----CCh
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV----N------------------------------FNFALDDTWK-----EKY   88 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~----~------------------------------~LlVlDdv~~-----~~~   88 (162)
                      ...+.++|..|+|||+||..+++....    .                              -||||||+..     ...
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~~~~~~~~~~~~~~dlLiIDDl~~~~~g~e~~  196 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDFDLLEAKLNRMKKVEVLFIDDLFKPVNGKPRA  196 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHHHHHHHHHHHhcCCCEEEEeccccccCCCccC
Confidence            456889999999999999998765321    1                              4899999932     122


Q ss_pred             hhHH--HHHhhcccc-CCCcEEEEecCC
Q 039127           89 VDWT--NMRDLFAAV-ASRSKVIVTTRN  113 (162)
Q Consensus        89 ~~~~--~l~~~l~~~-~~gs~iiiTTR~  113 (162)
                      ..|.  .+...+... ..+..+||||..
T Consensus       197 t~~~~~~lf~iin~R~~~~k~tIitsn~  224 (266)
T PRK06921        197 TEWQIEQMYSVLNYRYLNHKPILISSEL  224 (266)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            3443  344444432 234568888865

>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=97.80  E-value=1.7e-05  Score=53.65  Aligned_cols=33  Identities=33%  Similarity=0.319  Sum_probs=26.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCceEEEEEeCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDT   83 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv   83 (162)
                      +|.|.|++|+||||+|+.+...... ..+-+|++
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~~~-~~i~~d~~   33 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERLGF-PVISMDDL   33 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTC-EEEEEHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC-eEEEecce
Confidence            5889999999999999999987543 34577774

...

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.78  E-value=0.00015  Score=64.01  Aligned_cols=121  Identities=16%  Similarity=0.141  Sum_probs=73.6

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      .+.+|.++   .|+++|..... .......++.++|.+|+||||+|+.+.......                        
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~-~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~~~~~~g  400 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSR-VNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGHRRTYIG  400 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHh-cccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccchhccCC
Confidence            45788887   67766653110 011234578899999999999999887543221                        


Q ss_pred             -----------------EEEEEeCCCCCChhh----HHHHHhhcccc---------------CCCcEEEEecCChhhHh-
Q 039127           76 -----------------FNFALDDTWKEKYVD----WTNMRDLFAAV---------------ASRSKVIVTTRNQGVAS-  118 (162)
Q Consensus        76 -----------------~LlVlDdv~~~~~~~----~~~l~~~l~~~---------------~~gs~iiiTTR~~~v~~-  118 (162)
                                       -+++||.++......    ...|...+...               .....+|.|+..-.+.. 
T Consensus       401 ~~~G~~~~~l~~~~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN~~~i~~a  480 (784)
T PRK10787        401 SMPGKLIQKMAKVGVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSNSMNIPAP  480 (784)
T ss_pred             CCCcHHHHHHHhcCCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCCCCCCCHH
Confidence                             368899997543322    34555444321               01223344554333222 


Q ss_pred             hhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          119 IMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       119 ~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ......++++.+++.++-.++.+++.
T Consensus       481 Ll~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        481 LLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             HhcceeeeecCCCCHHHHHHHHHHhh
Confidence            23445579999999999988887765

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.78  E-value=9.1e-05  Score=61.97  Aligned_cols=102  Identities=19%  Similarity=0.229  Sum_probs=66.2

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCc---e-------------------------------EEEEEeCCCCCChhhH
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTV---N-------------------------------FNFALDDTWKEKYVDW   91 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~---~-------------------------------~LlVlDdv~~~~~~~~   91 (162)
                      .....+.+.|.+|+|||+||..++....-   +                               -.+|+||+.  ..-+|
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiE--rLiD~  613 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIE--RLLDY  613 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccCccHHHHHHHHHHHHHHhhcCcceEEEEcchh--hhhcc
Confidence            34566778999999999999998765432   2                               689999997  44333


Q ss_pred             H------------HHHhhcccc-CCCcE--EEEecCChhhHhhhCC----CCeeeCCCCCH-HHHHHHHhhCC-CCCCC
Q 039127           92 T------------NMRDLFAAV-ASRSK--VIVTTRNQGVASIMGT----MPAYELKKLVN-DNCLLIFSQHP-SGTRE  149 (162)
Q Consensus        92 ~------------~l~~~l~~~-~~gs~--iiiTTR~~~v~~~~~~----~~~~~l~~L~~-~~~~~lf~~~a-f~~~~  149 (162)
                      -            .|.-.+... .+|-|  |+-||....+...|+-    ...+++..++. ++..+.++..- |...+
T Consensus       614 vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~~n~fsd~~  692 (744)
T KOG0741|consen  614 VPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEELNIFSDDE  692 (744)
T ss_pred             cccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHHccCCCcch
Confidence            2            222233322 23444  4447777777776653    23688999987 77888877653 55443

>PTZ00202 tuzin; Provisional

Probab=97.74  E-value=0.00011  Score=60.73  Aligned_cols=53  Identities=15%  Similarity=0.219  Sum_probs=37.9

Q ss_pred             cCCCCCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           18 VVPSVKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        18 ~~~~~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++.+.|+||+.  .-+..++.+.   .....+++.|.|++|+|||||++.+.....
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~---d~~~privvLtG~~G~GKTTLlR~~~~~l~  311 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRL---DTAHPRIVVFTGFRGCGKSSLCRSAVRKEG  311 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhcc---CCCCceEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3456789999999  3334444332   112346889999999999999999987665

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.74  E-value=0.00036  Score=62.30  Aligned_cols=91  Identities=14%  Similarity=0.106  Sum_probs=58.1

Q ss_pred             CceeeehH---HHHHHhhcCCC--CCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           23 KLWLGREE---GTVELVLKDDS--ETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ..++|.+.   .+.+.+.....  ...+.....+.++|..|+|||+||+.+++.....                      
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~~~~Li  647 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSVSRLV  647 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhhHHHHh
Confidence            46788888   34444432110  0011223477899999999999999987533110                      


Q ss_pred             ------------------------EEEEEeCCCCCChhhHHHHHhhcccc----C-------CCcEEEEecCC
Q 039127           76 ------------------------FNFALDDTWKEKYVDWTNMRDLFAAV----A-------SRSKVIVTTRN  113 (162)
Q Consensus        76 ------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~----~-------~gs~iiiTTR~  113 (162)
                                              -+|+||++...+...+..|...+..+    +       ..+.||+||..
T Consensus       648 G~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~  720 (857)
T PRK10865        648 GAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNL  720 (857)
T ss_pred             CCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCc
Confidence                                    38999999987888888888777543    1       12336778765

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

Probab=97.71  E-value=0.00031  Score=57.47  Aligned_cols=86  Identities=21%  Similarity=0.214  Sum_probs=67.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce-------------------------------EEEEEeCCCCCChhhHHHHHhhc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN-------------------------------FNFALDDTWKEKYVDWTNMRDLF   98 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------------------~LlVlDdv~~~~~~~~~~l~~~l   98 (162)
                      ++.|.|+-++|||||++.+.......                               ..++||.|.  ....|......+
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l~d~~~~~~~~~~~~~~yifLDEIq--~v~~W~~~lk~l  116 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIELLDLLRAYIELKEREKSYIFLDEIQ--NVPDWERALKYL  116 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhHHHHHHHHHHhhccCCceEEEeccc--CchhHHHHHHHH
Confidence            89999999999999997776555331                               379999999  888899988888


Q ss_pred             cccCCCcEEEEecCChhhHh------hhCCCCeeeCCCCCHHHHHH
Q 039127           99 AAVASRSKVIVTTRNQGVAS------IMGTMPAYELKKLVNDNCLL  138 (162)
Q Consensus        99 ~~~~~gs~iiiTTR~~~v~~------~~~~~~~~~l~~L~~~~~~~  138 (162)
                      ....+. ++++|+-+.....      ..|....+++-|||-.|-..
T Consensus       117 ~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~  161 (398)
T COG1373         117 YDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLK  161 (398)
T ss_pred             Hccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHh
Confidence            876666 8888888765432      22334478999999988865

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.70  E-value=3.4e-05  Score=59.43  Aligned_cols=26  Identities=23%  Similarity=0.239  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..-+.++|.+|+|||.||.++.+...
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l~  130 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNELL  130 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHH
Confidence            44778999999999999999887665

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.70  E-value=5.2e-05  Score=58.05  Aligned_cols=66  Identities=12%  Similarity=0.159  Sum_probs=44.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce-------------------------------------EEEEEeCCCCCChhh
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------------------------FNFALDDTWKEKYVD   90 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------------------------~LlVlDdv~~~~~~~   90 (162)
                      ...+.++|.+|+|||+||..+++.....                                     =+||+||+.......
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l~~~dlLvIDDig~~~~s~  178 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKDTFSNSETSEEQLLNDLSNVDLLVIDEIGVQTESR  178 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHHhccCCEEEEeCCCCCCCCH
Confidence            3467899999999999999887654221                                     579999997555555


Q ss_pred             HHH--HHhhcccc-CCCcEEEEecCC
Q 039127           91 WTN--MRDLFAAV-ASRSKVIVTTRN  113 (162)
Q Consensus        91 ~~~--l~~~l~~~-~~gs~iiiTTR~  113 (162)
                      |+.  +...+... .....+|+||..
T Consensus       179 ~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        179 YEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             HHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            653  33333321 223457888865

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.69  E-value=0.00011  Score=60.74  Aligned_cols=41  Identities=17%  Similarity=0.005  Sum_probs=29.4

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .++++.+.   .++..|....         .+.++|++|+|||++|+.+++..
T Consensus       175 ~d~~i~e~~le~l~~~L~~~~---------~iil~GppGtGKT~lA~~la~~l  218 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIKK---------NIILQGPPGVGKTFVARRLAYLL  218 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcCC---------CEEEECCCCCCHHHHHHHHHHHh
Confidence            34555555   5665555443         67789999999999999987654

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.69  E-value=0.00018  Score=57.02  Aligned_cols=28  Identities=18%  Similarity=0.239  Sum_probs=25.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      -++|.++|++|.|||+|++++++...++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR  204 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIR  204 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheee
Confidence            4788899999999999999999998877

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.68  E-value=9.8e-05  Score=59.20  Aligned_cols=35  Identities=11%  Similarity=0.153  Sum_probs=26.2

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN  113 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~  113 (162)
                      .++|+|.+.|..+.+...+   +...+.||||+.|.--
T Consensus       353 ~FiIIDEaQNLTpheikTi---ltR~G~GsKIVl~gd~  387 (436)
T COG1875         353 SFIIIDEAQNLTPHELKTI---LTRAGEGSKIVLTGDP  387 (436)
T ss_pred             ceEEEehhhccCHHHHHHH---HHhccCCCEEEEcCCH
Confidence            7899999997666655554   4457889999988743

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.67  E-value=0.00055  Score=54.31  Aligned_cols=69  Identities=3%  Similarity=0.064  Sum_probs=50.1

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChhhHhhh-CCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIM-GTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      -++|+|+++..+......|+..+..-.+..-|++|+....+...+ +....+++.+++.++..+.+.+..
T Consensus       126 kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~  195 (314)
T PRK07399        126 KVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLG  195 (314)
T ss_pred             eEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhh
Confidence            688999998888888888888887645444445555544444433 334579999999999999998763

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.66  E-value=0.00025  Score=59.58  Aligned_cols=97  Identities=14%  Similarity=0.046  Sum_probs=58.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCCC-------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKEK-------   87 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~~-------   87 (162)
                      .+-+.++|++|+|||+||+.+++.....                                 .+|++|+++...       
T Consensus        88 ~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~~~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~  167 (495)
T TIGR01241        88 PKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGL  167 (495)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHHHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCc
Confidence            3457799999999999999998765432                                 689999986310       


Q ss_pred             ---hhhHHH----HHhhccc--cCCCcEEEEecCChhh-Hh-hhC---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           88 ---YVDWTN----MRDLFAA--VASRSKVIVTTRNQGV-AS-IMG---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        88 ---~~~~~~----l~~~l~~--~~~gs~iiiTTR~~~v-~~-~~~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                         ...+..    +...+..  ...+-.||.||..... -. ...   -...+++...+.++-.++|+.+.
T Consensus       168 ~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l  238 (495)
T TIGR01241       168 GGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHA  238 (495)
T ss_pred             CCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHH
Confidence               111222    2222221  1223455666655432 11 111   23468899889888888887654

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=97.66  E-value=0.00012  Score=52.96  Aligned_cols=65  Identities=15%  Similarity=0.128  Sum_probs=46.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce---------------------------------------------EEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------------------FNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------------------~LlVlDdv~   84 (162)
                      -|.|+|..|.||+.+|+.+++.....                                             =-|+||++.
T Consensus        24 pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~~~~~~~~~~~~~G~l~~A~~GtL~Ld~I~  103 (168)
T PF00158_consen   24 PVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESELFGHEKGAFTGARSDKKGLLEQANGGTLFLDEIE  103 (168)
T ss_dssp             -EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBCSSSSTTTSSEBEHHHHHTTTSEEEEETGG
T ss_pred             CEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhccccccccccccccCCceeeccceEEeecchh
Confidence            44599999999999999999865432                                             368899999


Q ss_pred             CCChhhHHHHHhhcccc---CC--------CcEEEEecCCh
Q 039127           85 KEKYVDWTNMRDLFAAV---AS--------RSKVIVTTRNQ  114 (162)
Q Consensus        85 ~~~~~~~~~l~~~l~~~---~~--------gs~iiiTTR~~  114 (162)
                      .........|...+..+   ..        ..|||.||...
T Consensus       104 ~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~st~~~  144 (168)
T PF00158_consen  104 DLPPELQAKLLRVLEEGKFTRLGSDKPVPVDVRIIASTSKD  144 (168)
T ss_dssp             GS-HHHHHHHHHHHHHSEEECCTSSSEEE--EEEEEEESS-
T ss_pred             hhHHHHHHHHHHHHhhchhccccccccccccceEEeecCcC
Confidence            87788888887776532   11        34788877653

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PHA02244 ATPase-like protein

Probab=97.66  E-value=0.00026  Score=57.15  Aligned_cols=64  Identities=16%  Similarity=0.099  Sum_probs=44.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce-----------------------------------EEEEEeCCCCCChhhHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------FNFALDDTWKEKYVDWTNM   94 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------~LlVlDdv~~~~~~~~~~l   94 (162)
                      -|.|+|.+|+|||+||+.+++.....                                   .+++||++.....+....|
T Consensus       121 PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~dgpLl~A~~~GgvLiLDEId~a~p~vq~~L  200 (383)
T PHA02244        121 PVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHETPFYEAFKKGGLFFIDEIDASIPEALIII  200 (383)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccchHHHHHhhcCCEEEEeCcCcCCHHHHHHH
Confidence            35689999999999999987543311                                   5889999986666665555


Q ss_pred             Hhhccc-----------cCCCcEEEEecCC
Q 039127           95 RDLFAA-----------VASRSKVIVTTRN  113 (162)
Q Consensus        95 ~~~l~~-----------~~~gs~iiiTTR~  113 (162)
                      ...+..           .+++.++|+|+..
T Consensus       201 ~~lLd~r~l~l~g~~i~~h~~FRlIATsN~  230 (383)
T PHA02244        201 NSAIANKFFDFADERVTAHEDFRVISAGNT  230 (383)
T ss_pred             HHHhccCeEEecCcEEecCCCEEEEEeeCC
Confidence            555421           2345678888765

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.65  E-value=0.0003  Score=54.27  Aligned_cols=123  Identities=15%  Similarity=0.059  Sum_probs=76.2

Q ss_pred             CCceeeehH-----HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce---------------------
Q 039127           22 VKLWLGREE-----GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------   75 (162)
Q Consensus        22 ~~~~vGr~~-----~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------   75 (162)
                      -++++|.++     .++-..+.+.+.-++...+-|..+|++|.|||.+|+++.+..++.                     
T Consensus       120 ~ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVGdgar~I  199 (368)
T COG1223         120 LDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVGDGARRI  199 (368)
T ss_pred             HhhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhhhHHHHH
Confidence            368899988     344333433322244456788899999999999999999998876                     


Q ss_pred             ------------EEEEEeCCCCC------------ChhhHHHHHhhccc--cCCCcEEEEecCChhhHhh-hCC--CCee
Q 039127           76 ------------FNFALDDTWKE------------KYVDWTNMRDLFAA--VASRSKVIVTTRNQGVASI-MGT--MPAY  126 (162)
Q Consensus        76 ------------~LlVlDdv~~~------------~~~~~~~l~~~l~~--~~~gs~iiiTTR~~~v~~~-~~~--~~~~  126 (162)
                                  |++.+|.++-.            -.+....|+..+..  ...|-..|..|.+..+... +.+  ..-+
T Consensus       200 hely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiRsRFEeEI  279 (368)
T COG1223         200 HELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIRSRFEEEI  279 (368)
T ss_pred             HHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHHhhhhhee
Confidence                        88889977521            01222334444432  2345555666666554322 221  1235


Q ss_pred             eCCCCCHHHHHHHHhhCC
Q 039127          127 ELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       127 ~l~~L~~~~~~~lf~~~a  144 (162)
                      +..--++++-.+++...+
T Consensus       280 EF~LP~~eEr~~ile~y~  297 (368)
T COG1223         280 EFKLPNDEERLEILEYYA  297 (368)
T ss_pred             eeeCCChHHHHHHHHHHH
Confidence            555567888888887654

>PRK08118 topology modulation protein; Reviewed

Probab=97.65  E-value=3.8e-05  Score=55.43  Aligned_cols=26  Identities=35%  Similarity=0.463  Sum_probs=22.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .|.|+|++|+||||||+.+++.....
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~   28 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIP   28 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            57899999999999999999886543

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.64  E-value=0.00023  Score=63.44  Aligned_cols=91  Identities=12%  Similarity=0.092  Sum_probs=59.6

Q ss_pred             CceeeehH---HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ..++|.+.   .+.+.+......  .......++.++|..|+|||++|+.+.......                      
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~~~l~  644 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSVARLI  644 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchHHHhc
Confidence            46788877   444444332100  011224567799999999999999987532100                      


Q ss_pred             ------------------------EEEEEeCCCCCChhhHHHHHhhcccc-----------CCCcEEEEecCC
Q 039127           76 ------------------------FNFALDDTWKEKYVDWTNMRDLFAAV-----------ASRSKVIVTTRN  113 (162)
Q Consensus        76 ------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iiiTTR~  113 (162)
                                              .+++||++...+++.+..|...+..+           ...+-||+||..
T Consensus       645 g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~  717 (852)
T TIGR03346       645 GAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNL  717 (852)
T ss_pred             CCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCc
Confidence                                    38999999988888999888877543           123447777765

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.

>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=97.63  E-value=0.00021  Score=49.54  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=21.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +|.++|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            578999999999999999986654

...

>TIGR00763 lon ATP-dependent protease La

Probab=97.63  E-value=0.00023  Score=62.83  Aligned_cols=120  Identities=15%  Similarity=0.117  Sum_probs=67.5

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      .+++|.+.   .+.+++..... .......++.++|++|+|||++|+.+.+.....                        
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~-~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~~~~~g  398 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKL-RGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHRRTYVG  398 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHh-hcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCCCceeC
Confidence            35778777   45554321110 011233578899999999999999987654211                        


Q ss_pred             -----------------EEEEEeCCCCCCh----hhHHHHHhhccc--------c-------CCCcEEEEecCChh-h-H
Q 039127           76 -----------------FNFALDDTWKEKY----VDWTNMRDLFAA--------V-------ASRSKVIVTTRNQG-V-A  117 (162)
Q Consensus        76 -----------------~LlVlDdv~~~~~----~~~~~l~~~l~~--------~-------~~gs~iiiTTR~~~-v-~  117 (162)
                                       -+++||.++....    +....|...+..        .       .....+|.||.... + .
T Consensus       399 ~~~g~i~~~l~~~~~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN~~~~i~~  478 (775)
T TIGR00763       399 AMPGRIIQGLKKAKTKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANSIDTIPR  478 (775)
T ss_pred             CCCchHHHHHHHhCcCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecCCchhCCH
Confidence                             3788999874322    112333333321        0       01223344443322 1 1


Q ss_pred             hhhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          118 SIMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       118 ~~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .......++++.+++.++-..+++++
T Consensus       479 ~L~~R~~vi~~~~~~~~e~~~I~~~~  504 (775)
T TIGR00763       479 PLLDRMEVIELSGYTEEEKLEIAKKY  504 (775)
T ss_pred             HHhCCeeEEecCCCCHHHHHHHHHHH
Confidence            22334457899999999888888654

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.63  E-value=0.00011  Score=55.18  Aligned_cols=61  Identities=25%  Similarity=0.299  Sum_probs=44.3

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce--EEEEEeCCCC-----------------CChhhHHHHHhhccccCCCcE
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN--FNFALDDTWK-----------------EKYVDWTNMRDLFAAVASRSK  106 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--~LlVlDdv~~-----------------~~~~~~~~l~~~l~~~~~gs~  106 (162)
                      ..+.+|+|-|.+|+||||+|+.++......  .++-+||...                 .+...|+.+...+..-..|..
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~~~~~~~I~~D~YYk~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L~~g~~   85 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLGVEKVVVISLDDYYKDQSHLPFEERNKINYDHPEAFDLDLLIEHLKDLKQGKP   85 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhCcCcceEeeccccccchhhcCHhhcCCcCccChhhhcHHHHHHHHHHHHcCCc
Confidence            457899999999999999999999988755  6777787643                 133456666666655444544

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.62  E-value=0.00031  Score=58.91  Aligned_cols=98  Identities=16%  Similarity=0.112  Sum_probs=61.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-------   86 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-------   86 (162)
                      ..+-+.++|++|.|||.+|+.+.+.....                                 +++.+|+++..       
T Consensus       258 ~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~~~~vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~  337 (489)
T CHL00195        258 TPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESK  337 (489)
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhcccccChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCC
Confidence            34567899999999999999998875432                                 78999998621       


Q ss_pred             -Chhh----HHHHHhhccccCCCcEEEEecCChhh-Hhh-hC---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 -KYVD----WTNMRDLFAAVASRSKVIVTTRNQGV-ASI-MG---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 -~~~~----~~~l~~~l~~~~~gs~iiiTTR~~~v-~~~-~~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                       +...    ...+...+.....+-.||.||.+... -.. ..   -+..+.+..-+.++-.++|+.+.
T Consensus       338 ~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l  405 (489)
T CHL00195        338 GDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHL  405 (489)
T ss_pred             CCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHH
Confidence             0111    11222222222333345667765432 111 11   23468888889999999998664

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.61  E-value=0.00017  Score=60.46  Aligned_cols=117  Identities=14%  Similarity=0.124  Sum_probs=82.3

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHc---cCC-ce-------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYN---DKT-VN-------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~---~~~-~~-------------------   75 (162)
                      -++++|.+.   .+.+.+....      -.......|.-|+||||+|+.+..   +.. ..                   
T Consensus        15 F~evvGQe~v~~~L~nal~~~r------i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~   88 (515)
T COG2812          15 FDDVVGQEHVVKTLSNALENGR------IAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLI   88 (515)
T ss_pred             HHHhcccHHHHHHHHHHHHhCc------chhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhHhhhcCCcc
Confidence            356799999   4555554443      345677889999999999988753   221 11                   


Q ss_pred             --------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcE-EEEecCChhhHhh-hC
Q 039127           76 --------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSK-VIVTTRNQGVASI-MG  121 (162)
Q Consensus        76 --------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~-iiiTTR~~~v~~~-~~  121 (162)
                                                      =.+|+|.|+..+...|..|+..+..-...-. |+.||-.+.+... ..
T Consensus        89 DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlS  168 (515)
T COG2812          89 DVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILS  168 (515)
T ss_pred             cchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhh
Confidence                                            4889999998889999999988876544544 4556655555443 34


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      .-+.|.+..|+.++-...+...+
T Consensus       169 Rcq~f~fkri~~~~I~~~L~~i~  191 (515)
T COG2812         169 RCQRFDFKRLDLEEIAKHLAAIL  191 (515)
T ss_pred             ccccccccCCCHHHHHHHHHHHH
Confidence            44579999999988887776654

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=97.61  E-value=6.2e-05  Score=58.24  Aligned_cols=36  Identities=28%  Similarity=0.403  Sum_probs=29.5

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce----EEEEEe
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN----FNFALD   81 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----~LlVlD   81 (162)
                      .....+.++||+|+||||+.+.++.+...+    |.+-||
T Consensus        17 ~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLD   56 (366)
T KOG1532|consen   17 QRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLD   56 (366)
T ss_pred             cCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCC
Confidence            345677788999999999999998776554    888888

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.59  E-value=0.00038  Score=61.86  Aligned_cols=78  Identities=12%  Similarity=0.061  Sum_probs=52.0

Q ss_pred             CceeeehH---HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCc---e-------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV---N-------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~---~-------------------   75 (162)
                      ..++|.+.   .+.+.+......  ..+.....+.++|+.|+|||+||+.+.+....   .                   
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~  588 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLI  588 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccHHHhc
Confidence            56788888   444444321100  01223446678999999999999887653210   0                   


Q ss_pred             ------------------------EEEEEeCCCCCChhhHHHHHhhccc
Q 039127           76 ------------------------FNFALDDTWKEKYVDWTNMRDLFAA  100 (162)
Q Consensus        76 ------------------------~LlVlDdv~~~~~~~~~~l~~~l~~  100 (162)
                                              .+++||+++..+++.+..|...+..
T Consensus       589 g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~  637 (821)
T CHL00095        589 GSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDD  637 (821)
T ss_pred             CCCCcccCcCccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhcc
Confidence                                    5889999998888888888887764

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.59  E-value=0.00032  Score=61.72  Aligned_cols=78  Identities=13%  Similarity=0.115  Sum_probs=52.6

Q ss_pred             CceeeehH---HHHHHhhcCCC--CCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           23 KLWLGREE---GTVELVLKDDS--ETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ..++|.++   .+.+.+.....  .........+.++|+.|+|||+||+.+.......                      
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~  537 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAP  537 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCC
Confidence            46889888   44444432100  0112234568899999999999998886544211                      


Q ss_pred             ---------------------EEEEEeCCCCCChhhHHHHHhhccc
Q 039127           76 ---------------------FNFALDDTWKEKYVDWTNMRDLFAA  100 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~~~~~~~~l~~~l~~  100 (162)
                                           .+++||+++..+.+.+..|...+..
T Consensus       538 ~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~~v~~~LLq~ld~  583 (758)
T PRK11034        538 PGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNLLLQVMDN  583 (758)
T ss_pred             CCcccccccchHHHHHHhCCCcEEEeccHhhhhHHHHHHHHHHHhc
Confidence                                 5899999998778888888877653

>PRK08233 hypothetical protein; Provisional

Probab=97.57  E-value=0.00011  Score=52.96  Aligned_cols=36  Identities=19%  Similarity=0.191  Sum_probs=28.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDT   83 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv   83 (162)
                      ..+|+|.|.+|+||||||..+........++.+|+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~~~~~~~~d~~   38 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLKNSKALYFDRY   38 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCCCCceEEECCE
Confidence            468999999999999999999987653345555654

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.56  E-value=0.0003  Score=59.18  Aligned_cols=97  Identities=15%  Similarity=0.070  Sum_probs=60.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc-----------------------------------------------eEEEEE
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV-----------------------------------------------NFNFAL   80 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~-----------------------------------------------~~LlVl   80 (162)
                      .+-+.++|++|+|||++|+.+++....                                               .++++|
T Consensus       216 p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfI  295 (512)
T TIGR03689       216 PKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFF  295 (512)
T ss_pred             CcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEE
Confidence            456789999999999999998875310                                               058999


Q ss_pred             eCCCCC----C---hhh-----HHHHHhhcccc--CCCcEEEEecCChhhHh-h-hC--C-CCeeeCCCCCHHHHHHHHh
Q 039127           81 DDTWKE----K---YVD-----WTNMRDLFAAV--ASRSKVIVTTRNQGVAS-I-MG--T-MPAYELKKLVNDNCLLIFS  141 (162)
Q Consensus        81 Ddv~~~----~---~~~-----~~~l~~~l~~~--~~gs~iiiTTR~~~v~~-~-~~--~-~~~~~l~~L~~~~~~~lf~  141 (162)
                      |+++..    .   ...     ...+...+...  ..+..||.||....... . ..  . +..+++...+.++..++|.
T Consensus       296 DEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~  375 (512)
T TIGR03689       296 DEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFS  375 (512)
T ss_pred             ehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHH
Confidence            999731    0   111     12333333321  12344555665443321 1 22  1 2358999999999999998


Q ss_pred             hCC
Q 039127          142 QHP  144 (162)
Q Consensus       142 ~~a  144 (162)
                      ++.
T Consensus       376 ~~l  378 (512)
T TIGR03689       376 KYL  378 (512)
T ss_pred             HHh
Confidence            763

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=97.54  E-value=0.0013  Score=55.70  Aligned_cols=88  Identities=10%  Similarity=0.030  Sum_probs=58.5

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ....++|...   ++.+.+..-.     ..-.-|.|+|..|+|||++|+.+++.....                      
T Consensus       194 ~~~~liG~s~~~~~~~~~~~~~a-----~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~~~~~~~lf  268 (534)
T TIGR01817       194 KEDGIIGKSPAMRQVVDQARVVA-----RSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESELF  268 (534)
T ss_pred             ccCceEECCHHHHHHHHHHHHHh-----CcCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCHHHHHHHHc
Confidence            3468899988   4444433222     112345699999999999999998653211                      


Q ss_pred             -----------------------EEEEEeCCCCCChhhHHHHHhhccccC---C--------CcEEEEecCC
Q 039127           76 -----------------------FNFALDDTWKEKYVDWTNMRDLFAAVA---S--------RSKVIVTTRN  113 (162)
Q Consensus        76 -----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~---~--------gs~iiiTTR~  113 (162)
                                             -.|+||++.......+..|...+..+.   .        ..++|.||..
T Consensus       269 g~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~  340 (534)
T TIGR01817       269 GHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNR  340 (534)
T ss_pred             CCCCCccCCCCcCCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCC
Confidence                                   148899998777888888887775421   1        2378887754

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>PHA00729 NTP-binding motif containing protein

Probab=97.53  E-value=0.0021  Score=48.67  Aligned_cols=25  Identities=48%  Similarity=0.549  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+.|.|.+|+||||||..+.+..
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHHH
Confidence            5678899999999999999987763

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=97.52  E-value=0.00015  Score=55.08  Aligned_cols=72  Identities=18%  Similarity=0.186  Sum_probs=50.4

Q ss_pred             CCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc----e--------------------
Q 039127           22 VKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV----N--------------------   75 (162)
Q Consensus        22 ~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~----~--------------------   75 (162)
                      ..++||-++  +.+..+..+.      +.+-+.|.|++|+||||-+..+++..-.    .                    
T Consensus        26 l~dIVGNe~tv~rl~via~~g------nmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~I   99 (333)
T KOG0991|consen   26 LQDIVGNEDTVERLSVIAKEG------NMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKI   99 (333)
T ss_pred             HHHhhCCHHHHHHHHHHHHcC------CCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHH
Confidence            368899988  4444444443      6788889999999999955444333211    1                    


Q ss_pred             ---------------EEEEEeCCCCCChhhHHHHHhhcc
Q 039127           76 ---------------FNFALDDTWKEKYVDWTNMRDLFA   99 (162)
Q Consensus        76 ---------------~LlVlDdv~~~~~~~~~~l~~~l~   99 (162)
                                     -++|||..++........++....
T Consensus       100 K~FAQ~kv~lp~grhKIiILDEADSMT~gAQQAlRRtME  138 (333)
T KOG0991|consen  100 KMFAQKKVTLPPGRHKIIILDEADSMTAGAQQALRRTME  138 (333)
T ss_pred             HHHHHhhccCCCCceeEEEeeccchhhhHHHHHHHHHHH
Confidence                           689999999877777777776554

>PRK06696 uridine kinase; Validated

Probab=97.52  E-value=0.00013  Score=54.86  Aligned_cols=50  Identities=22%  Similarity=0.131  Sum_probs=35.9

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce--EEEE--EeCCC
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN--FNFA--LDDTW   84 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--~LlV--lDdv~   84 (162)
                      +|.+.+....    .....+|+|.|.+|+||||||+.+.......  ..++  +||..
T Consensus         9 ~la~~~~~~~----~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~   62 (223)
T PRK06696          9 ELAEHILTLN----LTRPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFH   62 (223)
T ss_pred             HHHHHHHHhC----CCCceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecccccc
Confidence            5666666432    2357899999999999999999998765322  2333  78876

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.52  E-value=0.0017  Score=51.79  Aligned_cols=68  Identities=1%  Similarity=-0.022  Sum_probs=51.2

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      -++|+|+++..+......|+..+..-.....+|++|.+ ..+...+ +.-..+.+.+++.++....+...
T Consensus       109 KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~~~~~~L~~~  178 (325)
T PRK06871        109 KVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDWLQAQ  178 (325)
T ss_pred             eEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHHHHHHHHHHH
Confidence            47889999988888999999998876667766666655 3444333 33347999999999998888764

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=97.51  E-value=0.00035  Score=58.21  Aligned_cols=25  Identities=32%  Similarity=0.264  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|+.|+||||||+.+..-..
T Consensus       363 ~~lgIIGPSgSGKSTLaR~lvG~w~  387 (580)
T COG4618         363 EALGIIGPSGSGKSTLARLLVGIWP  387 (580)
T ss_pred             ceEEEECCCCccHHHHHHHHHcccc
Confidence            4889999999999999999966543

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.51  E-value=0.00071  Score=51.15  Aligned_cols=27  Identities=30%  Similarity=0.397  Sum_probs=23.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      -+-+|.|+.|+||||||..+..++.-+
T Consensus        31 EvhaiMGPNGsGKSTLa~~i~G~p~Y~   57 (251)
T COG0396          31 EVHAIMGPNGSGKSTLAYTIMGHPKYE   57 (251)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCce
Confidence            477899999999999999999887544

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.51  E-value=0.00045  Score=50.92  Aligned_cols=28  Identities=18%  Similarity=0.263  Sum_probs=24.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      -..+.++|..|.|||||.+.+|...+..
T Consensus        28 Gef~fl~GpSGAGKSTllkLi~~~e~pt   55 (223)
T COG2884          28 GEFVFLTGPSGAGKSTLLKLIYGEERPT   55 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhhcCC
Confidence            4578899999999999999999887654

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.50  E-value=0.00018  Score=53.24  Aligned_cols=62  Identities=18%  Similarity=0.132  Sum_probs=41.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc---e----------------------------------------------EEEE
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV---N----------------------------------------------FNFA   79 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~---~----------------------------------------------~LlV   79 (162)
                      ++..|.|.+|.|||+++..+......   +                                              -++|
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~~~~~~~~~~~~~~~vli   98 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIPNGDDEGRPELPKKDVLI   98 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEECCEECCSSCC-TSTSEEE
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCCcccccccccCCcccEEE
Confidence            57788999999999999876543322   1                                              4799


Q ss_pred             EeCCCCCChhhHHHHHhhccccCCCcEEEEecC
Q 039127           80 LDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTR  112 (162)
Q Consensus        80 lDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR  112 (162)
                      +|++...+...+..+......  .|+++|+.-=
T Consensus        99 VDEasmv~~~~~~~ll~~~~~--~~~klilvGD  129 (196)
T PF13604_consen   99 VDEASMVDSRQLARLLRLAKK--SGAKLILVGD  129 (196)
T ss_dssp             ESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-
T ss_pred             EecccccCHHHHHHHHHHHHh--cCCEEEEECC
Confidence            999986667777777666553  4667776543

>PRK07261 topology modulation protein; Provisional

Probab=97.48  E-value=8e-05  Score=53.90  Aligned_cols=25  Identities=36%  Similarity=0.458  Sum_probs=21.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .|.|+|++|+||||||+.+......
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~   26 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNC   26 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999876543

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.46  E-value=0.00035  Score=60.38  Aligned_cols=55  Identities=15%  Similarity=0.080  Sum_probs=40.8

Q ss_pred             CCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------EEEEEeCCCCCChh
Q 039127           45 DGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------FNFALDDTWKEKYV   89 (162)
Q Consensus        45 ~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------~LlVlDdv~~~~~~   89 (162)
                      .+.-+++-++|++|+||||||..++++..-+                                   ..||+|.++.....
T Consensus       323 RP~kKilLL~GppGlGKTTLAHViAkqaGYsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~~~  402 (877)
T KOG1969|consen  323 RPPKKILLLCGPPGLGKTTLAHVIAKQAGYSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAPRA  402 (877)
T ss_pred             CCccceEEeecCCCCChhHHHHHHHHhcCceEEEecccccccHHHHHHHHHHHHhhccccccCCCcceEEEecccCCcHH
Confidence            3456788999999999999999998776543                                   56899999865544


Q ss_pred             hHHHHHhhcc
Q 039127           90 DWTNMRDLFA   99 (162)
Q Consensus        90 ~~~~l~~~l~   99 (162)
                      ..+.++..+.
T Consensus       403 ~Vdvilslv~  412 (877)
T KOG1969|consen  403 AVDVILSLVK  412 (877)
T ss_pred             HHHHHHHHHH
Confidence            5555554443

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.45  E-value=9.1e-05  Score=50.13  Aligned_cols=22  Identities=41%  Similarity=0.434  Sum_probs=19.9

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.|.|..|+||||+|+.+....
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999998874

...

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.44  E-value=0.00012  Score=58.85  Aligned_cols=51  Identities=14%  Similarity=0.161  Sum_probs=38.0

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|.++   ++++++..... ..+...+++.++|++|+||||||+.+.+....
T Consensus        51 ~~~~G~~~~i~~lv~~l~~~a~-g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       51 HDFFGMEEAIERFVNYFKSAAQ-GLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             hhccCcHHHHHHHHHHHHHHHh-cCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            38999988   77777755330 11235688999999999999999998766543

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

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

Probab=97.44  E-value=0.00045  Score=57.16  Aligned_cols=97  Identities=16%  Similarity=0.078  Sum_probs=60.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC--------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE--------   86 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~--------   86 (162)
                      ..-+.++|.+|+|||++|+.+++.....                                 .+++||+++..        
T Consensus       217 p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~  296 (438)
T PTZ00361        217 PKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDAT  296 (438)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhhhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCC
Confidence            4567799999999999999998765432                                 57888886521        


Q ss_pred             ---ChhhHH---HHHhhccc--cCCCcEEEEecCChhhHhh-h-CC---CCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 ---KYVDWT---NMRDLFAA--VASRSKVIVTTRNQGVASI-M-GT---MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 ---~~~~~~---~l~~~l~~--~~~gs~iiiTTR~~~v~~~-~-~~---~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                         +.+...   .+...+..  ...+..||.||...+.... + ..   ...+++...+.++..++|..+.
T Consensus       297 sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~  367 (438)
T PTZ00361        297 SGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHT  367 (438)
T ss_pred             CcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHH
Confidence               011111   12222211  1234567777766443322 1 11   2368899999999999998654

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=97.42  E-value=0.00087  Score=53.52  Aligned_cols=64  Identities=14%  Similarity=0.085  Sum_probs=45.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce---------------------------------------------EEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------------------FNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------------------~LlVlDdv~   84 (162)
                      -|.|+|..|+||+++|+.+++.....                                             =.|+||++.
T Consensus        24 pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~lfG~~~g~~~ga~~~~~G~~~~a~gGtL~Ldei~  103 (329)
T TIGR02974        24 PVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAGAFTGAQKRHQGRFERADGGTLFLDELA  103 (329)
T ss_pred             CEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHHHhccccccccCcccccCCchhhCCCCEEEeCChH
Confidence            45699999999999999987543211                                             137899998


Q ss_pred             CCChhhHHHHHhhccccC-----------CCcEEEEecCC
Q 039127           85 KEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRN  113 (162)
Q Consensus        85 ~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~  113 (162)
                      ..+......|...+....           ...+||.||..
T Consensus       104 ~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~at~~  143 (329)
T TIGR02974       104 TASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNA  143 (329)
T ss_pred             hCCHHHHHHHHHHHHcCcEEecCCCceeccceEEEEechh
Confidence            777788888877765321           12377877744

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.41  E-value=0.0042  Score=50.30  Aligned_cols=51  Identities=16%  Similarity=0.113  Sum_probs=37.6

Q ss_pred             CCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           22 VKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        22 ~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+.+.+|+.  ..+..|+.+.   ...-.+.+.|+|..|.|||.+.+.+.+.....
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~---~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~   57 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNN---SCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE   57 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCC---CcccceeEEEeccCCCchhHHHHHHHhhcCCc
Confidence            467889998  5556666655   12234556899999999999999999877433

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.41  E-value=0.0031  Score=50.20  Aligned_cols=68  Identities=6%  Similarity=0.055  Sum_probs=51.0

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      -.+|+|+++..+......|+..+..-.+++.+|++|.+ ..+...+ +.-..+.+.+++.++..+.+...
T Consensus       110 kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~  179 (319)
T PRK06090        110 RLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQ  179 (319)
T ss_pred             eEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHc
Confidence            48889999988888999999998876666766665554 4454444 33347899999999999888764

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=97.41  E-value=0.0011  Score=58.12  Aligned_cols=79  Identities=14%  Similarity=0.106  Sum_probs=55.1

Q ss_pred             CceeeehH---HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ..++|.+.   .+.+.+.....-  ..+....+....|+.|+|||.||+.+.......                      
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLI  570 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLI  570 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHh
Confidence            57899988   444443322100  123445677789999999999998886654421                      


Q ss_pred             ------------------------EEEEEeCCCCCChhhHHHHHhhcccc
Q 039127           76 ------------------------FNFALDDTWKEKYVDWTNMRDLFAAV  101 (162)
Q Consensus        76 ------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~  101 (162)
                                              ..+.||.+....++-++-|...|..+
T Consensus       571 GaPPGYVGyeeGG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDdG  620 (786)
T COG0542         571 GAPPGYVGYEEGGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDDG  620 (786)
T ss_pred             CCCCCCceeccccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcCC
Confidence                                    58888999987888888888888653

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.38  E-value=0.00055  Score=53.73  Aligned_cols=51  Identities=16%  Similarity=0.162  Sum_probs=36.1

Q ss_pred             CCCCceeeehH-----HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           20 PSVKLWLGREE-----GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        20 ~~~~~~vGr~~-----~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -..+.|+|...     +.++.|+...   .....+-+.|+|-+|.|||++++++.....
T Consensus        31 i~~~rWIgY~~A~~~L~~L~~Ll~~P---~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp   86 (302)
T PF05621_consen   31 IRADRWIGYPRAKEALDRLEELLEYP---KRHRMPNLLIVGDSNNGKTMIIERFRRLHP   86 (302)
T ss_pred             HhcCCeecCHHHHHHHHHHHHHHhCC---cccCCCceEEecCCCCcHHHHHHHHHHHCC
Confidence            34678999877     3344444433   234456788999999999999999885543

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK07667 uridine kinase; Provisional

Probab=97.37  E-value=0.00029  Score=51.96  Aligned_cols=48  Identities=23%  Similarity=0.337  Sum_probs=33.4

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----EEEEEeCC
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----FNFALDDT   83 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----~LlVlDdv   83 (162)
                      ++++.+....     +...+|+|.|.+|+||||+|+.+.......    .++=+||.
T Consensus         5 ~~~~~~~~~~-----~~~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd~   56 (193)
T PRK07667          5 ELINIMKKHK-----ENRFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDDY   56 (193)
T ss_pred             HHHHHHHhcC-----CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCcc
Confidence            3454454433     455899999999999999999998754321    45566764

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.34  E-value=0.0012  Score=58.12  Aligned_cols=96  Identities=16%  Similarity=0.042  Sum_probs=59.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC--------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE--------   86 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~--------   86 (162)
                      .+-+.++|++|+|||+||+.+++.....                                 .++++|+++..        
T Consensus       487 ~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~~~vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~  566 (733)
T TIGR01243       487 PKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARF  566 (733)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhhcccCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCC
Confidence            3457899999999999999998765432                                 78999998621        


Q ss_pred             Ch----hhHHHHHhhccc--cCCCcEEEEecCChhhH-hh-hC---CCCeeeCCCCCHHHHHHHHhhC
Q 039127           87 KY----VDWTNMRDLFAA--VASRSKVIVTTRNQGVA-SI-MG---TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        87 ~~----~~~~~l~~~l~~--~~~gs~iiiTTR~~~v~-~~-~~---~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      +.    .....+...+..  ...+-.||.||...+.. .. ..   -...+.+...+.++-.++|+.+
T Consensus       567 ~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~  634 (733)
T TIGR01243       567 DTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIH  634 (733)
T ss_pred             CccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHH
Confidence            00    112223333332  12233455566554432 11 21   2346888889999989998754

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=97.33  E-value=0.00018  Score=52.94  Aligned_cols=24  Identities=38%  Similarity=0.369  Sum_probs=21.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +|+|.|.+|+||||||+.+.....
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~   24 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILN   24 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            689999999999999999877654

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 ....

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.32  E-value=0.001  Score=57.63  Aligned_cols=121  Identities=18%  Similarity=0.145  Sum_probs=72.2

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      .+-+|.++   +|++.+--..- .++.+-++++.+|++|+|||++|+.++.....+                        
T Consensus       411 eDHYgm~dVKeRILEfiAV~kL-rgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHRRTYVG  489 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKL-RGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVG  489 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhh-cccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhcccceeeec
Confidence            45678877   67776632210 133467899999999999999999997655433                        


Q ss_pred             -----------------EEEEEeCCCCCC----hhhHHHHHhhc------------ccc-CCCcEE-EEecCCh--hh-H
Q 039127           76 -----------------FNFALDDTWKEK----YVDWTNMRDLF------------AAV-ASRSKV-IVTTRNQ--GV-A  117 (162)
Q Consensus        76 -----------------~LlVlDdv~~~~----~~~~~~l~~~l------------~~~-~~gs~i-iiTTR~~--~v-~  117 (162)
                                       -|+.+|.|+...    -+.-..|+..|            .+- --=|+| .|.|-|.  .+ .
T Consensus       490 AMPGkiIq~LK~v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN~idtIP~  569 (906)
T KOG2004|consen  490 AMPGKIIQCLKKVKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTANVIDTIPP  569 (906)
T ss_pred             cCChHHHHHHHhhCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEeccccccCCh
Confidence                             688899987421    11112222222            111 112444 4455442  11 2


Q ss_pred             hhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          118 SIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       118 ~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      .....++++++.+-..+|-..+-.++.
T Consensus       570 pLlDRMEvIelsGYv~eEKv~IA~~yL  596 (906)
T KOG2004|consen  570 PLLDRMEVIELSGYVAEEKVKIAERYL  596 (906)
T ss_pred             hhhhhhheeeccCccHHHHHHHHHHhh
Confidence            234456688999988888777666553

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.31  E-value=0.001  Score=59.41  Aligned_cols=46  Identities=22%  Similarity=0.201  Sum_probs=31.1

Q ss_pred             eeeehHH--HHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           25 WLGREEG--TVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        25 ~vGr~~~--i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ++||+.+  .+...+...   ....-.++.+.|..|||||.|++.+.....
T Consensus         2 l~GRe~ev~~Ll~~f~~v---~~g~~~~~lv~G~sGIGKsalv~ev~~~i~   49 (849)
T COG3899           2 LYGRETELAQLLAAFDRV---SKGRGEVVLVAGESGIGKSALVNEVHKPIT   49 (849)
T ss_pred             CCchHhHHHHHHHHHHHH---hCCCeEEEEEeecCCCcHHHHHHHHHHHHh
Confidence            6899882  222222221   233456899999999999999999976543

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.31  E-value=0.00024  Score=52.77  Aligned_cols=37  Identities=30%  Similarity=0.325  Sum_probs=27.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce--EEEEEeCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN--FNFALDDT   83 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--~LlVlDdv   83 (162)
                      ...+|+|.|.+|+||||||+.++......  .++=.|+.
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~D~~   43 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQDSY   43 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeCCcc
Confidence            46799999999999999999998876322  33444553

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.30  E-value=0.0026  Score=45.75  Aligned_cols=24  Identities=25%  Similarity=0.249  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|.|..|.|||||.+.++.-.
T Consensus        29 ~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          29 EKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            488999999999999999997654

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06762 hypothetical protein; Provisional

Probab=97.29  E-value=0.00021  Score=51.02  Aligned_cols=24  Identities=38%  Similarity=0.344  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .++.|.|++|+||||+|+.+.+..
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            578899999999999999998775

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.29  E-value=0.004  Score=49.88  Aligned_cols=68  Identities=9%  Similarity=-0.027  Sum_probs=49.9

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      -.+|+|+++..+......|+..+..-..++.+|.+|.+ ..+...+ +.-..+.+.+++.++....+...
T Consensus       110 kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~~~~~~~L~~~  179 (334)
T PRK07993        110 KVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPEQYALTWLSRE  179 (334)
T ss_pred             eEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCHHHHHHHHHHc
Confidence            58899999988888889999998876666666665555 4455433 33346889999999988877653

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.28  E-value=0.0031  Score=49.02  Aligned_cols=77  Identities=13%  Similarity=0.128  Sum_probs=53.3

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------   75 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------   75 (162)
                      .++..|....      +...+.|+|..|+|||||.+.+.......                                   
T Consensus       100 ~~l~~l~~~~------~~~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r  173 (270)
T TIGR02858       100 KLLPYLVRNN------RVLNTLIISPPQCGKTTLLRDLARILSTGISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIR  173 (270)
T ss_pred             HHHHHHHhCC------CeeEEEEEcCCCCCHHHHHHHHhCccCCCCceEEECCEEeecchhHHHHHHHhccccccccccc
Confidence            4555565433      35788999999999999999987665421                                   


Q ss_pred             ----------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChhhHh
Q 039127           76 ----------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVAS  118 (162)
Q Consensus        76 ----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~  118 (162)
                                            -++++|...  ..+.+..+...+.   .|..+|+||....+..
T Consensus       174 ~~v~~~~~k~~~~~~~i~~~~P~villDE~~--~~e~~~~l~~~~~---~G~~vI~ttH~~~~~~  233 (270)
T TIGR02858       174 TDVLDGCPKAEGMMMLIRSMSPDVIVVDEIG--REEDVEALLEALH---AGVSIIATAHGRDVED  233 (270)
T ss_pred             ccccccchHHHHHHHHHHhCCCCEEEEeCCC--cHHHHHHHHHHHh---CCCEEEEEechhHHHH
Confidence                                  477788876  5555555555543   4677888888765543

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PRK03839 putative kinase; Provisional

Probab=97.27  E-value=0.00019  Score=52.03  Aligned_cols=26  Identities=27%  Similarity=0.331  Sum_probs=22.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .|.|.|++|+||||+|+.+++.....
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~   27 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYE   27 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCc
Confidence            47899999999999999999886543

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.26  E-value=0.0007  Score=57.67  Aligned_cols=29  Identities=21%  Similarity=0.127  Sum_probs=25.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ..+=+.++|++|+|||.||+++.+...+.
T Consensus       222 PprGvLlHGPPGCGKT~lA~AiAgel~vP  250 (802)
T KOG0733|consen  222 PPRGVLLHGPPGCGKTSLANAIAGELGVP  250 (802)
T ss_pred             CCCceeeeCCCCccHHHHHHHHhhhcCCc
Confidence            34567799999999999999999998776

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=97.26  E-value=0.0019  Score=51.57  Aligned_cols=67  Identities=4%  Similarity=0.048  Sum_probs=45.2

Q ss_pred             EEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHhhhC-CCCeeeCCCCCHHHHHHHHhhC
Q 039127           77 NFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVASIMG-TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        77 LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~~~~-~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ++++|+++..+......+...+.....+..+|++|.+. .+...+. .-..+.+.+++.+++...+...
T Consensus       116 V~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        116 VILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             EEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc
Confidence            55667787777777777777776544556666676664 3443332 2236889999999988877654

>TIGR00235 udk uridine kinase

Probab=97.26  E-value=0.00031  Score=52.22  Aligned_cols=36  Identities=31%  Similarity=0.295  Sum_probs=27.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce--EEEEEeC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN--FNFALDD   82 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--~LlVlDd   82 (162)
                      ...+++|.|.+|+||||||+.+.......  .++-.|+
T Consensus         5 ~g~vi~I~G~sGsGKSTl~~~l~~~l~~~~~~~i~~D~   42 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVARKIYEQLGKLEIVIISQDN   42 (207)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHhcccCCeEecccc
Confidence            45789999999999999999998764421  3444455

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.24  E-value=0.0025  Score=45.61  Aligned_cols=69  Identities=14%  Similarity=0.105  Sum_probs=46.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce------------------------------------------------EEEEE
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN------------------------------------------------FNFAL   80 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------------------------------~LlVl   80 (162)
                      .+++|.|..|.|||||.+.++......                                                -++++
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~laral~~~p~illl  106 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARALARNARLLIL  106 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHHHhcCCCEEEE
Confidence            488999999999999999997543211                                                68888


Q ss_pred             eCCCC-CChhhHHHHHhhcccc-CCCcEEEEecCChhhH
Q 039127           81 DDTWK-EKYVDWTNMRDLFAAV-ASRSKVIVTTRNQGVA  117 (162)
Q Consensus        81 Ddv~~-~~~~~~~~l~~~l~~~-~~gs~iiiTTR~~~v~  117 (162)
                      |+-.. .+......+...+... ..|..+|++|.+....
T Consensus       107 DEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~  145 (163)
T cd03216         107 DEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEV  145 (163)
T ss_pred             ECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence            97642 2444444554444432 3366788888886643

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []

Probab=97.23  E-value=0.0014  Score=48.86  Aligned_cols=45  Identities=20%  Similarity=0.215  Sum_probs=32.1

Q ss_pred             EEEEEeCCCCC-ChhhHHHHHhhccccCCCcEEEEecCChhhHhhh
Q 039127           76 FNFALDDTWKE-KYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIM  120 (162)
Q Consensus        76 ~LlVlDdv~~~-~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~  120 (162)
                      -+++|||++.. +......+...+....+.+.+||||.++.+...+
T Consensus       160 p~~ilDEvd~~LD~~~~~~l~~~l~~~~~~~Q~ii~Th~~~~~~~a  205 (220)
T PF02463_consen  160 PFLILDEVDAALDEQNRKRLADLLKELSKQSQFIITTHNPEMFEDA  205 (220)
T ss_dssp             SEEEEESTTTTS-HHHHHHHHHHHHHHTTTSEEEEE-S-HHHHTT-
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccc
Confidence            68999999843 5666677777777767778999999998877654

The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=97.23  E-value=0.00056  Score=49.58  Aligned_cols=52  Identities=19%  Similarity=0.023  Sum_probs=41.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc----e-----------------------------------EEEEEeCCCCCCh
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV----N-----------------------------------FNFALDDTWKEKY   88 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~----~-----------------------------------~LlVlDdv~~~~~   88 (162)
                      ..++.+.|+.|+|||.||+.+......    .                                   -+++||+++....
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~~~l~~~~~~~v~~~~~gVVllDEidKa~~   82 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSVSKLLGSPPGYVGAEEGGVVLLDEIDKAHP   82 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHCHHHHHHTTCHHHHHHHTEEEEETGGGCSH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhhhhhhhcccceeeccchhhhhhHHHhhccc
Confidence            467889999999999999888766652    1                                   5899999997777


Q ss_pred             -----------hhHHHHHhhcc
Q 039127           89 -----------VDWTNMRDLFA   99 (162)
Q Consensus        89 -----------~~~~~l~~~l~   99 (162)
                                 .-|..|...+.
T Consensus        83 ~~~~~~~v~~~~V~~~LL~~le  104 (171)
T PF07724_consen   83 SNSGGADVSGEGVQNSLLQLLE  104 (171)
T ss_dssp             TTTTCSHHHHHHHHHHHHHHHH
T ss_pred             cccccchhhHHHHHHHHHHHhc
Confidence                       77888887774

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.23  E-value=0.00026  Score=51.35  Aligned_cols=26  Identities=27%  Similarity=0.290  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.+++.|.|.+|+||||+|+.+....
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999988554

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=97.23  E-value=0.0015  Score=57.07  Aligned_cols=88  Identities=17%  Similarity=0.146  Sum_probs=58.0

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------   75 (162)
                      ...++|+..   .+.+.+..-.     ..-.-|.|+|..|+|||++|+.+++.....                       
T Consensus       375 ~~~liG~S~~~~~~~~~~~~~a-----~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~~~~~~lfg  449 (686)
T PRK15429        375 FGEIIGRSEAMYSVLKQVEMVA-----QSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFG  449 (686)
T ss_pred             ccceeecCHHHHHHHHHHHHHh-----CCCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChhHhhhhhcC
Confidence            357999887   3333332211     112356699999999999999998643211                       


Q ss_pred             ----------------------EEEEEeCCCCCChhhHHHHHhhccccC-----------CCcEEEEecCCh
Q 039127           76 ----------------------FNFALDDTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRNQ  114 (162)
Q Consensus        76 ----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~~  114 (162)
                                            =.|+||++.......+..|...+....           ...++|.||...
T Consensus       450 ~~~~~~~g~~~~~~g~le~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~  521 (686)
T PRK15429        450 HERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRD  521 (686)
T ss_pred             cccccccccccchhhHHHhcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCC
Confidence                                  138999999777788888877765321           234788888553

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=97.23  E-value=0.00031  Score=51.72  Aligned_cols=35  Identities=26%  Similarity=0.208  Sum_probs=27.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCceEEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv~   84 (162)
                      +|+|.|.+|+||||||+.+......-.++=+||.+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~~~~~~i~~Ddf~   35 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRILPNCCVIHQDDFF   35 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcCCCeEEcccccc
Confidence            47899999999999999999876433455567764

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=97.22  E-value=0.0029  Score=44.35  Aligned_cols=68  Identities=13%  Similarity=0.165  Sum_probs=46.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce------------------------------------EEEEEeCCCC-CChhhH
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN------------------------------------FNFALDDTWK-EKYVDW   91 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------------------~LlVlDdv~~-~~~~~~   91 (162)
                      .+++|.|..|.|||||++.+.......                                    -++++|+-.. .+....
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~~~~~lS~G~~~rv~laral~~~p~illlDEP~~~LD~~~~  106 (144)
T cd03221          27 DRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFEQLSGGEKMRLALAKLLLENPNLLLLDEPTNHLDLESI  106 (144)
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEEEEccCCHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHH
Confidence            488999999999999999998765321                                    6888997642 245555


Q ss_pred             HHHHhhccccCCCcEEEEecCChhhHh
Q 039127           92 TNMRDLFAAVASRSKVIVTTRNQGVAS  118 (162)
Q Consensus        92 ~~l~~~l~~~~~gs~iiiTTR~~~v~~  118 (162)
                      ..+...+...  +..||++|.+.....
T Consensus       107 ~~l~~~l~~~--~~til~~th~~~~~~  131 (144)
T cd03221         107 EALEEALKEY--PGTVILVSHDRYFLD  131 (144)
T ss_pred             HHHHHHHHHc--CCEEEEEECCHHHHH
Confidence            5555555433  245788887765543

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.22  E-value=0.0041  Score=53.76  Aligned_cols=47  Identities=11%  Similarity=0.027  Sum_probs=31.8

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ..+++|.+.   ++..++....  ......+++.|+|.+|+||||+++.++.
T Consensus        83 ldel~~~~~ki~~l~~~l~~~~--~~~~~~~illL~GP~GsGKTTl~~~la~  132 (637)
T TIGR00602        83 QHELAVHKKKIEEVETWLKAQV--LENAPKRILLITGPSGCGKSTTIKILSK  132 (637)
T ss_pred             HHHhcCcHHHHHHHHHHHHhcc--cccCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            357778777   5555554322  1122345789999999999999987754

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.22  E-value=0.0029  Score=45.79  Aligned_cols=24  Identities=29%  Similarity=0.353  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|.|..|+|||||++.+....
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999987654

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.22  E-value=0.00033  Score=47.19  Aligned_cols=27  Identities=37%  Similarity=0.335  Sum_probs=23.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ..+.|+|.+|+||||+++.+.+.....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~   29 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPP   29 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCC
Confidence            467899999999999999998877654

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.22  E-value=0.003  Score=53.99  Aligned_cols=97  Identities=14%  Similarity=0.045  Sum_probs=64.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-----C--
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-----K--   87 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-----~--   87 (162)
                      ..=|.+||++|+|||-||++++|.....                                 |.|.||.++..     +  
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlNkYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~  624 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLNKYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEG  624 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHHHHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCC
Confidence            4456799999999999999999988765                                 89999988631     1  


Q ss_pred             ----hhhHHHHHhhccc--cCCCcEEEEecCChhhH-h-hhCC---CCeeeCCCCCHHHHHHHHhhCC
Q 039127           88 ----YVDWTNMRDLFAA--VASRSKVIVTTRNQGVA-S-IMGT---MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        88 ----~~~~~~l~~~l~~--~~~gs~iiiTTR~~~v~-~-~~~~---~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                          ..-...|+.-+..  ...|--||-.|...++- . .+.+   +..+.++.-+.+|-..+++...
T Consensus       625 s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~t  692 (802)
T KOG0733|consen  625 SSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTIT  692 (802)
T ss_pred             chhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHh
Confidence                1223334444442  23455666666554432 2 2222   3456788888889889988765

>PRK13695 putative NTPase; Provisional

Probab=97.21  E-value=0.00097  Score=48.11  Aligned_cols=22  Identities=36%  Similarity=0.360  Sum_probs=18.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+.|.|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999986543

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.21  E-value=0.0019  Score=56.86  Aligned_cols=96  Identities=13%  Similarity=0.057  Sum_probs=56.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCCC-------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKEK-------   87 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~~-------   87 (162)
                      .+-+.++|.+|+|||+||+.+++.....                                 .++++|+++...       
T Consensus       212 ~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~~~~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~  291 (733)
T TIGR01243       212 PKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVT  291 (733)
T ss_pred             CceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhcccccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCc
Confidence            3567799999999999999998765332                                 579999986310       


Q ss_pred             ----hhhHHHHHhhcccc-CCCcEEEE-ecCChh-hHhhhC----CCCeeeCCCCCHHHHHHHHhhC
Q 039127           88 ----YVDWTNMRDLFAAV-ASRSKVIV-TTRNQG-VASIMG----TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        88 ----~~~~~~l~~~l~~~-~~gs~iii-TTR~~~-v~~~~~----~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                          ......|...+... ..+..+++ ||.... +...+.    -...+.+...+.++-.++++.+
T Consensus       292 ~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~  358 (733)
T TIGR01243       292 GEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVH  358 (733)
T ss_pred             chHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHH
Confidence                11223344433321 23334444 444322 211111    1235778888888877777643

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=97.20  E-value=0.0012  Score=52.61  Aligned_cols=86  Identities=15%  Similarity=0.055  Sum_probs=54.9

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      ..++|+..   ++.+.+..-.     ..-.-|.|+|..|+||+++|+.++......                        
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a-----~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~~~~~lfg~   80 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLA-----PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGH   80 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHh-----CCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHHHHHHHccc
Confidence            35788887   4444433222     112345699999999999999987443211                        


Q ss_pred             ---------------------EEEEEeCCCCCChhhHHHHHhhccccC-----------CCcEEEEecCC
Q 039127           76 ---------------------FNFALDDTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRN  113 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~  113 (162)
                                           =.|+||++.......+..|...+..+.           ...+||.||..
T Consensus        81 ~~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~  150 (326)
T PRK11608         81 EAGAFTGAQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNA  150 (326)
T ss_pred             cccccCCcccccCCchhccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCch
Confidence                                 137888888777777788877665321           12477887755

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.17  E-value=0.00051  Score=55.55  Aligned_cols=30  Identities=17%  Similarity=0.249  Sum_probs=26.0

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .....+.|||++|.|||.+|+.+++.....
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            346789999999999999999999887655

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.16  E-value=0.0024  Score=48.71  Aligned_cols=66  Identities=15%  Similarity=0.171  Sum_probs=46.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce----------------------------EEEEEeCCCCC-ChhhHHHHHhhc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------------FNFALDDTWKE-KYVDWTNMRDLF   98 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------------~LlVlDdv~~~-~~~~~~~l~~~l   98 (162)
                      ..-|-+||.-|.||++|++++.+....+                            |++..||+.-+ +...+..|+..+
T Consensus        85 ANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~~Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~L  164 (287)
T COG2607          85 ANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLATLPDLVELLRARPEKFILFCDDLSFEEGDDAYKALKSAL  164 (287)
T ss_pred             ccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHhhHHHHHHHHhcCCceEEEEecCCCCCCCchHHHHHHHHh
Confidence            4456799999999999999998776554                            77888998643 456677777777


Q ss_pred             ccc---CCCcEEEEecCC
Q 039127           99 AAV---ASRSKVIVTTRN  113 (162)
Q Consensus        99 ~~~---~~gs~iiiTTR~  113 (162)
                      ..+   .+...++..|.|
T Consensus       165 eG~ve~rP~NVl~YATSN  182 (287)
T COG2607         165 EGGVEGRPANVLFYATSN  182 (287)
T ss_pred             cCCcccCCCeEEEEEecC
Confidence            632   333445554444

>PTZ00301 uridine kinase; Provisional

Probab=97.16  E-value=0.00035  Score=52.36  Aligned_cols=37  Identities=24%  Similarity=0.254  Sum_probs=27.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC-----ce-EEEEEeCCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT-----VN-FNFALDDTW   84 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~-----~~-~LlVlDdv~   84 (162)
                      ..+|+|.|.+|+||||||+.+.+...     .. .++-.|+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~~~~~~~~~vi~~D~yy   45 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMAHCGPVSIGVICEDFYY   45 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHhhcCCCeEEEeCCCCCc
Confidence            57899999999999999988865431     11 355557654

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.15  E-value=0.0018  Score=50.80  Aligned_cols=100  Identities=13%  Similarity=0.082  Sum_probs=64.8

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC--------------------------ce---------
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT--------------------------VN---------   75 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~--------------------------~~---------   75 (162)
                      .+..+.....     .-...+.++|++|+||||+|..+.+...                          ..         
T Consensus        12 ~l~~~~~~~~-----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~   86 (325)
T COG0470          12 RLLVQALESG-----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRK   86 (325)
T ss_pred             HHHHHHHhcC-----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCC
Confidence            4555555332     1223588999999999999987765332                          10         


Q ss_pred             ------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHhhhCC-CCeeeCC
Q 039127           76 ------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVASIMGT-MPAYELK  129 (162)
Q Consensus        76 ------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~~~~-~~~~~l~  129 (162)
                                              -++++|+++..+.+....++..+........+|++|.+ ..+...+.+ ...+++.
T Consensus        87 ~~i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~SRc~~i~f~  166 (325)
T COG0470          87 IDIIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSRCQRIRFK  166 (325)
T ss_pred             CcchHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhhcceeeecC
Confidence                                    68899999987788888888888776777777777763 333332322 2256666


Q ss_pred             CCCHHH
Q 039127          130 KLVNDN  135 (162)
Q Consensus       130 ~L~~~~  135 (162)
                      +.+...
T Consensus       167 ~~~~~~  172 (325)
T COG0470         167 PPSRLE  172 (325)
T ss_pred             CchHHH
Confidence            544333

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.15  E-value=0.0037  Score=46.80  Aligned_cols=27  Identities=30%  Similarity=0.295  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +.|.+.|.+|+||||+|+++....+.+
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHh
Confidence            467788999999999999987665443

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.15  E-value=0.0026  Score=46.38  Aligned_cols=70  Identities=19%  Similarity=0.210  Sum_probs=45.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce--------------------------------------EEEEEeCCCC-CChh
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN--------------------------------------FNFALDDTWK-EKYV   89 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------------------------~LlVlDdv~~-~~~~   89 (162)
                      .+++|+|..|+|||||.+.+..-....                                      -++++|.-.. .+..
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq~qrv~laral~~~p~lllLDEPts~LD~~  105 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGELQRVAIAAALLRNATFYLFDEPSAYLDIE  105 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHHHHHHHHHHHHhcCCCEEEEECCcccCCHH
Confidence            489999999999999999997654322                                      5788887542 2444


Q ss_pred             hHHHHHhhcccc-CC-CcEEEEecCChhhHh
Q 039127           90 DWTNMRDLFAAV-AS-RSKVIVTTRNQGVAS  118 (162)
Q Consensus        90 ~~~~l~~~l~~~-~~-gs~iiiTTR~~~v~~  118 (162)
                      ....+...+... .. +..||++|.+.....
T Consensus       106 ~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~  136 (177)
T cd03222         106 QRLNAARAIRRLSEEGKKTALVVEHDLAVLD  136 (177)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEEECCHHHHH
Confidence            444444444331 22 256777777765544

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK06547 hypothetical protein; Provisional

Probab=97.14  E-value=0.00066  Score=49.27  Aligned_cols=37  Identities=32%  Similarity=0.368  Sum_probs=29.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTW   84 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv~   84 (162)
                      ...+|.|.|.+|+||||+|+.+...... .++-+||+.
T Consensus        14 ~~~~i~i~G~~GsGKTt~a~~l~~~~~~-~~~~~d~~~   50 (172)
T PRK06547         14 GMITVLIDGRSGSGKTTLAGALAARTGF-QLVHLDDLY   50 (172)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhCC-Ceeccccee
Confidence            4778999999999999999999876543 244557765

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=97.14  E-value=0.00059  Score=47.15  Aligned_cols=64  Identities=14%  Similarity=0.151  Sum_probs=37.4

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce-------------------------------------EEEEEeCCCCCChhhHHH
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN-------------------------------------FNFALDDTWKEKYVDWTN   93 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~-------------------------------------~LlVlDdv~~~~~~~~~~   93 (162)
                      +-|+|.+|+|||++|+.+.......                                     -++.+|.+......-...
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif~~ill~DEiNrappktQsA   81 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIFTNILLADEINRAPPKTQSA   81 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT-SSEEEEETGGGS-HHHHHH
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhhhceeeecccccCCHHHHHH
Confidence            4689999999999999997765433                                     478889887655555555


Q ss_pred             HHhhcccc----------CCCcEEEEecCCh
Q 039127           94 MRDLFAAV----------ASRSKVIVTTRNQ  114 (162)
Q Consensus        94 l~~~l~~~----------~~gs~iiiTTR~~  114 (162)
                      +.......          -+...+++.|+|.
T Consensus        82 lLeam~Er~Vt~~g~~~~lp~pf~ViATqNp  112 (131)
T PF07726_consen   82 LLEAMEERQVTIDGQTYPLPDPFFVIATQNP  112 (131)
T ss_dssp             HHHHHHHSEEEETTEEEE--SS-EEEEEE-T
T ss_pred             HHHHHHcCeEEeCCEEEECCCcEEEEEecCc
Confidence            55544321          1122467777775

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.13  E-value=0.0027  Score=47.11  Aligned_cols=23  Identities=26%  Similarity=0.212  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+++|+|..|.|||||++.+...
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G~   51 (207)
T PRK13539         29 EALVLTGPNGSGKTTLLRLIAGL   51 (207)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48899999999999999988654

>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=97.13  E-value=0.00035  Score=42.88  Aligned_cols=22  Identities=36%  Similarity=0.513  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ++.|.|..|+||||+++.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4678999999999999998887

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.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.13  E-value=0.00087  Score=50.64  Aligned_cols=39  Identities=18%  Similarity=0.078  Sum_probs=30.1

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce----EE-EEEeCCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN----FN-FALDDTW   84 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----~L-lVlDdv~   84 (162)
                      ....+++|.|..|+|||||++.+....+..    .+ +-+||..
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            457899999999999999999888765543    23 6667654

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.12  E-value=0.0061  Score=48.98  Aligned_cols=68  Identities=3%  Similarity=-0.001  Sum_probs=49.5

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEE-ecCChhhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIV-TTRNQGVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iii-TTR~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      -++|+|+++..+...+..|+..+..-.+++.+|. |++...+...+ +.-..+.+.+++.++..+.+...
T Consensus       134 kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        134 RVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             eEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc
Confidence            4778888888888888899888887666665554 55545554433 33347899999999999888764

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.12  E-value=0.0015  Score=49.88  Aligned_cols=25  Identities=36%  Similarity=0.414  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -.++|+|..|+|||+|...+.....
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~   38 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLR   38 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhc
Confidence            3567999999999999988765443

This is thought to be an ATPase involved in viral DNA packaging [].

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]

Probab=97.11  E-value=0.0031  Score=54.47  Aligned_cols=35  Identities=31%  Similarity=0.486  Sum_probs=26.2

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHH-HHHHHHccCCc
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTT-PALPVYNDKTV   74 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTt-La~~~~~~~~~   74 (162)
                      +++..+....         +|.|+|..|+|||| |++.+|.+-..
T Consensus       363 ~ll~~ir~n~---------vvvivgETGSGKTTQl~QyL~edGY~  398 (1042)
T KOG0924|consen  363 QLLSVIRENQ---------VVVIVGETGSGKTTQLAQYLYEDGYA  398 (1042)
T ss_pred             HHHHHHhhCc---------EEEEEecCCCCchhhhHHHHHhcccc
Confidence            3555555544         99999999999988 88888776543

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.11  E-value=0.0029  Score=45.94  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|.|..|+|||||.+.++...
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            488999999999999999987653

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=97.11  E-value=0.0018  Score=52.38  Aligned_cols=30  Identities=17%  Similarity=0.079  Sum_probs=25.8

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ...+=+-|||..|.|||.|+-.+|+....+
T Consensus        60 ~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~   89 (362)
T PF03969_consen   60 PPPKGLYLWGPVGRGKTMLMDLFYDSLPIK   89 (362)
T ss_pred             CCCceEEEECCCCCchhHHHHHHHHhCCcc
Confidence            346778899999999999999999987763

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=97.10  E-value=0.0028  Score=51.38  Aligned_cols=48  Identities=21%  Similarity=0.078  Sum_probs=30.9

Q ss_pred             ceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           24 LWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        24 ~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+.+|++   .+...|..--   .+....-+.|+|.+|.|||+.++.+......
T Consensus        18 ~l~~Re~ei~~l~~~l~~~~---~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~   68 (366)
T COG1474          18 ELPHREEEINQLASFLAPAL---RGERPSNIIIYGPTGTGKTATVKFVMEELEE   68 (366)
T ss_pred             cccccHHHHHHHHHHHHHHh---cCCCCccEEEECCCCCCHhHHHHHHHHHHHh
Confidence            3889999   3333332211   1112223889999999999999998766543

>PHA02774 E1; Provisional

Probab=97.10  E-value=0.0022  Score=54.60  Aligned_cols=39  Identities=15%  Similarity=0.014  Sum_probs=31.2

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce-------------------EEEEEeCCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------FNFALDDTW   84 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------~LlVlDdv~   84 (162)
                      ++..-+.|+|++|.|||.+|..+.+-...+                   -++||||+-
T Consensus       432 PKknciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~~s~FwLqpl~d~ki~vlDD~t  489 (613)
T PHA02774        432 PKKNCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNSKSHFWLQPLADAKIALLDDAT  489 (613)
T ss_pred             CcccEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEECccccccchhccCCEEEEecCc
Confidence            445678899999999999998887664322                   689999994

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=97.09  E-value=0.0029  Score=44.24  Aligned_cols=23  Identities=26%  Similarity=0.567  Sum_probs=19.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+++|.+|+|||||+..+.+..
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~   24 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDE   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            46799999999999999987654

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

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=97.08  E-value=0.0036  Score=49.57  Aligned_cols=49  Identities=22%  Similarity=0.443  Sum_probs=35.8

Q ss_pred             CCceeeehH-------HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           22 VKLWLGREE-------GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        22 ~~~~vGr~~-------~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+|.+.       +++++|..-.  ..+.+...|.++|.+|+|||++...+....
T Consensus         7 ~~~w~g~~~~~~~tq~~l~~~l~~l~--~~~~~~~rIllvGktGVGKSSliNsIlG~~   62 (313)
T TIGR00991         7 PREWVGIQQFPPATQTKLLELLGKLK--EEDVSSLTILVMGKGGVGKSSTVNSIIGER   62 (313)
T ss_pred             CcceeccccCCHHHHHHHHHHHHhcc--cccccceEEEEECCCCCCHHHHHHHHhCCC
Confidence            367888766       6666665433  223456678899999999999999988654

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=97.08  E-value=0.0025  Score=53.77  Aligned_cols=89  Identities=12%  Similarity=0.058  Sum_probs=59.7

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ....++|+..   ++.+.+..-.     ..-.-|.|+|..|+||+++|+.+++.....                      
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a-----~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~~e~~lf  259 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVA-----ASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESELF  259 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHh-----CCCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHHHHHHhc
Confidence            3467999988   4444443322     112356699999999999999998653311                      


Q ss_pred             -----------------------EEEEEeCCCCCChhhHHHHHhhccccC-----------CCcEEEEecCCh
Q 039127           76 -----------------------FNFALDDTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRNQ  114 (162)
Q Consensus        76 -----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~~  114 (162)
                                             =.|+||++.......+..|...+..+.           ...+||.||...
T Consensus       260 G~~~g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~  332 (509)
T PRK05022        260 GHVKGAFTGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRD  332 (509)
T ss_pred             CccccccCCCcccCCcchhhcCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCC
Confidence                                   127899998777888888887765422           134788887553

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=97.08  E-value=0.0039  Score=43.77  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=19.6

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|.+|+|||+|...+.+..
T Consensus         2 i~vvG~~~vGKtsl~~~~~~~~   23 (162)
T PF00071_consen    2 IVVVGDSGVGKTSLINRLINGE   23 (162)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHhhc
Confidence            6799999999999999988765

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.07  E-value=0.0018  Score=55.43  Aligned_cols=99  Identities=15%  Similarity=0.070  Sum_probs=61.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-------   86 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-------   86 (162)
                      ..+-|-++|++|+|||++|+.+.+.....                                 +++.||.++..       
T Consensus       467 ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~sk~vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~  546 (693)
T KOG0730|consen  467 PPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELFSKYVGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGS  546 (693)
T ss_pred             CCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHHHHhcCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCC
Confidence            45677799999999999999999887665                                 88999987631       


Q ss_pred             C----hhhHHHHHhhccccCCCcEEEE---ecCChhhHh-hhC---CCCeeeCCCCCHHHHHHHHhhCCC
Q 039127           87 K----YVDWTNMRDLFAAVASRSKVIV---TTRNQGVAS-IMG---TMPAYELKKLVNDNCLLIFSQHPS  145 (162)
Q Consensus        87 ~----~~~~~~l~~~l~~~~~gs~iii---TTR~~~v~~-~~~---~~~~~~l~~L~~~~~~~lf~~~af  145 (162)
                      .    ......|+..+........|+|   |.|...+-. .+.   -+..+.+..-+.+-..++|+.++-
T Consensus       547 ~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~k  616 (693)
T KOG0730|consen  547 SSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAK  616 (693)
T ss_pred             ccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHh
Confidence            0    1112233333332222223333   334433322 233   244677887788888899987753

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.07  E-value=0.00043  Score=49.60  Aligned_cols=28  Identities=29%  Similarity=0.271  Sum_probs=23.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ...+.|.|++|+||||+++.+.+..+.+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~   32 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREK   32 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhc
Confidence            4578899999999999999998765544

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.07  E-value=0.00046  Score=49.25  Aligned_cols=27  Identities=22%  Similarity=0.135  Sum_probs=23.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ...|.++|++|+||||+|+.+......
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l~~   30 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRLGY   30 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            357889999999999999999988754

>PRK00625 shikimate kinase; Provisional

Probab=97.07  E-value=0.00042  Score=50.37  Aligned_cols=25  Identities=16%  Similarity=0.129  Sum_probs=21.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .|.++||+|+||||+++.+.+....
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~   26 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSL   26 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4789999999999999999877543

>PRK06217 hypothetical protein; Validated

Probab=97.06  E-value=0.00051  Score=50.07  Aligned_cols=33  Identities=30%  Similarity=0.387  Sum_probs=25.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCceEEEEEeCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDT   83 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv   83 (162)
                      .|.|.|.+|+||||||+.+....... .+=+|++
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~-~~~~D~~   35 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIP-HLDTDDY   35 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCc-EEEcCce
Confidence            58899999999999999999876543 2334444

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=97.06  E-value=0.0023  Score=45.61  Aligned_cols=21  Identities=24%  Similarity=0.551  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |.|+|.+|+|||+|...+.+.
T Consensus         2 i~ivG~~~vGKTsli~~~~~~   22 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSE   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            579999999999999998765

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.05  E-value=0.004  Score=46.47  Aligned_cols=24  Identities=21%  Similarity=0.353  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||++.++.-.
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          29 EIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            489999999999999999997543

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.05  E-value=0.0095  Score=47.44  Aligned_cols=68  Identities=6%  Similarity=0.003  Sum_probs=48.4

Q ss_pred             EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      -++|+|+++..+...-..|+..+..-..++.+|++|.+ ..+...+ +.-..+.+.+++.+++...+...
T Consensus       115 kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~  184 (319)
T PRK08769        115 QVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQ  184 (319)
T ss_pred             EEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHc
Confidence            47888888877777888888888766667766666554 4444333 33346889999999988888754

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.04  E-value=0.00043  Score=50.17  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=21.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +|.|+|++|+||||+|+.+.....
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~~   24 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENFG   24 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHcC
Confidence            478999999999999999987765

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.

>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=97.03  E-value=0.00061  Score=48.68  Aligned_cols=33  Identities=36%  Similarity=0.436  Sum_probs=25.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce--EEEEEe
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN--FNFALD   81 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~--~LlVlD   81 (162)
                      .+|-+.|.+|+||||||+.+.......  -..+||
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            578899999999999999998876544  344554

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 ....

>PRK04040 adenylate kinase; Provisional

Probab=97.02  E-value=0.00056  Score=50.30  Aligned_cols=24  Identities=25%  Similarity=0.297  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+|.|+|++|+||||+++.+....
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998776

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.02  E-value=0.00081  Score=57.27  Aligned_cols=53  Identities=17%  Similarity=0.239  Sum_probs=37.2

Q ss_pred             CCCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           20 PSVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        20 ~~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +.-.+++|.++   .+++.|..... ..+...+++.++|++|+|||+||+.+.+-..
T Consensus        73 ~fF~d~yGlee~ieriv~~l~~Aa~-gl~~~~~IL~LvGPpG~GKSsLa~~la~~le  128 (644)
T PRK15455         73 PAFEEFYGMEEAIEQIVSYFRHAAQ-GLEEKKQILYLLGPVGGGKSSLAERLKSLME  128 (644)
T ss_pred             cchhcccCcHHHHHHHHHHHHHHHH-hcCCCCceEEEecCCCCCchHHHHHHHHHHH
Confidence            44457899999   77777722110 0123457999999999999999999876443

>cd04124 RabL2 RabL2 subfamily

Probab=97.01  E-value=0.0023  Score=45.28  Aligned_cols=21  Identities=19%  Similarity=0.259  Sum_probs=18.0

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+++|.+|+|||||+..+.+.
T Consensus         3 i~vvG~~~vGKTsli~~~~~~   23 (161)
T cd04124           3 IILLGDSAVGKSKLVERFLMD   23 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678999999999999887654

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

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.01  E-value=0.00055  Score=49.43  Aligned_cols=27  Identities=41%  Similarity=0.537  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...+|.+.|+.|+||||+|+.++....
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            345899999999999999999987654

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.00  E-value=0.0044  Score=44.66  Aligned_cols=24  Identities=33%  Similarity=0.335  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||.+.+....
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          29 ESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcc
Confidence            488999999999999999997643

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.99  E-value=0.00064  Score=49.13  Aligned_cols=24  Identities=21%  Similarity=0.181  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|.|+.|+|||||++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            368899999999999999987653

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.98  E-value=0.0033  Score=54.59  Aligned_cols=95  Identities=15%  Similarity=0.051  Sum_probs=58.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC----------
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE----------   86 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~----------   86 (162)
                      -+.++|.+|.|||++|+.+.+.....                                 +++++|+++..          
T Consensus       187 gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g  266 (644)
T PRK10733        187 GVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGG  266 (644)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhcccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCC
Confidence            48899999999999999998765432                                 68999998742          


Q ss_pred             ChhhHHH----HHhhccc--cCCCcEEEEecCChhhHh--hhCC---CCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 KYVDWTN----MRDLFAA--VASRSKVIVTTRNQGVAS--IMGT---MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 ~~~~~~~----l~~~l~~--~~~gs~iiiTTR~~~v~~--~~~~---~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ....+..    +...+..  ...+.-+|.||...+...  ...+   +..+.+...+.++-.++|+.+.
T Consensus       267 ~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~  335 (644)
T PRK10733        267 GHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHM  335 (644)
T ss_pred             CchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHh
Confidence            0112222    2222221  122344555776654322  1211   3467788888888888887654

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.98  E-value=0.00054  Score=48.06  Aligned_cols=24  Identities=25%  Similarity=0.468  Sum_probs=20.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ++.+.|++|+||||+|+.+.....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~~   24 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERLG   24 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhcC
Confidence            367899999999999999988754

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.98  E-value=0.00085  Score=49.95  Aligned_cols=26  Identities=15%  Similarity=0.212  Sum_probs=22.2

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...+.++|+|++|+|||||++.+...
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            35678889999999999999998754

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.98  E-value=0.00083  Score=48.44  Aligned_cols=25  Identities=24%  Similarity=0.270  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++.+.|.+|+||||+|+.+....
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999999988765

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.95  E-value=0.00066  Score=49.10  Aligned_cols=25  Identities=16%  Similarity=0.151  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ++|.+.|++|+||||+|+.+.....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~   27 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLA   27 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            4788999999999999999987643

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.95  E-value=0.00049  Score=53.49  Aligned_cols=23  Identities=30%  Similarity=0.264  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      +.|.|+|.+|+||||+|+.+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~   24 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKY   24 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Confidence            47889999999999999998764

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.94  E-value=0.00082  Score=48.53  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++++|+|+.|+|||||++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            478999999999999999998854

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=96.94  E-value=0.0026  Score=49.50  Aligned_cols=34  Identities=18%  Similarity=0.305  Sum_probs=27.1

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++.++...       . -+.++|..|+|||.+++......
T Consensus        24 ~ll~~l~~~~-------~-pvLl~G~~GtGKT~li~~~l~~l   57 (272)
T PF12775_consen   24 YLLDLLLSNG-------R-PVLLVGPSGTGKTSLIQNFLSSL   57 (272)
T ss_dssp             HHHHHHHHCT-------E-EEEEESSTTSSHHHHHHHHHHCS
T ss_pred             HHHHHHHHcC-------C-cEEEECCCCCchhHHHHhhhccC
Confidence            6788888766       3 45699999999999999877553

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=96.94  E-value=0.0048  Score=45.67  Aligned_cols=27  Identities=33%  Similarity=0.471  Sum_probs=23.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .-++++|.+|+|||||+..+.++....
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~   32 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPE   32 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcc
Confidence            467899999999999999998776653

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.93  E-value=0.0006  Score=50.20  Aligned_cols=35  Identities=29%  Similarity=0.340  Sum_probs=25.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc-e-EEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV-N-FNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~-~-~LlVlDdv~   84 (162)
                      +++|.|..|+||||||+.+...... . .++=.||..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l~~~~~~v~~~D~~~   37 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQLGNPKVVIISQDSYY   37 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCCCeEEEEecccc
Confidence            4789999999999999999776421 1 445556543

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.

>PRK13947 shikimate kinase; Provisional

Probab=96.93  E-value=0.00069  Score=48.51  Aligned_cols=26  Identities=31%  Similarity=0.377  Sum_probs=22.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .|.|+|++|+||||+|+.+.+.....
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~   28 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFG   28 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            47899999999999999999887643

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=96.92  E-value=0.0059  Score=51.72  Aligned_cols=89  Identities=15%  Similarity=0.032  Sum_probs=57.2

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      .-..++|...   ++++.+..-.    ..+. -|.|+|..|+||+.+|+.+++.....                      
T Consensus       202 ~f~~~ig~s~~~~~~~~~~~~~A----~~~~-pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~~~~e~elF  276 (520)
T PRK10820        202 AFSQIVAVSPKMRQVVEQARKLA----MLDA-PLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESELF  276 (520)
T ss_pred             cccceeECCHHHHHHHHHHHHHh----CCCC-CEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCHHHHHHHhc
Confidence            3467899887   4444442211    0112 36699999999999999986432211                      


Q ss_pred             -----------------------EEEEEeCCCCCChhhHHHHHhhccccC---C--------CcEEEEecCCh
Q 039127           76 -----------------------FNFALDDTWKEKYVDWTNMRDLFAAVA---S--------RSKVIVTTRNQ  114 (162)
Q Consensus        76 -----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~---~--------gs~iiiTTR~~  114 (162)
                                             =.|+||+++..+......|...+..+.   .        ..+||.||...
T Consensus       277 G~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~vRiI~st~~~  349 (520)
T PRK10820        277 GHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKN  349 (520)
T ss_pred             CCCCCCcCCcccCCCChhhhcCCCEEEEeChhhCCHHHHHHHHHHHhcCCcccCCCCcceeeeeEEEEecCCC
Confidence                                   136899999777777888877775421   1        23788877653

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.92  E-value=0.0075  Score=43.43  Aligned_cols=24  Identities=21%  Similarity=0.235  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|.|||||.+.++...
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          27 EIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            488999999999999999997653

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=96.91  E-value=0.0066  Score=50.97  Aligned_cols=100  Identities=14%  Similarity=-0.010  Sum_probs=65.1

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC------
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE------   86 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~------   86 (162)
                      ...+.+-++|++|.|||.||+++++.....                                 +.+.+|.++..      
T Consensus       274 ~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~  353 (494)
T COG0464         274 RPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGP  353 (494)
T ss_pred             CCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCC
Confidence            445678899999999999999999955544                                 88999988631      


Q ss_pred             C-----hhhHHHHHhhccccCC--CcEEEEecCChhhHhh--hC--C-CCeeeCCCCCHHHHHHHHhhCCC
Q 039127           87 K-----YVDWTNMRDLFAAVAS--RSKVIVTTRNQGVASI--MG--T-MPAYELKKLVNDNCLLIFSQHPS  145 (162)
Q Consensus        87 ~-----~~~~~~l~~~l~~~~~--gs~iiiTTR~~~v~~~--~~--~-~~~~~l~~L~~~~~~~lf~~~af  145 (162)
                      +     ......+...+.....  +..+|-+|........  ..  . ...+.+..-+.++....|+.+.-
T Consensus       354 ~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~  424 (494)
T COG0464         354 SEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLR  424 (494)
T ss_pred             CCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhc
Confidence            1     1233444444432222  3334555554433221  11  1 34688999999999999998753

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.90  E-value=0.0052  Score=46.48  Aligned_cols=24  Identities=25%  Similarity=0.243  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++|+|+.|+|||||...+..-.
T Consensus        32 e~vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          32 EFVAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccc
Confidence            489999999999999999886443

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=96.90  E-value=0.007  Score=48.24  Aligned_cols=23  Identities=17%  Similarity=0.258  Sum_probs=19.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.|.|.+|+|||++|+.+....
T Consensus        66 ~ilL~G~pGtGKTtla~~lA~~l   88 (327)
T TIGR01650        66 RVMVQGYHGTGKSTHIEQIAARL   88 (327)
T ss_pred             cEEEEeCCCChHHHHHHHHHHHH
Confidence            57899999999999999986643

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=96.90  E-value=0.0083  Score=45.22  Aligned_cols=24  Identities=25%  Similarity=0.315  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|.|..|+|||||.+.+..-.
T Consensus        28 e~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          28 KKVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccc
Confidence            488999999999999999997654

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.90  E-value=0.0007  Score=49.41  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|.|.|.+|+||||+|+.+.+...
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~   25 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLG   25 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            467999999999999999998854

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=96.87  E-value=0.0043  Score=49.42  Aligned_cols=68  Identities=18%  Similarity=0.147  Sum_probs=48.4

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      ..++|+++   .+...++...         -+-+.|.+|+|||+||+.+.......                        
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~~---------~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~   94 (329)
T COG0714          24 KVVVGDEEVIELALLALLAGG---------HVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAAL   94 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcCC---------CEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhh
Confidence            34889887   3333444443         45699999999999999997665533                        


Q ss_pred             -----------------E--EEEEeCCCCCChhhHHHHHhhcc
Q 039127           76 -----------------F--NFALDDTWKEKYVDWTNMRDLFA   99 (162)
Q Consensus        76 -----------------~--LlVlDdv~~~~~~~~~~l~~~l~   99 (162)
                                       .  ++.+|.+++........|...+.
T Consensus        95 ~~~~~~~~~~~gpl~~~~~~ill~DEInra~p~~q~aLl~~l~  137 (329)
T COG0714          95 LLEPGEFRFVPGPLFAAVRVILLLDEINRAPPEVQNALLEALE  137 (329)
T ss_pred             hccCCeEEEecCCcccccceEEEEeccccCCHHHHHHHHHHHh
Confidence                             3  88999999777766666666554

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.87  E-value=0.0064  Score=42.62  Aligned_cols=22  Identities=14%  Similarity=0.240  Sum_probs=19.5

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+++|.+|+|||+|+..+.+..
T Consensus         3 i~~vG~~~vGKTsli~~l~~~~   24 (168)
T cd04119           3 VISMGNSGVGKSCIIKRYCEGR   24 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999987654

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.

>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=96.87  E-value=0.00068  Score=51.10  Aligned_cols=35  Identities=23%  Similarity=0.119  Sum_probs=26.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc-----e-EEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV-----N-FNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~-----~-~LlVlDdv~   84 (162)
                      +++|.|..|+||||||+.+......     . .++-+||..
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            4789999999999999998876531     1 455567764

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>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=96.86  E-value=0.0016  Score=48.17  Aligned_cols=36  Identities=22%  Similarity=0.236  Sum_probs=24.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc---e-EEEEEeCCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV---N-FNFALDDTW   84 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~---~-~LlVlDdv~   84 (162)
                      +++.++|+.|+||||.+-+++.....   + .|+-.|...
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R   41 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYR   41 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSS
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCC
Confidence            68999999999999977655443322   2 566667653

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 ....

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=96.85  E-value=0.0095  Score=44.45  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+++|+|..|.|||||++.+...
T Consensus        31 e~~~i~G~nGsGKSTLl~~l~G~   53 (221)
T cd03244          31 EKVGIVGRTGSGKSSLLLALFRL   53 (221)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcC
Confidence            48899999999999999998754

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=96.84  E-value=0.01  Score=44.65  Aligned_cols=24  Identities=21%  Similarity=0.229  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|.|||||++.+....
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl~   52 (234)
T cd03251          29 ETVALVGPSGSGKSTLVNLIPRFY   52 (234)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccc
Confidence            488999999999999999986553

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13975 thymidylate kinase; Provisional

Probab=96.84  E-value=0.001  Score=48.74  Aligned_cols=26  Identities=31%  Similarity=0.322  Sum_probs=23.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..|+|.|+.|+||||+|+.+......
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            47899999999999999999987663

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=96.83  E-value=0.00076  Score=46.76  Aligned_cols=24  Identities=33%  Similarity=0.368  Sum_probs=21.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +|.|.|..|+||||+|+.+.....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~~   24 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKLG   24 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987654

>PRK13949 shikimate kinase; Provisional

Probab=96.83  E-value=0.001  Score=48.09  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=21.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .|.|+|++|+||||+++.+......
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~~   27 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELGL   27 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            5789999999999999999887653

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=96.83  E-value=0.0057  Score=48.03  Aligned_cols=60  Identities=13%  Similarity=0.276  Sum_probs=38.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCCCCCChhhHHHHHhhcccc--CCCcEEEEecCCh
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTWKEKYVDWTNMRDLFAAV--ASRSKVIVTTRNQ  114 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv~~~~~~~~~~l~~~l~~~--~~gs~iiiTTR~~  114 (162)
                      ..++.|.|+.|+||||+++.+...-    ..++|++.   ...+..+.......  .+.-.+.+..|+.
T Consensus         6 ~~~i~i~G~~GsGKtt~~~~l~~~g----~~~~d~~~---~~L~~~l~~~~~~~~~~~~~av~iD~r~~   67 (288)
T PRK05416          6 MRLVIVTGLSGAGKSVALRALEDLG----YYCVDNLP---PSLLPKLVELLAQSGGIRKVAVVIDVRSR   67 (288)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHcC----CeEECCcC---HHHHHHHHHHHHhcCCCCCeEEEEccCch
Confidence            4689999999999999999985332    24457763   44555554444322  1233566666654

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=96.82  E-value=0.001  Score=54.25  Aligned_cols=35  Identities=20%  Similarity=0.098  Sum_probs=27.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce------EEEEEeC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN------FNFALDD   82 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~------~LlVlDd   82 (162)
                      -....|+|.+|+||||||+.+|+....+      |+++.|+
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgE  209 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDE  209 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCC
Confidence            3567899999999999999999866542      5566666

>cd04113 Rab4 Rab4 subfamily

Probab=96.82  E-value=0.0075  Score=42.30  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=19.1

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.++|.+|+|||||+..+.+..
T Consensus         3 i~v~G~~~vGKTsli~~l~~~~   24 (161)
T cd04113           3 FIIIGSSGTGKSCLLHRFVENK   24 (161)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999987544

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

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.82  E-value=0.0047  Score=54.15  Aligned_cols=28  Identities=21%  Similarity=0.150  Sum_probs=23.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      -..++|+|..|+|||||++.+..-....
T Consensus       499 Ge~vaIvG~SGsGKSTL~KLL~gly~p~  526 (709)
T COG2274         499 GEKVAIVGRSGSGKSTLLKLLLGLYKPQ  526 (709)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            3589999999999999999997666543

>PRK14530 adenylate kinase; Provisional

Probab=96.82  E-value=0.00087  Score=50.09  Aligned_cols=26  Identities=23%  Similarity=0.349  Sum_probs=22.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .|.|+|++|+||||+|+.+.......
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~~~~   30 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEFGVE   30 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCe
Confidence            57899999999999999998776543

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.81  E-value=0.0012  Score=49.98  Aligned_cols=32  Identities=31%  Similarity=0.334  Sum_probs=23.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc---eEEEEEe
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV---NFNFALD   81 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~---~~LlVlD   81 (162)
                      .|+|+|-||+||||+|..+..+...   ..+|++|
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~VLvVD   36 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNVLVVD   36 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceEEEEe
Confidence            5899999999999998774333222   2678887

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.81  E-value=0.00063  Score=51.89  Aligned_cols=25  Identities=20%  Similarity=0.264  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||.+.+..-.+
T Consensus        30 EfvsilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          30 EFVAILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4899999999999999999976544

>PLN02318 phosphoribulokinase/uridine kinase

Probab=96.81  E-value=0.0034  Score=53.79  Aligned_cols=38  Identities=21%  Similarity=0.290  Sum_probs=30.8

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDT   83 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv   83 (162)
                      ....+|+|.|..|+||||||+.+.........+-+||.
T Consensus        63 ~~riIIGIaGpSGSGKTTLAk~LaglLp~vgvIsmDdy  100 (656)
T PLN02318         63 DGIILVGVAGPSGAGKTVFTEKVLNFMPSIAVISMDNY  100 (656)
T ss_pred             CCeEEEEEECCCCCcHHHHHHHHHhhCCCcEEEEEcce
Confidence            45789999999999999999999877543356677775

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=96.81  E-value=0.001  Score=49.58  Aligned_cols=28  Identities=32%  Similarity=0.348  Sum_probs=25.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ..+|+|-||=|+||||||+.+.++....
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~~~   31 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLGFK   31 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhCCc
Confidence            4689999999999999999999998854

>cd04110 Rab35 Rab35 subfamily

Probab=96.80  E-value=0.0042  Score=45.68  Aligned_cols=24  Identities=29%  Similarity=0.524  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .--|.++|.+|+|||+|+..+.+.
T Consensus         6 ~~kivvvG~~~vGKTsli~~l~~~   29 (199)
T cd04110           6 LFKLLIIGDSGVGKSSLLLRFADN   29 (199)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            445779999999999999988654

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

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.79  E-value=0.0011  Score=48.87  Aligned_cols=26  Identities=19%  Similarity=0.316  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -.+++|+|+.|+|||||++.+.....
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            45899999999999999999987653

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=96.79  E-value=0.0013  Score=43.93  Aligned_cols=24  Identities=21%  Similarity=0.306  Sum_probs=20.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCc
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      |.|+|..|+|||||.+.+......
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~~~~   25 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGGEFP   25 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSS--
T ss_pred             EEEECcCCCCHHHHHHHHhcCCCc
Confidence            679999999999999999877654

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>PRK04132 replication factor C small subunit; Provisional

Probab=96.79  E-value=0.011  Score=52.63  Aligned_cols=88  Identities=14%  Similarity=0.097  Sum_probs=62.8

Q ss_pred             CCCcchHHHHHHHHccC-----Cce---------------------------------EEEEEeCCCCCChhhHHHHHhh
Q 039127           56 MGGSGNTTPALPVYNDK-----TVN---------------------------------FNFALDDTWKEKYVDWTNMRDL   97 (162)
Q Consensus        56 ~gGiGKTtLa~~~~~~~-----~~~---------------------------------~LlVlDdv~~~~~~~~~~l~~~   97 (162)
                      +-++||||+|..++++.     ...                                 -++|+|+++..+...+..|+..
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR~iIk~~a~~~~~~~~~~KVvIIDEaD~Lt~~AQnALLk~  653 (846)
T PRK04132        574 PTVLHNTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRT  653 (846)
T ss_pred             CCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHHHHHHHHHhcCCcCCCCCEEEEEECcccCCHHHHHHHHHH
Confidence            56899999999998874     111                                 4899999998888899999888


Q ss_pred             ccccCCCcEEEEecC-ChhhHhhhC-CCCeeeCCCCCHHHHHHHHhhC
Q 039127           98 FAAVASRSKVIVTTR-NQGVASIMG-TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        98 l~~~~~gs~iiiTTR-~~~v~~~~~-~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      +..-....++|.++. ...+...+. ....+.+.+++.++....+...
T Consensus       654 lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I  701 (846)
T PRK04132        654 MEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYI  701 (846)
T ss_pred             hhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHH
Confidence            876444555555444 444433332 2347999999998887776644

>TIGR01287 nifH nitrogenase iron protein

Probab=96.79  E-value=0.001  Score=51.51  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      +.|+|.|-||+||||+|..+...
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~   23 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAA   23 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHH
Confidence            36889999999999988766543

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.

>cd04177 RSR1 RSR1 subgroup

Probab=96.79  E-value=0.0044  Score=44.00  Aligned_cols=22  Identities=23%  Similarity=0.543  Sum_probs=19.1

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++++|.+|+|||+|.+.+.+..
T Consensus         4 i~liG~~~~GKTsli~~~~~~~   25 (168)
T cd04177           4 IVVLGAGGVGKSALTVQFVQNV   25 (168)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6899999999999999987554

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.78  E-value=0.0064  Score=44.97  Aligned_cols=22  Identities=23%  Similarity=0.406  Sum_probs=18.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+.|.|..|+||||++..+...
T Consensus         3 lilI~GptGSGKTTll~~ll~~   24 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDY   24 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999875543

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.

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

Probab=96.78  E-value=0.0019  Score=51.83  Aligned_cols=99  Identities=17%  Similarity=0.120  Sum_probs=61.5

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC------
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE------   86 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~------   86 (162)
                      ...+=|.++|++|.|||-||++++++-...                                 +++.+|.++.-      
T Consensus       183 ~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d  262 (406)
T COG1222         183 DPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFD  262 (406)
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHhccchHHHHHHHHHHhhcCCeEEEEechhhhhccccc
Confidence            345667799999999999999999987654                                 88889987631      


Q ss_pred             -----ChhhHHHHHhhc---ccc--CCCcEEEEecCChhhHh--hhCC---CCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 -----KYVDWTNMRDLF---AAV--ASRSKVIVTTRNQGVAS--IMGT---MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 -----~~~~~~~l~~~l---~~~--~~gs~iiiTTR~~~v~~--~~~~---~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                           +.+-.-.+...|   ...  ...-+||..|...++..  .+.+   +..+++..-+.+--.++|+-++
T Consensus       263 ~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHt  335 (406)
T COG1222         263 SGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHT  335 (406)
T ss_pred             CCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHh
Confidence                 222232333332   221  22347888776655432  2222   3357777555666667776554

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.78  E-value=0.0015  Score=48.25  Aligned_cols=26  Identities=27%  Similarity=0.252  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...++.|+|.+|+||||||+.+....
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999998764

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.77  E-value=0.00089  Score=47.64  Aligned_cols=32  Identities=25%  Similarity=0.284  Sum_probs=23.7

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCceEEEEEeCC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVNFNFALDDT   83 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv   83 (162)
                      +.++|++|+||||+|+.+.+.... .++=.|++
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~-~~v~~D~~   32 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGA-KFIEGDDL   32 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCC-eEEeCccc
Confidence            468999999999999999887642 33334554

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>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=96.77  E-value=0.00099  Score=48.55  Aligned_cols=35  Identities=40%  Similarity=0.491  Sum_probs=26.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc---e-EEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV---N-FNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~---~-~LlVlDdv~   84 (162)
                      +|+|.|.+|+||||||+.+......   . ..+-+||..
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf~   39 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYY   39 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhcc
Confidence            4789999999999999999877432   1 455567665

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.77  E-value=0.0014  Score=47.83  Aligned_cols=25  Identities=20%  Similarity=0.343  Sum_probs=22.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .++|+|+.|+|||||++.+......
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~~~   28 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQREQT   28 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCC
Confidence            6889999999999999999877543

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=96.77  E-value=0.0069  Score=50.33  Aligned_cols=87  Identities=14%  Similarity=0.111  Sum_probs=56.5

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------   75 (162)
                      ...++|...   ++.+.+..-.     ..-..+.|.|.+|+|||++|+.+++.....                       
T Consensus       137 ~~~lig~s~~~~~l~~~~~~~~-----~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~~~~~lfg  211 (469)
T PRK10923        137 TTDIIGEAPAMQDVFRIIGRLS-----RSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFG  211 (469)
T ss_pred             cccceecCHHHHHHHHHHHHHh-----ccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHHHHHHhcC
Confidence            356888876   3333332211     112346699999999999999987754311                       


Q ss_pred             ----------------------EEEEEeCCCCCChhhHHHHHhhccccC-----------CCcEEEEecCC
Q 039127           76 ----------------------FNFALDDTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRN  113 (162)
Q Consensus        76 ----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~  113 (162)
                                            =.++||++..........|...+..+.           ...+||+||..
T Consensus       212 ~~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~~~~  282 (469)
T PRK10923        212 HEKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQ  282 (469)
T ss_pred             CCCCCCCCCCcCCCCCeeECCCCEEEEeccccCCHHHHHHHHHHHhcCcEEeCCCCCeEEeeEEEEEeCCC
Confidence                                  136889998777777888877765321           01278888864

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.77  E-value=0.0015  Score=54.57  Aligned_cols=113  Identities=14%  Similarity=0.113  Sum_probs=70.4

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      ...++||++   .+...++.+.         -+.+.|.+|+|||+||+.+......                        
T Consensus        19 ~~~i~gre~vI~lll~aalag~---------hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG~l~i~   89 (498)
T PRK13531         19 EKGLYERSHAIRLCLLAALSGE---------SVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQ   89 (498)
T ss_pred             hhhccCcHHHHHHHHHHHccCC---------CEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcCcHHHh
Confidence            467999999   3333344443         5669999999999999988752110                        


Q ss_pred             ---------e---------EEEEEeCCCCCChhhHHHHHhhcccc--CCC-------cEEEEecCChhhH------hhhC
Q 039127           75 ---------N---------FNFALDDTWKEKYVDWTNMRDLFAAV--ASR-------SKVIVTTRNQGVA------SIMG  121 (162)
Q Consensus        75 ---------~---------~LlVlDdv~~~~~~~~~~l~~~l~~~--~~g-------s~iiiTTR~~~v~------~~~~  121 (162)
                               +         -++++|+++..+......|...+...  ..|       .++++++.+.-..      ....
T Consensus        90 ~~~~~g~f~r~~~G~L~~A~lLfLDEI~rasp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN~LPE~g~~leAL~D  169 (498)
T PRK13531         90 ALKDEGRYQRLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERRFRNGAHEEKIPMRLLVTASNELPEADSSLEALYD  169 (498)
T ss_pred             hhhhcCchhhhcCCccccccEEeecccccCCHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECCCCcccCCchHHhHh
Confidence                     0         26899999988888888887776321  112       2455544453221      1111


Q ss_pred             C-CCeeeCCCCCHH-HHHHHHhhC
Q 039127          122 T-MPAYELKKLVND-NCLLIFSQH  143 (162)
Q Consensus       122 ~-~~~~~l~~L~~~-~~~~lf~~~  143 (162)
                      . .-.+.+++++.+ +-..++...
T Consensus       170 RFliri~vp~l~~~~~e~~lL~~~  193 (498)
T PRK13531        170 RMLIRLWLDKVQDKANFRSMLTSQ  193 (498)
T ss_pred             hEEEEEECCCCCchHHHHHHHHcc
Confidence            1 114789999854 447777654

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=96.76  E-value=0.019  Score=47.52  Aligned_cols=112  Identities=12%  Similarity=0.068  Sum_probs=67.8

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      ..++|...   ++.+.+..-.     .....+.|.|..|.||+++|+.++......                        
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a-----~~~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~~~~lfg~  208 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLS-----RSDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLIESELFGH  208 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHh-----CcCCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHHHHHhcCC
Confidence            35788766   4444443322     112356799999999999999987543211                        


Q ss_pred             ---------------------EEEEEeCCCCCChhhHHHHHhhccccC-----------CCcEEEEecCChhh-------
Q 039127           76 ---------------------FNFALDDTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRNQGV-------  116 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~~~v-------  116 (162)
                                           -.|+||++...+...+..|...+..+.           ...+||.||....-       
T Consensus       209 ~~~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~  288 (463)
T TIGR01818       209 EKGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGK  288 (463)
T ss_pred             CCCCCCCcccCCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHHcCC
Confidence                                 237889998777777888877665321           13478888855321       


Q ss_pred             -----HhhhCCCCeeeCCCCC--HHHHHHHH
Q 039127          117 -----ASIMGTMPAYELKKLV--NDNCLLIF  140 (162)
Q Consensus       117 -----~~~~~~~~~~~l~~L~--~~~~~~lf  140 (162)
                           ...+. ...+++.+|.  .+|--.|.
T Consensus       289 f~~~L~~rl~-~~~i~lPpLr~R~~Di~~l~  318 (463)
T TIGR01818       289 FREDLFHRLN-VIRIHLPPLRERREDIPRLA  318 (463)
T ss_pred             cHHHHHHHhC-cceecCCCcccchhhHHHHH
Confidence                 11111 1247788887  44544443

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=96.76  E-value=0.0012  Score=46.31  Aligned_cols=24  Identities=33%  Similarity=0.409  Sum_probs=20.8

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCc
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      |.++|++|+||||+|+.+......
T Consensus         2 i~l~G~~GsGKstla~~la~~l~~   25 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALGL   25 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCC
Confidence            679999999999999999877643

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.76  E-value=0.0017  Score=47.20  Aligned_cols=27  Identities=19%  Similarity=0.166  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++++|+|..|+|||||++.+.....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~   31 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALC   31 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHh
Confidence            467999999999999999998886554

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=96.75  E-value=0.0055  Score=53.07  Aligned_cols=74  Identities=9%  Similarity=0.045  Sum_probs=50.5

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------   75 (162)
                      .+.++|...   ++++.+..-.    .... -|.|+|..|+||+++|+.+++.....                       
T Consensus       324 ~~~l~g~s~~~~~~~~~~~~~a----~~~~-pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~~~~elfg  398 (638)
T PRK11388        324 FDHMPQDSPQMRRLIHFGRQAA----KSSF-PVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALAEEFLG  398 (638)
T ss_pred             ccceEECCHHHHHHHHHHHHHh----CcCC-CEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHHHHHHhcC
Confidence            457889887   3333333211    1123 35699999999999999998643211                       


Q ss_pred             -------------------EEEEEeCCCCCChhhHHHHHhhccc
Q 039127           76 -------------------FNFALDDTWKEKYVDWTNMRDLFAA  100 (162)
Q Consensus        76 -------------------~LlVlDdv~~~~~~~~~~l~~~l~~  100 (162)
                                         =.|+||++.......+..|...+..
T Consensus       399 ~~~~~~~~~~~g~~~~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~  442 (638)
T PRK11388        399 SDRTDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKT  442 (638)
T ss_pred             CCCcCccCCCCCceeECCCCEEEEcChhhCCHHHHHHHHHHHhc
Confidence                               1379999998888888888887753

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.75  E-value=0.0087  Score=42.30  Aligned_cols=72  Identities=17%  Similarity=0.224  Sum_probs=47.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------------------EEEEEe
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------------------FNFALD   81 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------------------~LlVlD   81 (162)
                      .+++|.|..|.|||||.+.+.......                                               -++++|
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~~~~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~~r~~l~~~l~~~~~i~ilD  105 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQRQRVALARALLLNPDLLLLD  105 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEEcccCCHHHHHhceEEEeeCCHHHHHHHHHHHHHhcCCCEEEEe
Confidence            588999999999999999997643211                                               688889


Q ss_pred             CCCC-CChhhHHHHHhhcccc-CCCcEEEEecCChhhHhhh
Q 039127           82 DTWK-EKYVDWTNMRDLFAAV-ASRSKVIVTTRNQGVASIM  120 (162)
Q Consensus        82 dv~~-~~~~~~~~l~~~l~~~-~~gs~iiiTTR~~~v~~~~  120 (162)
                      +... .+......+...+... ..+..++++|.+.......
T Consensus       106 Ep~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~~  146 (157)
T cd00267         106 EPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAELA  146 (157)
T ss_pred             CCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHh
Confidence            7653 2344444444444321 2246688888877665543

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=96.75  E-value=0.001  Score=47.70  Aligned_cols=26  Identities=38%  Similarity=0.474  Sum_probs=23.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +|+|.|.+|+||||+|+.+..+..-.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~   27 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK   27 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc
Confidence            68899999999999999998887644

>cd04121 Rab40 Rab40 subfamily

Probab=96.75  E-value=0.0048  Score=45.30  Aligned_cols=24  Identities=8%  Similarity=0.196  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..-|.++|.+|+|||+|...+...
T Consensus         6 ~~KivviG~~~vGKTsll~~~~~~   29 (189)
T cd04121           6 LLKFLLVGDSDVGKGEILASLQDG   29 (189)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            345679999999999999998764

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for 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 d

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.74  E-value=0.0052  Score=47.25  Aligned_cols=22  Identities=23%  Similarity=0.419  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ..++|+|+.|.|||||.+.+..
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            5899999999999999999976

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=96.74  E-value=0.0014  Score=50.39  Aligned_cols=27  Identities=22%  Similarity=-0.025  Sum_probs=23.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      -..+.|.|.+|+|||||++.+++....
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccc
Confidence            457889999999999999999987654

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=96.74  E-value=0.0047  Score=46.33  Aligned_cols=24  Identities=33%  Similarity=0.462  Sum_probs=19.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .--|.++|.+|+|||+|...+...
T Consensus        13 ~~Ki~vvG~~gvGKTsli~~~~~~   36 (219)
T PLN03071         13 SFKLVIVGDGGTGKTTFVKRHLTG   36 (219)
T ss_pred             ceEEEEECcCCCCHHHHHHHHhhC
Confidence            345779999999999999987543

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=96.74  E-value=0.008  Score=47.00  Aligned_cols=94  Identities=13%  Similarity=0.104  Sum_probs=64.4

Q ss_pred             hHHHHHhccccccccCCCCCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------
Q 039127            4 KIKAVFDDADERQTVVPSVKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------   75 (162)
Q Consensus         4 ~i~~~~~~~~~~~~~~~~~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------   75 (162)
                      +|..-+.....+....+..+.|++-..  +++.++....     ..-+.+.++|+.|+|||+-++.+++.....      
T Consensus        53 ~ia~~le~~~~q~~~~~~~~~~l~tkt~r~~~~~~~~A~-----k~g~l~~vyg~~g~gKt~a~~~y~~s~p~~~l~~~~  127 (297)
T COG2842          53 KIAAFLEKKGVQAALEKLAPDFLETKTVRRIFFRTRPAS-----KTGSLVVVYGYAGLGKTQAAKNYAPSNPNALLIEAD  127 (297)
T ss_pred             HHHHHHcCCCcccccccccccccccchhHhHhhhhhhhh-----hcCceEEEeccccchhHHHHHhhcccCccceeecCC
Confidence            345555555555555567788988777  5555544322     223478899999999999999999877654      


Q ss_pred             ---------------------------------------EEEEEeCCCCCChhhHHHHHhhccccC
Q 039127           76 ---------------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVA  102 (162)
Q Consensus        76 ---------------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~  102 (162)
                                                             -+++.|+..+.....++.++......+
T Consensus       128 p~~~a~~~i~~i~~~~~~~~~~~~~d~~~~~~~~l~~~~~~iivDEA~~L~~~ale~lr~i~d~~G  193 (297)
T COG2842         128 PSYTALVLILIICAAAFGATDGTINDLTERLMIRLRDTVRLIIVDEADRLPYRALEELRRIHDKTG  193 (297)
T ss_pred             hhhHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHccCcceeeeehhhccChHHHHHHHHHHHhhC
Confidence                                                   577788877667777777776655433

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=96.73  E-value=0.01  Score=46.65  Aligned_cols=102  Identities=13%  Similarity=0.069  Sum_probs=66.0

Q ss_pred             CCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------------------------EEEEEe
Q 039127           44 IDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------------------------FNFALD   81 (162)
Q Consensus        44 ~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------------------------~LlVlD   81 (162)
                      ...+.-+++.+|-.|.||...++.+.+.....                                          -|+|+|
T Consensus       106 ~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFD  185 (344)
T KOG2170|consen  106 NPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPHASKIEDYKEELKNRVRGTVQACQRSLFIFD  185 (344)
T ss_pred             CCCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCChHHHHHHHHHHHHHHHHHHHhcCCceEEec
Confidence            34567799999999999999998887655433                                          799999


Q ss_pred             CCCCCChhhHHHHHhhccccCCCc------EEEE-ec--CChhhHh----hh---CCCCeeeCCCCCHHHHHHHHhhCCC
Q 039127           82 DTWKEKYVDWTNMRDLFAAVASRS------KVIV-TT--RNQGVAS----IM---GTMPAYELKKLVNDNCLLIFSQHPS  145 (162)
Q Consensus        82 dv~~~~~~~~~~l~~~l~~~~~gs------~iii-TT--R~~~v~~----~~---~~~~~~~l~~L~~~~~~~lf~~~af  145 (162)
                      +++.....-.+.|.+.+......+      .|.| -|  ....++.    ..   ...+.++++.+++.-+...|...+.
T Consensus       186 E~DKmp~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN~gg~eI~~~aL~~~~~g~~re~~~l~~~E~~L~~~~~n~~~~  265 (344)
T KOG2170|consen  186 EVDKLPPGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSNAGGSEIARIALENARNGKPREQLRLKSFEPALMQSAFNEKAG  265 (344)
T ss_pred             hhhhcCHhHHHHHhhhhccccccccccccceEEEEEcCCcchHHHHHHHHHHHcCCCcccchhhhhhHHHHHhhhccccc
Confidence            999888888888877765222211      2333 23  2233332    11   1223466777776667777766643

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=96.72  E-value=0.0075  Score=52.71  Aligned_cols=25  Identities=28%  Similarity=0.197  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       492 ~~iaIvG~sGsGKSTLlklL~gl~~  516 (694)
T TIGR03375       492 EKVAIIGRIGSGKSTLLKLLLGLYQ  516 (694)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4789999999999999999875543

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=96.71  E-value=0.0074  Score=53.09  Aligned_cols=113  Identities=12%  Similarity=0.115  Sum_probs=69.2

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------   75 (162)
                      ..-++||++   .+++.|....     .+-+  .++|.+|+|||.+|.-++.+.-..                       
T Consensus       169 lDPvIGRd~EI~r~iqIL~RR~-----KNNP--vLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~LvAGa  241 (786)
T COG0542         169 LDPVIGRDEEIRRTIQILSRRT-----KNNP--VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGSLVAGA  241 (786)
T ss_pred             CCCCcChHHHHHHHHHHHhccC-----CCCC--eEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHHHhccc
Confidence            356899999   5666666544     1222  378999999999886665544322                       


Q ss_pred             ----------------------EEEEEeCCCCC----C-----hhhHHHHHhhccccCCCcEEEEecCChhh------Hh
Q 039127           76 ----------------------FNFALDDTWKE----K-----YVDWTNMRDLFAAVASRSKVIVTTRNQGV------AS  118 (162)
Q Consensus        76 ----------------------~LlVlDdv~~~----~-----~~~~~~l~~~l~~~~~gs~iiiTTR~~~v------~~  118 (162)
                                            .+|.+|.++..    .     .+.-.-|++.|.. +.--.|-.||-++.=      +.
T Consensus       242 kyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLAR-GeL~~IGATT~~EYRk~iEKD~A  320 (786)
T COG0542         242 KYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALAR-GELRCIGATTLDEYRKYIEKDAA  320 (786)
T ss_pred             cccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhc-CCeEEEEeccHHHHHHHhhhchH
Confidence                                  88889988631    1     2222334444432 222346667754321      11


Q ss_pred             hhCCCCeeeCCCCCHHHHHHHHhh
Q 039127          119 IMGTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       119 ~~~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                      ....-+.+.+...+.+++..+++-
T Consensus       321 L~RRFQ~V~V~EPs~e~ti~ILrG  344 (786)
T COG0542         321 LERRFQKVLVDEPSVEDTIAILRG  344 (786)
T ss_pred             HHhcCceeeCCCCCHHHHHHHHHH
Confidence            222345788999999999999964

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=96.70  E-value=0.012  Score=46.31  Aligned_cols=24  Identities=17%  Similarity=0.283  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|.|..|.|||||.+.+....
T Consensus        29 ei~~l~G~NGaGKTTLl~~l~Gl~   52 (301)
T TIGR03522        29 RIVGFLGPNGAGKSTTMKIITGYL   52 (301)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            489999999999999999997653

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.70  E-value=0.0016  Score=48.27  Aligned_cols=27  Identities=19%  Similarity=0.188  Sum_probs=23.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..++.|.|.+|+||||+|+.+..+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~~~   29 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHRAI   29 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            468899999999999999999887643

>PRK13236 nitrogenase reductase; Reviewed

Probab=96.70  E-value=0.0018  Score=50.93  Aligned_cols=25  Identities=24%  Similarity=0.360  Sum_probs=20.7

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .+.+++++.|-||+||||+|..+..
T Consensus         4 ~~~~~~~~~GKGGVGKTt~a~NLA~   28 (296)
T PRK13236          4 ENIRQIAFYGKGGIGKSTTSQNTLA   28 (296)
T ss_pred             cCceEEEEECCCcCCHHHHHHHHHH
Confidence            4679999999999999997765543

>PRK13230 nitrogenase reductase-like protein; Reviewed

Probab=96.69  E-value=0.0015  Score=50.67  Aligned_cols=24  Identities=21%  Similarity=0.242  Sum_probs=19.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++++|+|-||+||||+|..+....
T Consensus         2 ~~i~~~gKGGVGKTT~a~nLA~~L   25 (279)
T PRK13230          2 RKFCFYGKGGIGKSTTVCNIAAAL   25 (279)
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            478888999999999886665443

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=96.69  E-value=0.0013  Score=48.96  Aligned_cols=23  Identities=30%  Similarity=0.420  Sum_probs=18.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ++|+|.|-||+||||++..+...
T Consensus         1 ~~iav~gKGGvGKTt~~~nLA~~   23 (212)
T cd02117           1 RQIAIYGKGGIGKSTTSQNLSAA   23 (212)
T ss_pred             CEEEEECCCcCcHHHHHHHHHHH
Confidence            46889999999999977665443

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=96.69  E-value=0.0061  Score=43.06  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -+.++|.+|+|||+|...+.+..
T Consensus         4 ki~i~G~~~vGKSsli~~~~~~~   26 (166)
T cd01869           4 KLLLIGDSGVGKSCLLLRFADDT   26 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999987643

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

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=96.69  E-value=0.012  Score=46.25  Aligned_cols=24  Identities=25%  Similarity=0.229  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||.+.+..-.
T Consensus        20 e~~~l~G~NGaGKSTLl~~l~Gl~   43 (302)
T TIGR01188        20 EVFGFLGPNGAGKTTTIRMLTTLL   43 (302)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            488999999999999999997653

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>PRK15115 response regulator GlrR; Provisional

Probab=96.69  E-value=0.012  Score=48.49  Aligned_cols=65  Identities=15%  Similarity=0.128  Sum_probs=46.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce---------------------------------------------EEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------------------FNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------------------~LlVlDdv~   84 (162)
                      .+.|.|.+|+|||++|+.+++.....                                             -.|+||+++
T Consensus       159 ~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~~i~  238 (444)
T PRK15115        159 SVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHARGAFTGAVSNREGLFQAAEGGTLFLDEIG  238 (444)
T ss_pred             eEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHHHHHhcCCCcCCCCCCccCCCCcEEECCCCEEEEEccc
Confidence            45699999999999999987653311                                             247899998


Q ss_pred             CCChhhHHHHHhhccccC---C--------CcEEEEecCCh
Q 039127           85 KEKYVDWTNMRDLFAAVA---S--------RSKVIVTTRNQ  114 (162)
Q Consensus        85 ~~~~~~~~~l~~~l~~~~---~--------gs~iiiTTR~~  114 (162)
                      ..+...+..|...+..+.   .        ..++|.||...
T Consensus       239 ~l~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~  279 (444)
T PRK15115        239 DMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRD  279 (444)
T ss_pred             cCCHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCC
Confidence            777888888877765421   1        33788877653

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.68  E-value=0.032  Score=40.93  Aligned_cols=90  Identities=13%  Similarity=0.082  Sum_probs=55.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------------EEEEEeCCCCCCh
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------------FNFALDDTWKEKY   88 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------------~LlVlDdv~~~~~   88 (162)
                      -..++|.|+.|+||+||++.++.+....                                       |--+.+|.|....
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~~l~~SVS~TTR~pR~gEv~G~dY~Fvs~~EF~~~i~~~~fLE~a~~~gnyYGT~~   83 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDDKLRFSVSATTRKPRPGEVDGVDYFFVTEEEFEELIERDEFLEWAEYHGNYYGTSR   83 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhcCeEEEEEeccCCCCCCCcCCceeEeCCHHHHHHHHhcCCcEEEEEEcCCcccCcH
Confidence            3578899999999999999999887443                                       6677777775433


Q ss_pred             hhHHHHHhhccccCCCcEEEEecCCh---hhHhhhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127           89 VDWTNMRDLFAAVASRSKVIVTTRNQ---GVASIMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        89 ~~~~~l~~~l~~~~~gs~iiiTTR~~---~v~~~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ...+..   +   ..|-.+|+-.--+   .+-..+.....+-+.|-+.++...-+..+
T Consensus        84 ~~ve~~---~---~~G~~vildId~qGa~qvk~~~p~~v~IFi~pPs~eeL~~RL~~R  135 (191)
T COG0194          84 EPVEQA---L---AEGKDVILDIDVQGALQVKKKMPNAVSIFILPPSLEELERRLKGR  135 (191)
T ss_pred             HHHHHH---H---hcCCeEEEEEehHHHHHHHHhCCCeEEEEEcCCCHHHHHHHHHcc
Confidence            332222   1   2244444433222   22223333335667788888777766654

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.68  E-value=0.0017  Score=45.54  Aligned_cols=34  Identities=21%  Similarity=0.219  Sum_probs=25.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce---EEEEEeC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN---FNFALDD   82 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~---~LlVlDd   82 (162)
                      ++|.|+|..|+|||||++.+.+....+   ...+.|.
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~   37 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHT   37 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEc
Confidence            478999999999999999998776543   4444543

>cd04118 Rab24 Rab24 subfamily

Probab=96.68  E-value=0.0064  Score=44.19  Aligned_cols=21  Identities=14%  Similarity=0.245  Sum_probs=18.4

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+++|.+|+|||+|...+.+.
T Consensus         3 i~vvG~~~vGKSsLi~~~~~~   23 (193)
T cd04118           3 VVMLGKESVGKTSLVERYVHH   23 (193)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999887754

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=96.68  E-value=0.0076  Score=51.63  Aligned_cols=25  Identities=20%  Similarity=0.214  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|.|||||++.+..-..
T Consensus       362 ~~v~IvG~sGsGKSTLl~lL~gl~~  386 (588)
T PRK13657        362 QTVAIVGPTGAGKSTLINLLQRVFD  386 (588)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCcC
Confidence            5789999999999999999975543

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.67  E-value=0.0079  Score=43.13  Aligned_cols=40  Identities=23%  Similarity=0.189  Sum_probs=28.6

Q ss_pred             EEEEEeCCCC---CChhhHHHHHhhccccCCCcEEEEecCChh
Q 039127           76 FNFALDDTWK---EKYVDWTNMRDLFAAVASRSKVIVTTRNQG  115 (162)
Q Consensus        76 ~LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~  115 (162)
                      =|+|||++..   ...-..+.+...+.....+..+|+|.|+..
T Consensus        97 dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          97 DLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             CEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            5999998752   133445566677776667778999999954

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.

>PRK14527 adenylate kinase; Provisional

Probab=96.66  E-value=0.0017  Score=47.59  Aligned_cols=26  Identities=23%  Similarity=0.242  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++.++|.+|+||||+|+.+.....
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~~~~   31 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQELG   31 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999886554

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

Probab=96.65  E-value=0.0014  Score=46.30  Aligned_cols=23  Identities=35%  Similarity=0.449  Sum_probs=20.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++.|+|.+|+||||||+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            46799999999999999988765

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

>cd03243 ABC_MutS_homologs 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

Probab=96.63  E-value=0.0091  Score=44.14  Aligned_cols=21  Identities=19%  Similarity=0.135  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHH
Q 039127           49 FVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      .+++|.|..|.|||||.+.+.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~   50 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIG   50 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHH
Confidence            688999999999999999887

Members of the MutS family also possess 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 clamps, and recognition of specific DNA stru

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.63  E-value=0.0016  Score=45.42  Aligned_cols=22  Identities=23%  Similarity=0.311  Sum_probs=20.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++|+|+.|+|||||++.+....
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            6899999999999999998764

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=96.63  E-value=0.0067  Score=43.21  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=18.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -|.++|..|+|||+|...+.+
T Consensus         2 ki~vvG~~~vGKTsli~~~~~   22 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLT   22 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            367999999999999988864

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=96.63  E-value=0.0063  Score=51.62  Aligned_cols=86  Identities=16%  Similarity=0.086  Sum_probs=56.5

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      .+++|...   ++.+.+..-.     ..-.-|.|.|..|+||+.+|+.+++.....                        
T Consensus       212 ~~iiG~S~~m~~~~~~i~~~A-----~~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e~lleseLFG~  286 (526)
T TIGR02329       212 DDLLGASAPMEQVRALVRLYA-----RSDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAESLLEAELFGY  286 (526)
T ss_pred             hheeeCCHHHHHHHHHHHHHh-----CCCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCChhHHHHHhcCC
Confidence            45899887   3444332211     112356699999999999999998643211                        


Q ss_pred             ----------------------EEEEEeCCCCCChhhHHHHHhhccccC---CC--------cEEEEecCC
Q 039127           76 ----------------------FNFALDDTWKEKYVDWTNMRDLFAAVA---SR--------SKVIVTTRN  113 (162)
Q Consensus        76 ----------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~---~g--------s~iiiTTR~  113 (162)
                                            =.|+||++...+......|...+....   .|        .+||.+|..
T Consensus       287 ~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~~Ll~~L~~~~~~r~g~~~~~~~dvRiIaat~~  357 (526)
T TIGR02329       287 EEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHC  357 (526)
T ss_pred             cccccccccccccccchhhcCCceEEecChHhCCHHHHHHHHHHHhcCcEEecCCCceeeecceEEeccCC
Confidence                                  148899998777888888887775421   11        277777754

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=96.62  E-value=0.011  Score=41.18  Aligned_cols=23  Identities=17%  Similarity=0.560  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+++|.+|+|||||...+.+..
T Consensus         3 ki~iiG~~~vGKTsl~~~~~~~~   25 (162)
T cd04138           3 KLVVVGAGGVGKSALTIQLIQNH   25 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            36789999999999999887654

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.

>PRK14532 adenylate kinase; Provisional

Probab=96.62  E-value=0.0017  Score=47.31  Aligned_cols=23  Identities=17%  Similarity=0.322  Sum_probs=20.5

Q ss_pred             EEEEcCCCcchHHHHHHHHccCC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      |.+.|++|+||||+|+.+.....
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~g   25 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEERG   25 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            67899999999999999987765

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=96.62  E-value=0.0034  Score=49.34  Aligned_cols=24  Identities=25%  Similarity=0.238  Sum_probs=20.6

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHH
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      ....+|+|.|..|+||||+|+.+.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~   83 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQ   83 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            356799999999999999997663

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.

>PRK04182 cytidylate kinase; Provisional

Probab=96.61  E-value=0.0019  Score=46.33  Aligned_cols=25  Identities=36%  Similarity=0.387  Sum_probs=22.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      +|.|.|+.|+||||+|+.+......
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~   26 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGL   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCC
Confidence            6889999999999999999987653

>PRK13946 shikimate kinase; Provisional

Probab=96.61  E-value=0.0016  Score=47.58  Aligned_cols=27  Identities=15%  Similarity=0.212  Sum_probs=23.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+.|.++|+.|+||||+++.+.+....
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~   36 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGL   36 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCC
Confidence            357889999999999999999987653

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.61  E-value=0.0017  Score=47.00  Aligned_cols=25  Identities=20%  Similarity=0.210  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..|.|+|+.|+||||+++.+.....
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHHcC
Confidence            4688999999999999999987754

>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=96.61  E-value=0.0015  Score=49.87  Aligned_cols=31  Identities=32%  Similarity=0.355  Sum_probs=21.9

Q ss_pred             EEcCCCcchHHHHHHHHccCCce----EEEEEeCC
Q 039127           53 IIGMGGSGNTTPALPVYNDKTVN----FNFALDDT   83 (162)
Q Consensus        53 I~G~gGiGKTtLa~~~~~~~~~~----~LlVlDdv   83 (162)
                      |+|++|+||||+++.+.+.....    +++=||=.
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            68999999999998887655443    77777743

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=96.61  E-value=0.0035  Score=44.10  Aligned_cols=24  Identities=38%  Similarity=0.451  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.+.++|..|+|||||++.+....
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCC
Confidence            357799999999999999997655

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

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.60  E-value=0.0036  Score=52.80  Aligned_cols=53  Identities=21%  Similarity=0.094  Sum_probs=38.5

Q ss_pred             CceeeehH------HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           23 KLWLGREE------GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        23 ~~~vGr~~------~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .++-|-++      +|++.|-++..-  -++.=.+-|.++|++|.|||-||++++....+.
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP  364 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP  364 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC
Confidence            46677777      788888765411  122224557799999999999999998887765

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

Probab=96.60  E-value=0.0078  Score=49.10  Aligned_cols=22  Identities=36%  Similarity=0.332  Sum_probs=17.9

Q ss_pred             eEEEEEEcCCCcchHH-HHHHHH
Q 039127           48 FFVIPIIGMGGSGNTT-PALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTt-La~~~~   69 (162)
                      -++++++|+.|+|||| ||+..+
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAa  225 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAA  225 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHH
Confidence            6899999999999998 555443

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=96.60  E-value=0.0025  Score=46.44  Aligned_cols=35  Identities=29%  Similarity=0.275  Sum_probs=27.6

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce--EEEEEe
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN--FNFALD   81 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--~LlVlD   81 (162)
                      +..++=+.|++|+||||+|.+++......  -..+||
T Consensus        22 ~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LD   58 (197)
T COG0529          22 KGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLD   58 (197)
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence            34677788999999999999998877655  455665

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=96.60  E-value=0.02  Score=41.32  Aligned_cols=26  Identities=35%  Similarity=0.397  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-..|.+.|+.|+||||+...+....
T Consensus        13 ~~~~ililGl~~sGKTtll~~l~~~~   38 (175)
T PF00025_consen   13 KEIKILILGLDGSGKTTLLNRLKNGE   38 (175)
T ss_dssp             SEEEEEEEESTTSSHHHHHHHHHSSS
T ss_pred             cEEEEEEECCCccchHHHHHHhhhcc
Confidence            34566799999999999999998654

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>PRK13948 shikimate kinase; Provisional

Probab=96.60  E-value=0.0021  Score=47.12  Aligned_cols=29  Identities=10%  Similarity=0.203  Sum_probs=24.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ..+.|.++|+.|+||||+++.+.+.....
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg~~   37 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALMLH   37 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            45678899999999999999999876543

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.60  E-value=0.0027  Score=46.65  Aligned_cols=26  Identities=15%  Similarity=0.231  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...++.|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            35688999999999999999997764

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.59  E-value=0.0013  Score=50.20  Aligned_cols=22  Identities=23%  Similarity=0.333  Sum_probs=19.2

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|++|+||||+|+.+....
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l   23 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKL   23 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHH
Confidence            6799999999999999887654

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.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.59  E-value=0.0033  Score=43.75  Aligned_cols=25  Identities=24%  Similarity=0.215  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .++.+.|.-|+|||||++.+.....
T Consensus        23 ~~i~l~G~lGaGKTtl~~~l~~~lg   47 (133)
T TIGR00150        23 TVVLLKGDLGAGKTTLVQGLLQGLG   47 (133)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            4899999999999999999987754

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.59  E-value=0.0093  Score=50.39  Aligned_cols=26  Identities=23%  Similarity=0.195  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -..++|+|..|+|||||++.+..-..
T Consensus       361 G~~vaIvG~SGsGKSTLl~lL~g~~~  386 (529)
T TIGR02868       361 GERVAILGPSGSGKSTLLMLLTGLLD  386 (529)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35889999999999999999975543

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=96.59  E-value=0.015  Score=40.68  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=19.5

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+++|.+|+|||||.+.+.+..
T Consensus         3 v~v~G~~~~GKTtli~~l~~~~   24 (164)
T smart00175        3 IILIGDSGVGKSSLLSRFTDGK   24 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999997654

Rab GTPases are implicated in vesicle trafficking.

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=96.58  E-value=0.0081  Score=44.81  Aligned_cols=52  Identities=17%  Similarity=0.058  Sum_probs=37.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------------------------
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------------------------   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------------------------   75 (162)
                      .-+.++|.+|+|||++|+.+..-...-                                                     
T Consensus        23 h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~~~~~~~~~~~~Pfr~phhs~s~~~liGgg~~~~PGei  102 (206)
T PF01078_consen   23 HHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAGLGPDEGLIRQRPFRAPHHSASEAALIGGGRPPRPGEI  102 (206)
T ss_dssp             --EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT---S---EEEE---EEEE-TT--HHHHHEEGGGEEE-CG
T ss_pred             CCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccccCCCCCceecCCCcccCCCCcCHHHHhCCCcCCCcCHH
Confidence            367799999999999999985322110                                                     


Q ss_pred             -----EEEEEeCCCCCChhhHHHHHhhccc
Q 039127           76 -----FNFALDDTWKEKYVDWTNMRDLFAA  100 (162)
Q Consensus        76 -----~LlVlDdv~~~~~~~~~~l~~~l~~  100 (162)
                           =.|.||++...+....+.|+.++..
T Consensus       103 slAh~GVLflDE~~ef~~~vld~Lr~ple~  132 (206)
T PF01078_consen  103 SLAHRGVLFLDELNEFDRSVLDALRQPLED  132 (206)
T ss_dssp             GGGTTSEEEECETTTS-HHHHHHHHHHHHH
T ss_pred             HHhcCCEEEechhhhcCHHHHHHHHHHHHC
Confidence                 4788999988888889999988864

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PHA02624 large T antigen; Provisional

Probab=96.57  E-value=0.007  Score=51.88  Aligned_cols=49  Identities=18%  Similarity=0.112  Sum_probs=37.4

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce---------------------EEEEEeCCC
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------FNFALDDTW   84 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------~LlVlDdv~   84 (162)
                      .+++.++..-     ++-+.+.++|+.|.|||||+..+.+-....                     .+.+|||+-
T Consensus       419 ~~lk~~l~gi-----PKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt~ks~FwL~pl~D~~~~l~dD~t  488 (647)
T PHA02624        419 DILKLIVENV-----PKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPPDKLNFELGCAIDQFMVVFEDVK  488 (647)
T ss_pred             HHHHHHHhcC-----CCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCcchhHHHhhhhhhceEEEeeecc
Confidence            3444555443     567899999999999999999998776322                     789999984

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

Probab=96.57  E-value=0.002  Score=49.43  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++|+|.|-||+||||++..+....
T Consensus         2 ~~iav~~KGGvGKTT~~~nLA~~L   25 (270)
T cd02040           2 RQIAIYGKGGIGKSTTTQNLSAAL   25 (270)
T ss_pred             cEEEEEeCCcCCHHHHHHHHHHHH
Confidence            467788999999999887665443

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.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.56  E-value=0.014  Score=46.79  Aligned_cols=69  Identities=20%  Similarity=0.116  Sum_probs=40.5

Q ss_pred             EEEEEeCCCCCChhhHHHHH-hhc----cccCCCcEEEEecCChhhH-------hhhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 FNFALDDTWKEKYVDWTNMR-DLF----AAVASRSKVIVTTRNQGVA-------SIMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ~LlVlDdv~~~~~~~~~~l~-~~l----~~~~~gs~iiiTTR~~~v~-------~~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .++|+|.++-.-...-..+. ..|    ....|-+-|-+|||.....       +......++-++.+.-++...++++.
T Consensus       139 ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~l  218 (408)
T KOG2228|consen  139 VIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKL  218 (408)
T ss_pred             EEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHH
Confidence            78888877632111111111 111    2245667788999985432       33333446677788889999998876


Q ss_pred             C
Q 039127          144 P  144 (162)
Q Consensus       144 a  144 (162)
                      .
T Consensus       219 l  219 (408)
T KOG2228|consen  219 L  219 (408)
T ss_pred             h
Confidence            4

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=96.56  E-value=0.0021  Score=50.22  Aligned_cols=24  Identities=29%  Similarity=0.340  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .++.+.|.+|+||||+|+.+..+.
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            467889999999999999998776

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.56  E-value=0.0019  Score=47.07  Aligned_cols=23  Identities=30%  Similarity=0.345  Sum_probs=20.7

Q ss_pred             EEEEcCCCcchHHHHHHHHccCC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      |.|.|++|+||||+|+.+.....
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~   24 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYG   24 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            67999999999999999988764

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK05439 pantothenate kinase; Provisional

Probab=96.56  E-value=0.0041  Score=49.30  Aligned_cols=40  Identities=20%  Similarity=0.066  Sum_probs=29.4

Q ss_pred             CCCeEEEEEEcCCCcchHHHHHHHHccCCc-----e-EEEEEeCCC
Q 039127           45 DGGFFVIPIIGMGGSGNTTPALPVYNDKTV-----N-FNFALDDTW   84 (162)
Q Consensus        45 ~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-----~-~LlVlDdv~   84 (162)
                      ....-+|+|.|.+|+||||+|+.+......     . .++-+||..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdFy  128 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQALLSRWPEHPKVELVTTDGFL  128 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHhhCCCCceEEEeccccc
Confidence            345789999999999999999888763321     1 466667764

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=96.56  E-value=0.012  Score=49.69  Aligned_cols=26  Identities=15%  Similarity=0.119  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -..++|+|..|+|||||++.+..-..
T Consensus       348 G~~~~ivG~sGsGKSTL~~ll~g~~~  373 (529)
T TIGR02857       348 GERVALVGPSGAGKSTLLNLLLGFVD  373 (529)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35889999999999999999976554

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.56  E-value=0.01  Score=50.76  Aligned_cols=25  Identities=20%  Similarity=0.182  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -..++|+|..|+|||||++.+..-.
T Consensus       376 G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        376 GQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3588999999999999999987655

>PF14516 AAA_35: AAA-like domain

Probab=96.55  E-value=0.028  Score=44.88  Aligned_cols=48  Identities=13%  Similarity=0.126  Sum_probs=36.7

Q ss_pred             cCCCCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           18 VVPSVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        18 ~~~~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++.+..+.|..   ++.+.|...+        ..+.|.|+-.+|||+|...+.+..+
T Consensus         6 ~~~~~~~Yi~R~~~e~~~~~~i~~~G--------~~~~I~apRq~GKTSll~~l~~~l~   56 (331)
T PF14516_consen    6 LPLDSPFYIERPPAEQECYQEIVQPG--------SYIRIKAPRQMGKTSLLLRLLERLQ   56 (331)
T ss_pred             CCCCCCcccCchHHHHHHHHHHhcCC--------CEEEEECcccCCHHHHHHHHHHHHH
Confidence            3456677789994   7777777644        4888999999999999988865554

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.55  E-value=0.0018  Score=46.83  Aligned_cols=20  Identities=35%  Similarity=0.438  Sum_probs=18.6

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      .|+|.|.+|+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            57899999999999999987

>PLN02200 adenylate kinase family protein

Probab=96.55  E-value=0.0023  Score=48.68  Aligned_cols=28  Identities=21%  Similarity=0.255  Sum_probs=23.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ...++.|.|++|+||||+|+.+......
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~g~   69 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETFGF   69 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3567899999999999999998876543

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=96.53  E-value=0.013  Score=50.35  Aligned_cols=25  Identities=24%  Similarity=0.174  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -..++|+|..|+|||||++.+....
T Consensus       361 G~~~~ivG~sGsGKSTL~~ll~g~~  385 (585)
T TIGR01192       361 GQTVAIVGPTGAGKTTLINLLQRVY  385 (585)
T ss_pred             CCEEEEECCCCCCHHHHHHHHccCC
Confidence            3588999999999999999986544

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=96.52  E-value=0.011  Score=49.97  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +.++|+|.+|+||||+.+.++.+.-
T Consensus       102 ~rygLiG~nG~Gkst~L~~i~~~e~  126 (614)
T KOG0927|consen  102 RRYGLIGPNGSGKSTFLRAIAGREV  126 (614)
T ss_pred             ceEEEEcCCCCcHhHHHHHHhcCCC
Confidence            5788999999999999999988764

>PRK07429 phosphoribulokinase; Provisional

Probab=96.52  E-value=0.0048  Score=49.27  Aligned_cols=39  Identities=18%  Similarity=0.097  Sum_probs=31.1

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce--EEEEEeCCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN--FNFALDDTW   84 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--~LlVlDdv~   84 (162)
                      ...-+|+|.|..|+|||||++.+.......  .++.+||..
T Consensus         6 ~~~~IIgI~G~SGSGKSTla~~L~~ll~~~~~~vi~~Dd~~   46 (327)
T PRK07429          6 DRPVLLGVAGDSGCGKTTFLRGLADLLGEELVTVICTDDYH   46 (327)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHhHhccCceEEEEecccc
Confidence            456799999999999999999999775432  466778874

>cd00154 Rab Rab family

Probab=96.51  E-value=0.019  Score=39.42  Aligned_cols=22  Identities=36%  Similarity=0.517  Sum_probs=19.4

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|.+|+|||||...+.+..
T Consensus         3 i~~~G~~~~GKStl~~~l~~~~   24 (159)
T cd00154           3 IVLIGDSGVGKTSLLLRFVDGK   24 (159)
T ss_pred             EEEECCCCCCHHHHHHHHHhCc
Confidence            6799999999999999987654

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

>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=96.50  E-value=0.0022  Score=46.63  Aligned_cols=23  Identities=26%  Similarity=0.289  Sum_probs=20.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998765

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=96.49  E-value=0.01  Score=48.84  Aligned_cols=24  Identities=33%  Similarity=0.232  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+.++|++|+|||+||+.+....
T Consensus       117 ~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382       117 SNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             ceEEEECCCCcCHHHHHHHHHHhc
Confidence            468899999999999999997554

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=96.49  E-value=0.012  Score=41.33  Aligned_cols=23  Identities=17%  Similarity=0.485  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+|+|.+|+|||||+..+.+..
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~   24 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGH   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            36799999999999999887543

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=96.49  E-value=0.011  Score=44.27  Aligned_cols=22  Identities=23%  Similarity=0.173  Sum_probs=19.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      .+++.|+|..|.|||||.+.+.
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~   50 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVA   50 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHH
Confidence            3788899999999999988875

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

>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=96.49  E-value=0.003  Score=49.19  Aligned_cols=35  Identities=23%  Similarity=0.223  Sum_probs=27.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce--EEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN--FNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~--~LlVlDdv~   84 (162)
                      +++|.|..|+|||||++.+.......  ..+..||+.
T Consensus         1 iigI~G~sGsGKSTl~~~L~~ll~~~~~~vi~~Dd~~   37 (273)
T cd02026           1 IIGVAGDSGCGKSTFLRRLTSLFGSDLVTVICLDDYH   37 (273)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhhCCCceEEEECcccc
Confidence            47899999999999999998765432  466678775

This enzyme 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.

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=96.48  E-value=0.014  Score=44.10  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|.|||||.+.++....
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~g~~~   51 (232)
T cd03300          27 EFFTLLGPSGCGKTTLLRLIAGFET   51 (232)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4889999999999999999976643

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08356 hypothetical protein; Provisional

Probab=96.48  E-value=0.0031  Score=46.41  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=19.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      ..++.|+|++|+||||+|+.+.
T Consensus         5 ~~~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          5 KMIVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHH
Confidence            3578999999999999999984

>cd04123 Rab21 Rab21 subfamily

Probab=96.48  E-value=0.018  Score=40.06  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=19.2

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++++|.+|+|||||...+.+..
T Consensus         3 i~i~G~~~~GKStli~~l~~~~   24 (162)
T cd04123           3 VVLLGEGRVGKTSLVLRYVENK   24 (162)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999998887654

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

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=96.47  E-value=0.043  Score=45.22  Aligned_cols=68  Identities=7%  Similarity=0.045  Sum_probs=40.9

Q ss_pred             EEEEEeCCCCCC---hhhHHHHH---hhccccCCCcEEEEecCChhhHhh----hC--CCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 FNFALDDTWKEK---YVDWTNMR---DLFAAVASRSKVIVTTRNQGVASI----MG--TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ~LlVlDdv~~~~---~~~~~~l~---~~l~~~~~gs~iiiTTR~~~v~~~----~~--~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      -++|+||+....   ..-|+.|.   ..+- ..+=.+||+.|-+......    +.  ..+.+.|...+.+.|..+..++
T Consensus       150 PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv-~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~  228 (431)
T PF10443_consen  150 PVVVIDNFLHKAEENDFIYDKLAEWAASLV-QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQ  228 (431)
T ss_pred             CEEEEcchhccCcccchHHHHHHHHHHHHH-hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHH
Confidence            589999986431   22223322   1122 2334478888876544432    21  1236789999999999999877


Q ss_pred             C
Q 039127          144 P  144 (162)
Q Consensus       144 a  144 (162)
                      .
T Consensus       229 L  229 (431)
T PF10443_consen  229 L  229 (431)
T ss_pred             h
Confidence            5

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=96.47  E-value=0.012  Score=51.46  Aligned_cols=25  Identities=32%  Similarity=0.303  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       501 ~~vaIvG~SGsGKSTLlklL~gl~~  525 (708)
T TIGR01193       501 SKTTIVGMSGSGKSTLAKLLVGFFQ  525 (708)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccCC
Confidence            4789999999999999999965543

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.47  E-value=0.013  Score=45.25  Aligned_cols=27  Identities=22%  Similarity=0.087  Sum_probs=23.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      -.+++|+|+.|+|||||.+.++.-.+.
T Consensus        28 G~i~~iiGpNG~GKSTLLk~l~g~l~p   54 (258)
T COG1120          28 GEITGILGPNGSGKSTLLKCLAGLLKP   54 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCCC
Confidence            358999999999999999999886553

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=96.47  E-value=0.0019  Score=46.00  Aligned_cols=21  Identities=29%  Similarity=0.237  Sum_probs=17.8

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+|.|..|+|||||++.+...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc
Confidence            789999999999999999987

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=96.46  E-value=0.0026  Score=45.29  Aligned_cols=24  Identities=38%  Similarity=0.411  Sum_probs=21.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +|.|.|..|+||||+|+.+.+...
T Consensus         2 iI~i~G~~GSGKstia~~la~~lg   25 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKLS   25 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            689999999999999999987654

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>TIGR01846 type_I_sec_HlyB type I secretion system ABC transporter, HlyB family

Probab=96.46  E-value=0.014  Score=50.97  Aligned_cols=25  Identities=32%  Similarity=0.284  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+.....
T Consensus       484 ~~vaivG~sGsGKSTL~~ll~g~~~  508 (694)
T TIGR01846       484 EFIGIVGPSGSGKSTLTKLLQRLYT  508 (694)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4789999999999999999976654

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>PRK14531 adenylate kinase; Provisional

Probab=96.46  E-value=0.0024  Score=46.50  Aligned_cols=25  Identities=20%  Similarity=0.315  Sum_probs=21.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .|.++|++|+||||+++.+......
T Consensus         4 ~i~i~G~pGsGKsT~~~~la~~~g~   28 (183)
T PRK14531          4 RLLFLGPPGAGKGTQAARLCAAHGL   28 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5789999999999999999777643

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=96.46  E-value=0.015  Score=49.68  Aligned_cols=25  Identities=24%  Similarity=0.163  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -..++|+|..|+|||||++.+....
T Consensus       341 G~~~~ivG~sGsGKSTLl~ll~g~~  365 (569)
T PRK10789        341 GQMLGICGPTGSGKSTLLSLIQRHF  365 (569)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccc
Confidence            3578999999999999999987544

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.46  E-value=0.0029  Score=54.93  Aligned_cols=27  Identities=22%  Similarity=0.234  Sum_probs=22.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .-|.|.|..|+|||+||+.+++.....
T Consensus       432 ~~Ill~G~~GsGKT~L~kal~~~~~k~  458 (952)
T KOG0735|consen  432 GNILLNGPKGSGKTNLVKALFDYYSKD  458 (952)
T ss_pred             ccEEEeCCCCCCHhHHHHHHHHHhccc
Confidence            467799999999999999998876643

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=96.45  E-value=0.0023  Score=45.90  Aligned_cols=25  Identities=20%  Similarity=0.329  Sum_probs=21.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+.|+|+.|+||||+|+.+......
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~lg~   28 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQALGY   28 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5778999999999999999987653

>cd00876 Ras Ras family

Probab=96.45  E-value=0.019  Score=39.79  Aligned_cols=21  Identities=19%  Similarity=0.561  Sum_probs=18.7

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |.|+|.+|+|||+|...+.+.
T Consensus         2 i~i~G~~~~GKTsli~~l~~~   22 (160)
T cd00876           2 VVVLGAGGVGKSAITIQFVKG   22 (160)
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            679999999999999998754

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

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.45  E-value=0.013  Score=50.10  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       370 ~~~aIvG~sGsGKSTLl~ll~gl~~  394 (582)
T PRK11176        370 KTVALVGRSGSGKSTIANLLTRFYD  394 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccC
Confidence            4789999999999999999976554

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=96.44  E-value=0.022  Score=44.95  Aligned_cols=25  Identities=20%  Similarity=0.243  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|.|..|.|||||.+.+..-..
T Consensus        34 ei~gllGpNGaGKSTLl~~l~Gl~~   58 (306)
T PRK13537         34 ECFGLLGPNGAGKTTTLRMLLGLTH   58 (306)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4899999999999999999976543

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.44  E-value=0.011  Score=41.47  Aligned_cols=21  Identities=14%  Similarity=0.346  Sum_probs=18.9

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+++|.+|+|||+|...+.+.
T Consensus         3 v~~vG~~~~GKTsl~~~~~~~   23 (162)
T cd04106           3 VIVVGNGNVGKSSMIQRFVKG   23 (162)
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998764

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

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=96.44  E-value=0.0079  Score=44.13  Aligned_cols=23  Identities=13%  Similarity=0.411  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+++|.+|+|||||+..+....
T Consensus         2 ~i~lvG~~g~GKSsl~N~ilg~~   24 (196)
T cd01852           2 RLVLVGKTGAGKSATGNTILGRE   24 (196)
T ss_pred             EEEEECCCCCCHHHHHHHhhCCC
Confidence            47789999999999998887654

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).

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=96.43  E-value=0.0028  Score=48.85  Aligned_cols=21  Identities=24%  Similarity=0.517  Sum_probs=16.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +|++.|-||+||||+|..+..
T Consensus         2 ~i~~~gKGGVGKTT~~~nLA~   22 (268)
T TIGR01281         2 ILAVYGKGGIGKSTTSSNLSV   22 (268)
T ss_pred             EEEEEcCCcCcHHHHHHHHHH
Confidence            577889999999997766543

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.

>cd04131 Rnd Rnd subfamily

Probab=96.43  E-value=0.012  Score=42.54  Aligned_cols=22  Identities=23%  Similarity=0.200  Sum_probs=19.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -|+++|.+|+|||+|...+...
T Consensus         3 Kiv~vG~~~vGKTsli~~~~~~   24 (178)
T cd04131           3 KIVVVGDVQCGKTALLQVFAKD   24 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3679999999999999988755

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. 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 proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=96.43  E-value=0.0029  Score=46.98  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=23.1

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+++++++|..|+|||||..++.+.
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999999888765

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=96.43  E-value=0.025  Score=43.17  Aligned_cols=40  Identities=18%  Similarity=0.169  Sum_probs=28.1

Q ss_pred             eeehH-----HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           26 LGREE-----GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        26 vGr~~-----~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +||+.     .++..|....       ..-..|.|.+|+|||||.+.++.-.
T Consensus       117 v~r~v~Gt~~~li~~ly~~g-------~lntLiigpP~~GKTTlLRdiaR~~  161 (308)
T COG3854         117 VARQVFGTANPLIKDLYQNG-------WLNTLIIGPPQVGKTTLLRDIARLL  161 (308)
T ss_pred             ehhhhhccchHHHHHHHhcC-------ceeeEEecCCCCChHHHHHHHHHHh
Confidence            55655     3566666554       4446789999999999988776543

>cd04159 Arl10_like Arl10-like subfamily

Probab=96.43  E-value=0.018  Score=39.61  Aligned_cols=21  Identities=29%  Similarity=0.442  Sum_probs=19.2

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+|+|..|+|||+|.+.+...
T Consensus         2 i~i~G~~~~GKssl~~~l~~~   22 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGG   22 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccC
Confidence            679999999999999999876

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.

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=96.42  E-value=0.01  Score=50.52  Aligned_cols=73  Identities=15%  Similarity=0.105  Sum_probs=50.2

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc---------CCce---------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND---------KTVN---------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~---------~~~~---------------   75 (162)
                      .+++|...   ++.+.+..-.     ..-.-|.|.|..|.||+.+|+.+++.         .+..               
T Consensus       219 ~~iiG~S~~m~~~~~~i~~~A-----~s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCaal~e~l  293 (538)
T PRK15424        219 GDLLGQSPQMEQVRQTILLYA-----RSSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCGAIAESL  293 (538)
T ss_pred             hheeeCCHHHHHHHHHHHHHh-----CCCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecccCChhh
Confidence            45899887   3444332211     11235669999999999999999876         2111               


Q ss_pred             ------------------------------EEEEEeCCCCCChhhHHHHHhhccc
Q 039127           76 ------------------------------FNFALDDTWKEKYVDWTNMRDLFAA  100 (162)
Q Consensus        76 ------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~  100 (162)
                                                    =.|+||++.......+..|...+..
T Consensus       294 leseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~Lp~~~Q~kLl~~L~e  348 (538)
T PRK15424        294 LEAELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEE  348 (538)
T ss_pred             HHHHhcCCccccccCccccccCCchhccCCCEEEEcChHhCCHHHHHHHHhhhhc
Confidence                                          1588999987778888888877754

>cd01864 Rab19 Rab19 subfamily

Probab=96.42  E-value=0.029  Score=39.49  Aligned_cols=23  Identities=26%  Similarity=0.307  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-++++|.+|+|||||+..+...
T Consensus         4 ~kv~vvG~~~~GKTsli~~l~~~   26 (165)
T cd01864           4 FKIILIGDSNVGKTCVVQRFKSG   26 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            45779999999999999888643

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.

>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria

Probab=96.41  E-value=0.0034  Score=44.49  Aligned_cols=33  Identities=24%  Similarity=0.324  Sum_probs=27.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTW   84 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv~   84 (162)
                      .-+.|.|.+|+||||+|..+..+-   +.+|=||.+
T Consensus        15 ~gvLi~G~sG~GKStlal~L~~~g---~~lvaDD~v   47 (149)
T cd01918          15 IGVLITGPSGIGKSELALELIKRG---HRLVADDRV   47 (149)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC---CeEEECCEE
Confidence            456799999999999998888776   677888865

It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA

Probab=96.41  E-value=0.011  Score=52.23  Aligned_cols=61  Identities=11%  Similarity=0.086  Sum_probs=41.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc-----e----------------------------------------EEEEEeCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV-----N----------------------------------------FNFALDDT   83 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~-----~----------------------------------------~LlVlDdv   83 (162)
                      ++..|.|.+|.||||+++.+......     .                                        -++|+|++
T Consensus       369 ~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg~Aa~~L~~~~g~~a~Ti~~~~~~~~~~~~~~~~~~llIvDEa  448 (744)
T TIGR02768       369 DIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSGKAAEGLQAESGIESRTLASLEYAWANGRDLLSDKDVLVIDEA  448 (744)
T ss_pred             CEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHhccCCceeeHHHHHhhhccCcccCCCCcEEEEECc
Confidence            37789999999999999887533211     1                                        58999998


Q ss_pred             CCCChhhHHHHHhhccccCCCcEEEEec
Q 039127           84 WKEKYVDWTNMRDLFAAVASRSKVIVTT  111 (162)
Q Consensus        84 ~~~~~~~~~~l~~~l~~~~~gs~iiiTT  111 (162)
                      ...+...+..|.....  ..|+++|+--
T Consensus       449 sMv~~~~~~~Ll~~~~--~~~~kliLVG  474 (744)
T TIGR02768       449 GMVGSRQMARVLKEAE--EAGAKVVLVG  474 (744)
T ss_pred             ccCCHHHHHHHHHHHH--hcCCEEEEEC
Confidence            7666666655544322  3467777655

This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=96.41  E-value=0.013  Score=49.87  Aligned_cols=25  Identities=20%  Similarity=0.228  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+.....
T Consensus       359 ~~v~IvG~sGsGKSTLl~lL~gl~~  383 (571)
T TIGR02203       359 ETVALVGRSGSGKSTLVNLIPRFYE  383 (571)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccC
Confidence            4789999999999999999865543

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>PRK13232 nifH nitrogenase reductase; Reviewed

Probab=96.40  E-value=0.0025  Score=49.36  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=18.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++|+|.|-||+||||+|..+....
T Consensus         2 ~~iav~gKGGVGKTT~a~nLA~~L   25 (273)
T PRK13232          2 RQIAIYGKGGIGKSTTTQNLTAAL   25 (273)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            467788999999999887765443

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=96.40  E-value=0.023  Score=40.34  Aligned_cols=22  Identities=18%  Similarity=0.385  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.|+|.+|+|||+|...+....
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~   22 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNA   22 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCC
Confidence            4689999999999998876644

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=96.40  E-value=0.003  Score=48.10  Aligned_cols=25  Identities=28%  Similarity=0.302  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||++.+..-.+
T Consensus        34 e~lgivGeSGsGKSTL~r~l~Gl~~   58 (252)
T COG1124          34 ETLGIVGESGSGKSTLARLLAGLEK   58 (252)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhcccC
Confidence            4889999999999999999865443

>PLN02796 D-glycerate 3-kinase

Probab=96.39  E-value=0.0053  Score=49.28  Aligned_cols=38  Identities=24%  Similarity=0.263  Sum_probs=30.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce----EEEEEeCCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN----FNFALDDTW   84 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----~LlVlDdv~   84 (162)
                      ..-+++|.|..|+|||||++.+.......    ..+-+||..
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~lL~~~g~~~g~IsiDdfY  140 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYLFNATGRRAASLSIDDFY  140 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHhcccCCceeEEEECCcc
Confidence            45789999999999999999998766432    556678875

>PRK09825 idnK D-gluconate kinase; Provisional

Probab=96.39  E-value=0.0031  Score=45.83  Aligned_cols=26  Identities=15%  Similarity=0.158  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .++.|+|..|+|||||++.+......
T Consensus         4 e~i~l~G~sGsGKSTl~~~la~~l~~   29 (176)
T PRK09825          4 ESYILMGVSGSGKSLIGSKIAALFSA   29 (176)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            47899999999999999999886653

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=96.38  E-value=0.005  Score=52.71  Aligned_cols=48  Identities=17%  Similarity=0.237  Sum_probs=33.3

Q ss_pred             CceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           23 KLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        23 ~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      +.++-|.+  +++..+....    ...-.+|.++|+.|+||||+|+.++.....
T Consensus       369 P~~f~rpeV~~iL~~~~~~r----~~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        369 PEWFSFPEVVAELRRTYPPR----HKQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             ChhhcHHHHHHHHHHHhccc----cCCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            44555666  4555554443    233447889999999999999999887653

>cd01862 Rab7 Rab7 subfamily

Probab=96.38  E-value=0.0032  Score=44.57  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||||++.+.+..
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~~   24 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNKK   24 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36799999999999999887653

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-

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=96.38  E-value=0.025  Score=45.38  Aligned_cols=24  Identities=21%  Similarity=0.288  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|.|||||.+.+....
T Consensus        68 ei~gLlGpNGaGKSTLl~~L~Gl~   91 (340)
T PRK13536         68 ECFGLLGPNGAGKSTIARMILGMT   91 (340)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            588999999999999999997654

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.38  E-value=0.0026  Score=48.27  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=21.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|.|.|++|+||||+|+.+.....
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~g   31 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKEN   31 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999987764

>cd04163 Era Era subfamily

Probab=96.38  E-value=0.0043  Score=43.07  Aligned_cols=25  Identities=20%  Similarity=0.211  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|++.|..|+|||||+..+....
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~   27 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQK   27 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCc
Confidence            4578999999999999999987653

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.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.37  E-value=0.0037  Score=41.82  Aligned_cols=33  Identities=27%  Similarity=0.288  Sum_probs=25.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTW   84 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv~   84 (162)
                      ..++|.|..|+|||||+..+.   .-.+.+.=||+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~---~G~i~~~g~di~   48 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI---KRKHRLVGDDNV   48 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh---CCeEEEeeEeHH
Confidence            578999999999999999987   222555555554

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>cd04155 Arl3 Arl3 subfamily

Probab=96.36  E-value=0.0056  Score=43.48  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...++|+|.+|+|||||...+...
T Consensus        14 ~~~v~i~G~~g~GKStLl~~l~~~   37 (173)
T cd04155          14 EPRILILGLDNAGKTTILKQLASE   37 (173)
T ss_pred             ccEEEEEccCCCCHHHHHHHHhcC
Confidence            456889999999999999999876

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.

>cd04114 Rab30 Rab30 subfamily

Probab=96.35  E-value=0.028  Score=39.59  Aligned_cols=22  Identities=32%  Similarity=0.442  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      ...++++|.+|+|||||...+.
T Consensus         7 ~~~v~v~G~~~~GKSsli~~l~   28 (169)
T cd04114           7 LFKIVLIGNAGVGKTCLVRRFT   28 (169)
T ss_pred             eeEEEEECCCCCCHHHHHHHHH
Confidence            5678999999999999999886

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.

>TIGR00041 DTMP_kinase thymidylate kinase

Probab=96.35  E-value=0.0032  Score=46.00  Aligned_cols=26  Identities=31%  Similarity=0.308  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..|+|.|..|+||||+++.+.+....
T Consensus         4 ~~IvieG~~GsGKsT~~~~L~~~l~~   29 (195)
T TIGR00041         4 MFIVIEGIDGAGKTTQANLLKKLLQE   29 (195)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57899999999999999999876543

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=96.35  E-value=0.0036  Score=42.85  Aligned_cols=24  Identities=25%  Similarity=0.257  Sum_probs=21.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|+++|.+|+|||||+..+.....
T Consensus         3 ki~~~G~~~~GKstl~~~l~~~~~   26 (161)
T TIGR00231         3 KIVIVGDPNVGKSTLLNRLLGNKF   26 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            578999999999999999987763

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.

>cd01892 Miro2 Miro2 subfamily

Probab=96.35  E-value=0.026  Score=40.28  Aligned_cols=27  Identities=19%  Similarity=0.324  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +.--+.++|.+|+|||+|...+.....
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f   29 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSF   29 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCC
Confidence            455678999999999999999876543

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 putative GTPase domain in the C terminus 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.

>PTZ00369 Ras-like protein; Provisional

Probab=96.34  E-value=0.017  Score=41.94  Aligned_cols=23  Identities=17%  Similarity=0.495  Sum_probs=19.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+|+|.+|+|||||+..+.+..
T Consensus         7 Ki~iiG~~~~GKTsLi~~~~~~~   29 (189)
T PTZ00369          7 KLVVVGGGGVGKSALTIQFIQNH   29 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            45688999999999998887654

>PRK06761 hypothetical protein; Provisional

Probab=96.34  E-value=0.0033  Score=49.13  Aligned_cols=27  Identities=30%  Similarity=0.282  Sum_probs=23.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +++.|.|++|+||||+++.++......
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~~   30 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQN   30 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCcC
Confidence            578999999999999999999887643

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.34  E-value=0.018  Score=49.23  Aligned_cols=26  Identities=15%  Similarity=0.119  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -..++|+|..|.|||||++.+.....
T Consensus       366 G~~~aivG~sGsGKSTL~~ll~g~~~  391 (574)
T PRK11160        366 GEKVALLGRTGCGKSTLLQLLTRAWD  391 (574)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35889999999999999999976554

>TIGR01351 adk adenylate kinases

Probab=96.33  E-value=0.0031  Score=46.93  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=20.2

Q ss_pred             EEEEcCCCcchHHHHHHHHccCC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      |.|.|++|+||||+|+.+.....
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g   24 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYG   24 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            67899999999999999987654

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=96.33  E-value=0.0037  Score=45.13  Aligned_cols=25  Identities=28%  Similarity=0.268  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .++++|+|.+|+||||+.+.+....
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5789999999999999987766554

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=96.33  E-value=0.019  Score=46.17  Aligned_cols=25  Identities=24%  Similarity=0.246  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-.+
T Consensus        32 ei~gIiG~sGaGKSTLlr~I~gl~~   56 (343)
T TIGR02314        32 QIYGVIGASGAGKSTLIRCVNLLER   56 (343)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4899999999999999999966543

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>PLN02348 phosphoribulokinase

Probab=96.32  E-value=0.0053  Score=50.06  Aligned_cols=39  Identities=23%  Similarity=0.167  Sum_probs=31.5

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCc-------------------eEEEEEeCCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTV-------------------NFNFALDDTW   84 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-------------------~~LlVlDdv~   84 (162)
                      ....+|+|.|.+|+||||||+.+.+....                   -.++-+||..
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~Lg~~~~~~~~~~~~~~~l~~~~~~VI~lDDYh  104 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSVFGGAAKPPKGGNPDSNTLISDTTTVICLDDYH  104 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHhhccCCCccccccccccccCceEEEEccccc
Confidence            45789999999999999999999875431                   1678889875

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.32  E-value=0.0037  Score=42.93  Aligned_cols=26  Identities=23%  Similarity=0.276  Sum_probs=22.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.+......
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~~~~   37 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGLLPP   37 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTSSHE
T ss_pred             CEEEEEccCCCccccceeeecccccc
Confidence            47899999999999999999877654

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>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=96.32  E-value=0.0095  Score=44.49  Aligned_cols=24  Identities=21%  Similarity=0.409  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|.++|..|+|||+++..+.....
T Consensus         2 ~IlllG~tGsGKSs~~N~ilg~~~   25 (212)
T PF04548_consen    2 RILLLGKTGSGKSSLGNSILGKEV   25 (212)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS-
T ss_pred             EEEEECCCCCCHHHHHHHHhcccc
Confidence            467899999999999999875543

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 ....

>PRK02496 adk adenylate kinase; Provisional

Probab=96.32  E-value=0.0037  Score=45.42  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=20.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+.|.|.+|+||||+|+.+.....
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~   26 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLH   26 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            477999999999999999876553

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=96.32  E-value=0.02  Score=41.65  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|-+|+|||+|...+....
T Consensus         7 KivvvGd~~vGKTsli~~~~~~~   29 (182)
T cd04172           7 KIVVVGDSQCGKTALLHVFAKDC   29 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            46799999999999999886543

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>cd04175 Rap1 Rap1 subgroup

Probab=96.31  E-value=0.017  Score=40.63  Aligned_cols=22  Identities=18%  Similarity=0.483  Sum_probs=18.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .|+++|.+|+|||+|+..+.+.
T Consensus         3 ki~~~G~~~~GKTsli~~~~~~   24 (164)
T cd04175           3 KLVVLGSGGVGKSALTVQFVQG   24 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4679999999999999887654

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd04120 Rab12 Rab12 subfamily

Probab=96.31  E-value=0.022  Score=42.24  Aligned_cols=21  Identities=33%  Similarity=0.457  Sum_probs=18.4

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |.++|.+|+|||+|++.+.+.
T Consensus         3 vvvlG~~gVGKTSli~r~~~~   23 (202)
T cd04120           3 VIIIGSRGVGKTSLMRRFTDD   23 (202)
T ss_pred             EEEECcCCCCHHHHHHHHHhC
Confidence            569999999999999888754

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=96.31  E-value=0.0033  Score=45.46  Aligned_cols=22  Identities=36%  Similarity=0.338  Sum_probs=18.7

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|.|.+|+|||||++.+.+..
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHh
Confidence            5799999999999999988766

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK13231 nitrogenase reductase-like protein; Reviewed

Probab=96.31  E-value=0.0074  Score=46.40  Aligned_cols=24  Identities=29%  Similarity=0.342  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++|+|.|-||+||||+|..+....
T Consensus         3 ~~iav~~KGGvGKTT~a~nLA~~L   26 (264)
T PRK13231          3 KKIAIYGKGGIGKSTTVSNMAAAY   26 (264)
T ss_pred             eEEEEECCCCCcHHHHHHHHhccc
Confidence            578888999999999998876644

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.30  E-value=0.0032  Score=47.03  Aligned_cols=24  Identities=21%  Similarity=0.256  Sum_probs=20.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|.|.|++|+||||+|+.+.....
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~~   25 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKYG   25 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            477999999999999999887664

>PRK13235 nifH nitrogenase reductase; Reviewed

Probab=96.30  E-value=0.0032  Score=48.76  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=18.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ++|+|.|-||+||||+|..+...
T Consensus         2 ~~iav~~KGGVGKTT~~~nLA~~   24 (274)
T PRK13235          2 RKVAIYGKGGIGKSTTTQNTVAG   24 (274)
T ss_pred             CEEEEeCCCCccHHHHHHHHHHH
Confidence            47888899999999988766543

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=96.29  E-value=0.0032  Score=48.48  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=18.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +|++.|-||+||||+|..+....
T Consensus         2 ~i~v~gKGGvGKTT~a~nLA~~l   24 (267)
T cd02032           2 VLAVYGKGGIGKSTTSSNLSVAL   24 (267)
T ss_pred             EEEEecCCCCCHHHHHHHHHHHH
Confidence            67888999999999876655443

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.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=96.28  E-value=0.028  Score=40.16  Aligned_cols=23  Identities=13%  Similarity=0.335  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+|+|.+|+|||||+..+....
T Consensus         3 kv~l~G~~g~GKTtl~~~~~~~~   25 (180)
T cd04137           3 KIAVLGSRSVGKSSLTVQFVEGH   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            57799999999999999887543

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

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.27  E-value=0.0034  Score=51.44  Aligned_cols=28  Identities=21%  Similarity=0.112  Sum_probs=24.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..+.|+|+|..|+|||||++.+......
T Consensus       218 ~~~~IvI~G~~gsGKTTL~~~La~~~g~  245 (399)
T PRK08099        218 FVRTVAILGGESSGKSTLVNKLANIFNT  245 (399)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHhCC
Confidence            4678999999999999999999877543

>PRK00698 tmk thymidylate kinase; Validated

Probab=96.26  E-value=0.0042  Score=45.59  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      +.|+|.|+.|+||||+++.+.+.
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~   26 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKEL   26 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998764

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.26  E-value=0.0069  Score=48.46  Aligned_cols=38  Identities=24%  Similarity=0.233  Sum_probs=27.6

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCc---e-EEEEEeCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTV---N-FNFALDDT   83 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~---~-~LlVlDdv   83 (162)
                      .+..+|+|.|.+|+|||||+..+....+.   + .++-+|.-
T Consensus        54 ~~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~Dp~   95 (332)
T PRK09435         54 GNALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAVDPS   95 (332)
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeCCC
Confidence            35789999999999999999876544332   2 55666653

>cd04136 Rap_like Rap-like subfamily

Probab=96.26  E-value=0.02  Score=40.00  Aligned_cols=22  Identities=18%  Similarity=0.487  Sum_probs=18.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -|+|+|.+|+|||||+..+...
T Consensus         3 ki~i~G~~~vGKTsl~~~~~~~   24 (163)
T cd04136           3 KVVVLGSGGVGKSALTVQFVQG   24 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4679999999999999887754

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=96.25  E-value=0.0036  Score=39.71  Aligned_cols=24  Identities=38%  Similarity=0.465  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ++.+.|.+|+||||++..+.....
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~   24 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALA   24 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            367889999999999988776643

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=96.25  E-value=0.03  Score=39.16  Aligned_cols=23  Identities=13%  Similarity=0.332  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -+.++|.+|+|||+|+..+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (163)
T cd01860           3 KLVLLGDSSVGKSSLVLRFVKNE   25 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36799999999999999888764

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

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.25  E-value=0.0078  Score=49.74  Aligned_cols=47  Identities=21%  Similarity=0.249  Sum_probs=30.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCc---eEEEEEeCCCCCChhhHHHHH
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTV---NFNFALDDTWKEKYVDWTNMR   95 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~---~~LlVlDdv~~~~~~~~~~l~   95 (162)
                      ...++.++|..|+||||++..++...+.   +.++|==|..  ....|+.+.
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~--R~aA~eQLk  148 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTF--RAGAFDQLK  148 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCccc--chhHHHHHH
Confidence            4679999999999999988777643322   2444432333  445565553

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.

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=96.24  E-value=0.02  Score=50.14  Aligned_cols=25  Identities=28%  Similarity=0.259  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       506 e~vaIvG~sGsGKSTLlklL~gl~~  530 (710)
T TIGR03796       506 QRVALVGGSGSGKSTIAKLVAGLYQ  530 (710)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            5789999999999999999976543

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>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=96.24  E-value=0.0048  Score=41.20  Aligned_cols=21  Identities=24%  Similarity=0.327  Sum_probs=19.5

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+|.|..|+|||||...+.+.
T Consensus         2 V~iiG~~~~GKSTlin~l~~~   22 (116)
T PF01926_consen    2 VAIIGRPNVGKSTLINALTGK   22 (116)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            679999999999999999975

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 ....

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

Probab=96.23  E-value=0.0045  Score=47.69  Aligned_cols=23  Identities=26%  Similarity=0.528  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ++|+|.|-||+||||++..+...
T Consensus         3 ~iIav~~KGGVGKTT~~~nLA~~   25 (270)
T PRK13185          3 LVLAVYGKGGIGKSTTSSNLSAA   25 (270)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57888899999999977665443

>TIGR00767 rho transcription termination factor Rho

Probab=96.22  E-value=0.0054  Score=50.23  Aligned_cols=35  Identities=17%  Similarity=0.045  Sum_probs=27.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce------EEEEEeC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN------FNFALDD   82 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~------~LlVlDd   82 (162)
                      -..++|+|.+|+|||||++.+++....+      |+++.|+
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgE  208 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDE  208 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCC
Confidence            3568899999999999999999874432      5556655

Members of this family differ in the specificity of RNA binding.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=96.22  E-value=0.0037  Score=45.33  Aligned_cols=27  Identities=22%  Similarity=0.342  Sum_probs=22.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +-|.++||.|+||||+.+.+.+.....
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~   29 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLP   29 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCC
Confidence            357899999999999999998877544

>TIGR00368 Mg chelatase-related protein

Probab=96.22  E-value=0.018  Score=48.64  Aligned_cols=40  Identities=23%  Similarity=0.227  Sum_probs=27.5

Q ss_pred             CceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           23 KLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        23 ~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .+++|.+.  +-++.....        -..+.++|.+|.|||+||+.+..
T Consensus       192 ~dv~Gq~~~~~al~~aa~~--------g~~vlliG~pGsGKTtlar~l~~  233 (499)
T TIGR00368       192 KDIKGQQHAKRALEIAAAG--------GHNLLLFGPPGSGKTMLASRLQG  233 (499)
T ss_pred             HHhcCcHHHHhhhhhhccC--------CCEEEEEecCCCCHHHHHHHHhc
Confidence            45667666  333333322        24788999999999999998863

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.21  E-value=0.0034  Score=43.79  Aligned_cols=22  Identities=41%  Similarity=0.466  Sum_probs=18.8

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|+|.+|+|||+++..+....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~   23 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNI   23 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHH
Confidence            5799999999999998886554

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.

>cd01865 Rab3 Rab3 subfamily

Probab=96.21  E-value=0.034  Score=39.27  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -++++|.+|+|||||...+.+..
T Consensus         3 ki~i~G~~~~GKSsli~~l~~~~   25 (165)
T cd01865           3 KLLIIGNSSVGKTSFLFRYADDS   25 (165)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999987654

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

>PRK01184 hypothetical protein; Provisional

Probab=96.21  E-value=0.0043  Score=45.03  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=18.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+|.|+|++|+||||+|+ +....
T Consensus         2 ~~i~l~G~~GsGKsT~a~-~~~~~   24 (184)
T PRK01184          2 KIIGVVGMPGSGKGEFSK-IAREM   24 (184)
T ss_pred             cEEEEECCCCCCHHHHHH-HHHHc
Confidence            478999999999999997 44443

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=96.21  E-value=0.021  Score=49.83  Aligned_cols=25  Identities=28%  Similarity=0.333  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       480 e~vaIvG~sGsGKSTLlklL~gl~~  504 (686)
T TIGR03797       480 EFVAIVGPSGSGKSTLLRLLLGFET  504 (686)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            5789999999999999999976554

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=96.21  E-value=0.0037  Score=44.59  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=20.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ++.|+|..|+|||||+..+....+
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~   24 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALK   24 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999988887643

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.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.20  E-value=0.0057  Score=49.09  Aligned_cols=47  Identities=19%  Similarity=0.248  Sum_probs=32.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCc-e----EEEEEeCCCC----------CChhhHHHHHhh
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTV-N----FNFALDDTWK----------EKYVDWTNMRDL   97 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~-~----~LlVlDdv~~----------~~~~~~~~l~~~   97 (162)
                      +++.|++|+||||+++.+.+.... .    .++=.||+-.          .....|..++..
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i~~~~~~~~~~~~~~~~~k~~R~~   63 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDIIPEAAFELDQSREIPSQWKQFRQE   63 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccccccccchhhhcCCCcHHHHHHHHHH
Confidence            578999999999999998866542 1    5566677541          135667665543

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.20  E-value=0.0084  Score=49.17  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++++++|.+|+||||++..++...
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L  265 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF  265 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH
Confidence            34789999999999999998886543

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.19  E-value=0.0042  Score=45.16  Aligned_cols=28  Identities=25%  Similarity=0.252  Sum_probs=23.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+.+.|+|+.|+|||||++.+......+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~   29 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDK   29 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccc
Confidence            3678899999999999999998776543

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.18  E-value=0.0051  Score=48.07  Aligned_cols=25  Identities=28%  Similarity=0.260  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...++.++|.+|+||||++..+...
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~  217 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAAR  217 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4569999999999999998776543

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=96.18  E-value=0.025  Score=46.62  Aligned_cols=87  Identities=9%  Similarity=0.077  Sum_probs=55.8

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      ..++|...   .+...+..-.    ..... +.|+|..|+||+++|+.++......                        
T Consensus       139 ~~lig~s~~~~~l~~~i~~~a----~~~~~-vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~~~~~lfg~  213 (445)
T TIGR02915       139 RGLITSSPGMQKICRTIEKIA----PSDIT-VLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLLESELFGY  213 (445)
T ss_pred             cceeecCHHHHHHHHHHHHHh----CCCCC-EEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHHHHHHhcCC
Confidence            45788776   3333332211    11233 4599999999999999987543211                        


Q ss_pred             ---------------------EEEEEeCCCCCChhhHHHHHhhccccC-----------CCcEEEEecCCh
Q 039127           76 ---------------------FNFALDDTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRNQ  114 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~~  114 (162)
                                           =.|+||++.......+..|...+....           ...++|.||...
T Consensus       214 ~~~~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q~~l~~~l~~~~~~~~~~~~~~~~~~rii~~~~~~  284 (445)
T TIGR02915       214 EKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQD  284 (445)
T ss_pred             CCCCcCCCccCCCCceeECCCCEEEEechhhCCHHHHHHHHHHHhhCeEEeCCCCceeeeceEEEEecCCC
Confidence                                 247899998777888888877765321           134788888654

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=96.18  E-value=0.0028  Score=45.46  Aligned_cols=26  Identities=31%  Similarity=0.397  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      -.|.|.|+.++||||+.+.+......
T Consensus        17 ~riLiLGLdNsGKTti~~kl~~~~~~   42 (185)
T KOG0073|consen   17 VRILILGLDNSGKTTIVKKLLGEDTD   42 (185)
T ss_pred             eEEEEEecCCCCchhHHHHhcCCCcc
Confidence            45669999999999999998766543

>cd01874 Cdc42 Cdc42 subfamily

Probab=96.17  E-value=0.023  Score=40.92  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -++++|-+|+|||+|...+.+..
T Consensus         3 ki~vvG~~~vGKTsl~~~~~~~~   25 (175)
T cd01874           3 KCVVVGDGAVGKTCLLISYTTNK   25 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            46799999999999999887544

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>PRK14528 adenylate kinase; Provisional

Probab=96.17  E-value=0.0045  Score=45.32  Aligned_cols=25  Identities=24%  Similarity=0.232  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +.+.|.|.+|+||||+|+.+.....
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~~   26 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERLS   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3578999999999999999876654

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.15  E-value=0.0048  Score=46.38  Aligned_cols=27  Identities=30%  Similarity=0.287  Sum_probs=22.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+++|+|+.|+|||||.+.+-.-....
T Consensus        29 evv~iiGpSGSGKSTlLRclN~LE~~~   55 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNGLEEPD   55 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCcCCC
Confidence            489999999999999999987655544

>PRK13768 GTPase; Provisional

Probab=96.15  E-value=0.0052  Score=47.25  Aligned_cols=24  Identities=25%  Similarity=0.422  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .++.+.|.||+||||++..+....
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l   26 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWL   26 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHH
Confidence            478899999999999887765443

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=96.15  E-value=0.004  Score=45.24  Aligned_cols=21  Identities=33%  Similarity=0.371  Sum_probs=19.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +|+|.|..|+||||+++.+.+
T Consensus         1 ii~itG~~gsGKst~~~~l~~   21 (179)
T cd02022           1 IIGLTGGIGSGKSTVAKLLKE   21 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999977

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=96.15  E-value=0.0061  Score=45.98  Aligned_cols=23  Identities=22%  Similarity=0.166  Sum_probs=19.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ...+.|+|.+|+||||+|+.+..
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~~   34 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLPG   34 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcCC
Confidence            34588999999999999998753

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.

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=96.15  E-value=0.018  Score=42.35  Aligned_cols=19  Identities=32%  Similarity=0.410  Sum_probs=14.3

Q ss_pred             EEEEEcCCCcchHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPV   68 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~   68 (162)
                      +..++|.+|.|||..|...
T Consensus         2 I~~~~G~pGsGKS~~av~~   20 (193)
T PF05707_consen    2 IYLITGKPGSGKSYYAVSY   20 (193)
T ss_dssp             EEEEE--TTSSHHHHHHHH
T ss_pred             EEEEEcCCCCcHhHHHHHH
Confidence            5678999999999988665

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.15  E-value=0.024  Score=42.19  Aligned_cols=73  Identities=18%  Similarity=0.116  Sum_probs=47.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC--------------ce--------------------------------------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT--------------VN--------------------------------------   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~--------------~~--------------------------------------   75 (162)
                      ..++.|.|..|.||||+.+.+....-              ..                                      
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~~la~~G~~vpa~~~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il~~~~~  108 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLAIMAQIGCFVPAEYATLPIFNRLLSRLSNDDSMERNLSTFASEMSETAYILDYADG  108 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHHHcCCCcchhhcCccChhheeEecCCccccchhhhHHHHHHHHHHHHHHhcCC
Confidence            36899999999999999877631110              00                                      


Q ss_pred             -EEEEEeCCCCC-Chhh----HHHHHhhccccCCCcEEEEecCChhhHhhhCC
Q 039127           76 -FNFALDDTWKE-KYVD----WTNMRDLFAAVASRSKVIVTTRNQGVASIMGT  122 (162)
Q Consensus        76 -~LlVlDdv~~~-~~~~----~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~~~  122 (162)
                       -|+++|..... +...    ...+...+.  ..|+.+|++|....++..+..
T Consensus       109 ~~lvllDE~~~gt~~~~~~~l~~~il~~l~--~~~~~~i~~TH~~~l~~~~~~  159 (204)
T cd03282         109 DSLVLIDELGRGTSSADGFAISLAILECLI--KKESTVFFATHFRDIAAILGN  159 (204)
T ss_pred             CcEEEeccccCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhhc
Confidence             79999997431 2322    122333333  237889999999888876543

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=96.14  E-value=0.032  Score=39.95  Aligned_cols=22  Identities=23%  Similarity=0.539  Sum_probs=18.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -+.++|.+|+|||+|+..+...
T Consensus         4 ki~vvG~~~vGKTsL~~~~~~~   25 (172)
T cd04141           4 KIVMLGAGGVGKSAVTMQFISH   25 (172)
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            3679999999999999877643

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>cd04122 Rab14 Rab14 subfamily

Probab=96.14  E-value=0.036  Score=39.14  Aligned_cols=22  Identities=23%  Similarity=0.170  Sum_probs=18.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -++++|.+|+|||+|...+.+.
T Consensus         4 ki~iiG~~~vGKTsli~~~~~~   25 (166)
T cd04122           4 KYIIIGDMGVGKSCLLHQFTEK   25 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3679999999999999988755

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

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=96.14  E-value=0.024  Score=48.40  Aligned_cols=25  Identities=16%  Similarity=0.216  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|.|||||++.+.....
T Consensus       367 e~i~IvG~sGsGKSTLlklL~gl~~  391 (576)
T TIGR02204       367 ETVALVGPSGAGKSTLFQLLLRFYD  391 (576)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccC
Confidence            4789999999999999999875543

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.13  E-value=0.0064  Score=47.31  Aligned_cols=27  Identities=30%  Similarity=0.341  Sum_probs=21.7

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+++.++|.+|+||||++..++...
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l   96 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKL   96 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            446899999999999999887775443

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.13  E-value=0.017  Score=47.72  Aligned_cols=24  Identities=29%  Similarity=0.247  Sum_probs=20.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .-.+++++|..|+||||++..+..
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999986654

>PRK15453 phosphoribulokinase; Provisional

Probab=96.13  E-value=0.0056  Score=47.86  Aligned_cols=38  Identities=21%  Similarity=0.155  Sum_probs=27.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC---ce-EEEEEeCCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT---VN-FNFALDDTW   84 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~---~~-~LlVlDdv~   84 (162)
                      ...+|+|.|.+|+||||+|+.+.+...   .. .++-.|+..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~~~~~~~~vi~~D~yh   45 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFRRENINAAVVEGDSFH   45 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEEeccccc
Confidence            457899999999999999998865432   22 455566655

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.12  E-value=0.0052  Score=45.53  Aligned_cols=25  Identities=24%  Similarity=0.195  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||++.++....
T Consensus        28 ~~~~l~G~nGsGKSTLl~~l~G~~~   52 (211)
T cd03225          28 EFVLIVGPNGSGKSTLLRLLNGLLG   52 (211)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCC
Confidence            5899999999999999999987654

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=96.12  E-value=0.029  Score=39.20  Aligned_cols=22  Identities=18%  Similarity=0.483  Sum_probs=18.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -++++|.+|+|||||+..+.+.
T Consensus         4 ki~i~G~~~~GKtsl~~~~~~~   25 (164)
T cd04145           4 KLVVVGGGGVGKSALTIQFIQS   25 (164)
T ss_pred             EEEEECCCCCcHHHHHHHHHhC
Confidence            4679999999999999887644

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

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.12  E-value=0.0052  Score=45.78  Aligned_cols=26  Identities=23%  Similarity=0.195  Sum_probs=22.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||++.++.-...
T Consensus        31 ~~~~l~G~nGsGKSTLl~~i~Gl~~~   56 (218)
T cd03255          31 EFVAIVGPSGSGKSTLLNILGGLDRP   56 (218)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhCCcCC
Confidence            48899999999999999999876543

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>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=96.12  E-value=0.0087  Score=46.15  Aligned_cols=37  Identities=22%  Similarity=0.268  Sum_probs=27.2

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +++..+....     .+..+|+|.|.+|+||+||...+....
T Consensus        17 ~ll~~l~~~~-----g~a~~iGiTG~PGaGKSTli~~l~~~~   53 (266)
T PF03308_consen   17 ELLKRLYPHT-----GRAHVIGITGPPGAGKSTLIDALIREL   53 (266)
T ss_dssp             HHHHHHGGGT-----T-SEEEEEEE-TTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhhc-----CCceEEEeeCCCCCcHHHHHHHHHHHH
Confidence            6777776543     457899999999999999997765444

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.

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=96.11  E-value=0.028  Score=45.33  Aligned_cols=25  Identities=24%  Similarity=0.312  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        33 e~~~llGpsGsGKSTLLr~IaGl~~   57 (351)
T PRK11432         33 TMVTLLGPSGCGKTTVLRLVAGLEK   57 (351)
T ss_pred             CEEEEECCCCCcHHHHHHHHHCCCC
Confidence            4889999999999999999976543

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=96.11  E-value=0.0037  Score=43.98  Aligned_cols=22  Identities=32%  Similarity=0.379  Sum_probs=19.6

Q ss_pred             EEcCCCcchHHHHHHHHccCCc
Q 039127           53 IIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        53 I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      |.|++|+||||+|+.++.+...
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~   22 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGL   22 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTS
T ss_pred             CcCCCCCChHHHHHHHHHhcCc
Confidence            6899999999999999988753

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>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=96.11  E-value=0.0054  Score=41.59  Aligned_cols=31  Identities=35%  Similarity=0.369  Sum_probs=22.6

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce--EEEEEe
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN--FNFALD   81 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~--~LlVlD   81 (162)
                      +.+.|.||+|||+++..+......+  -.+++|
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id   34 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAEKGKPVLAID   34 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            6789999999999998876654322  344555

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.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.10  E-value=0.0064  Score=44.18  Aligned_cols=25  Identities=32%  Similarity=0.333  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++.+.|.+|+||||+|+.+....
T Consensus        18 ~~~i~i~G~~GsGKstla~~l~~~l   42 (184)
T TIGR00455        18 GVVIWLTGLSGSGKSTIANALEKKL   42 (184)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999988764

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=96.09  E-value=0.037  Score=45.72  Aligned_cols=64  Identities=16%  Similarity=0.165  Sum_probs=46.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce---------------------------------------------EEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------------------FNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------------------~LlVlDdv~   84 (162)
                      -+.|.|..|+||+++|+.+++.....                                             =.|+||++.
T Consensus       168 ~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ld~i~  247 (457)
T PRK11361        168 SVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLLDEIG  247 (457)
T ss_pred             EEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHHHHHHhcCCCCCCCCCCCCCCCCceEECCCCEEEEechh
Confidence            46689999999999999987543211                                             168999999


Q ss_pred             CCChhhHHHHHhhccccC-----------CCcEEEEecCC
Q 039127           85 KEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRN  113 (162)
Q Consensus        85 ~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~  113 (162)
                      ..+......|...+....           ...+||.||..
T Consensus       248 ~l~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~  287 (457)
T PRK11361        248 EMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNR  287 (457)
T ss_pred             hCCHHHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCC
Confidence            777777778777665321           12478888854

>TIGR00101 ureG urease accessory protein UreG

Probab=96.08  E-value=0.012  Score=43.72  Aligned_cols=35  Identities=20%  Similarity=0.235  Sum_probs=25.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc--eEEEEEeCCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV--NFNFALDDTW   84 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~--~~LlVlDdv~   84 (162)
                      .++|.|..|+|||||.+.+.+....  ...++..|..
T Consensus         3 ~i~i~G~~GsGKTTll~~l~~~l~~~~~~~~~~~d~~   39 (199)
T TIGR00101         3 KIGVAGPVGSGKTALIEALTRALRQKYQLAVITNDIY   39 (199)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCcCCcEEEEeCCcC
Confidence            6789999999999999988876332  2444555554

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.

>PLN02165 adenylate isopentenyltransferase

Probab=96.08  E-value=0.0052  Score=49.08  Aligned_cols=26  Identities=23%  Similarity=0.286  Sum_probs=22.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -.+++|+|+.|+|||+||..++....
T Consensus        43 g~iivIiGPTGSGKStLA~~LA~~l~   68 (334)
T PLN02165         43 DKVVVIMGATGSGKSRLSVDLATRFP   68 (334)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHcC
Confidence            45899999999999999999887753

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.08  E-value=0.0055  Score=45.59  Aligned_cols=25  Identities=16%  Similarity=0.259  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||++.+..-..
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~Gl~~   54 (216)
T TIGR00960        30 EMVFLVGHSGAGKSTFLKLILGIEK   54 (216)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4889999999999999999987654

>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]

Probab=96.08  E-value=0.0059  Score=45.45  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ..+|+|.|+.|+||||+|+.+..
T Consensus         2 ~~iIglTG~igsGKStva~~~~~   24 (201)
T COG0237           2 MLIIGLTGGIGSGKSTVAKILAE   24 (201)
T ss_pred             ceEEEEecCCCCCHHHHHHHHHH
Confidence            36899999999999999998877

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=96.08  E-value=0.039  Score=39.04  Aligned_cols=24  Identities=29%  Similarity=0.475  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      --|+++|.+|+|||+|+..+.+..
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~~   27 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSEDS   27 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCc
Confidence            457799999999999999987653

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

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=96.07  E-value=0.011  Score=48.87  Aligned_cols=38  Identities=24%  Similarity=0.241  Sum_probs=29.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce----EEEEEeCCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN----FNFALDDTW   84 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----~LlVlDdv~   84 (162)
                      ..-+|+|.|..|+|||||++.+..-.+..    ..|-+||..
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~lL~~~g~~vgvISiDDfY  252 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDYLFRVTGRKSATLSIDDFY  252 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhcccCCceEEEEECCcc
Confidence            46789999999999999999986544221    456788875

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=96.07  E-value=0.046  Score=43.24  Aligned_cols=25  Identities=32%  Similarity=0.244  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+.|.|..|+|||||++.+.....
T Consensus       145 ~~ili~G~tGsGKTTll~al~~~~~  169 (308)
T TIGR02788       145 KNIIISGGTGSGKTTFLKSLVDEIP  169 (308)
T ss_pred             CEEEEECCCCCCHHHHHHHHHccCC
Confidence            5788999999999999998876543

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=96.07  E-value=0.0075  Score=47.72  Aligned_cols=30  Identities=27%  Similarity=0.314  Sum_probs=24.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCceE
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVNF   76 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~~   76 (162)
                      .-..|.++|+.|+||||+++.+.......|
T Consensus       132 ~~~~I~l~G~~GsGKStvg~~La~~Lg~~~  161 (309)
T PRK08154        132 RRRRIALIGLRGAGKSTLGRMLAARLGVPF  161 (309)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcCCCE
Confidence            345788999999999999999988766443

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=96.06  E-value=0.029  Score=49.31  Aligned_cols=26  Identities=31%  Similarity=0.300  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -..++|+|..|.|||||++.+..-..
T Consensus       507 Ge~vaIvG~SGsGKSTLl~lL~gl~~  532 (711)
T TIGR00958       507 GEVVALVGPSGSGKSTVAALLQNLYQ  532 (711)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccC
Confidence            35889999999999999999876554

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=96.06  E-value=0.0039  Score=48.57  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ++++|+|.+|+|||||+..+....+.
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~   27 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSG   27 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47999999999999999888765543

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.05  E-value=0.0069  Score=44.21  Aligned_cols=26  Identities=23%  Similarity=0.331  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|.|..|+|||||.+.+......
T Consensus        19 e~~~i~G~nGsGKSTLl~~i~G~~~~   44 (190)
T TIGR01166        19 EVLALLGANGAGKSTLLLHLNGLLRP   44 (190)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            48899999999999999999876543

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=96.05  E-value=0.0056  Score=42.12  Aligned_cols=23  Identities=30%  Similarity=0.393  Sum_probs=20.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||+|...+....
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~   24 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEE   24 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCc
Confidence            36899999999999999987664

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.

>smart00072 GuKc Guanylate kinase homologues

Probab=96.05  E-value=0.0064  Score=44.32  Aligned_cols=25  Identities=20%  Similarity=0.195  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +.+.|+|+.|+||+||+..+.....
T Consensus         3 r~ivl~Gpsg~GK~tl~~~L~~~~~   27 (184)
T smart00072        3 RPIVLSGPSGVGKGTLLAELIQEIP   27 (184)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhcCC
Confidence            5788999999999999999988753

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

>PF13245 AAA_19: Part of AAA domain

Probab=96.04  E-value=0.0068  Score=37.95  Aligned_cols=19  Identities=26%  Similarity=0.343  Sum_probs=15.3

Q ss_pred             EEEEEEcCCCcchHHHHHH
Q 039127           49 FVIPIIGMGGSGNTTPALP   67 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~   67 (162)
                      +++.|.|.+|.|||+++..
T Consensus        11 ~~~vv~g~pGtGKT~~~~~   29 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAA   29 (76)
T ss_pred             CeEEEECCCCCCHHHHHHH
Confidence            4677899999999966643

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=96.03  E-value=0.032  Score=47.42  Aligned_cols=26  Identities=31%  Similarity=0.229  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -..++|+|..|+|||||++.+.....
T Consensus       344 G~~~~ivG~sGsGKSTL~~ll~g~~~  369 (544)
T TIGR01842       344 GEALAIIGPSGSGKSTLARLIVGIWP  369 (544)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            35889999999999999999976543

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs)

Probab=96.03  E-value=0.0045  Score=45.22  Aligned_cols=23  Identities=30%  Similarity=0.310  Sum_probs=20.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +|+|.|+.|+||||+++.+.+..
T Consensus         1 ~I~ieG~~GsGKSTl~~~L~~~~   23 (193)
T cd01673           1 VIVVEGNIGAGKSTLAKELAEHL   23 (193)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998754

This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=96.02  E-value=0.0069  Score=45.04  Aligned_cols=25  Identities=24%  Similarity=0.235  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||++.+.....
T Consensus        24 e~~~i~G~nGsGKSTLl~~l~G~~~   48 (214)
T cd03297          24 EVTGIFGASGAGKSTLLRCIAGLEK   48 (214)
T ss_pred             eeEEEECCCCCCHHHHHHHHhCCCC
Confidence            7999999999999999999987654

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=96.01  E-value=0.0069  Score=43.39  Aligned_cols=25  Identities=32%  Similarity=0.361  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +++.|+|..|+|||||+..+.....
T Consensus         2 ~vi~i~G~~gsGKTTli~~L~~~l~   26 (159)
T cd03116           2 KVIGFVGYSGSGKTTLLEKLIPALS   26 (159)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5789999999999999998887654

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.

>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=96.01  E-value=0.0055  Score=48.47  Aligned_cols=21  Identities=33%  Similarity=0.390  Sum_probs=17.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHH
Q 039127           49 FVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      +++.+.|-||+||||+|-...
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A   22 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALA   22 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             eEEEEecCCCCCcHHHHHHHH
Confidence            578899999999999985543

...

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.01  E-value=0.0063  Score=49.01  Aligned_cols=41  Identities=22%  Similarity=0.284  Sum_probs=29.7

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHH
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -+.++|.++   .++..+.+       +...-+.|.|..|.||||+|+.++
T Consensus        16 f~~ivGq~~~k~al~~~~~~-------p~~~~vli~G~~GtGKs~~ar~~~   59 (350)
T CHL00081         16 FTAIVGQEEMKLALILNVID-------PKIGGVMIMGDRGTGKSTTIRALV   59 (350)
T ss_pred             HHHHhChHHHHHHHHHhccC-------CCCCeEEEEcCCCCCHHHHHHHHH
Confidence            368999999   33332233       235567799999999999999884

>cd00879 Sar1 Sar1 subfamily

Probab=96.01  E-value=0.0065  Score=43.98  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...++|+|.+|+|||||...+...
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~   42 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDD   42 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            345689999999999999998864

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=96.01  E-value=0.0064  Score=42.53  Aligned_cols=22  Identities=32%  Similarity=0.481  Sum_probs=19.7

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+++|.+|+|||+|...+.+..
T Consensus         2 i~iiG~~~~GKssli~~~~~~~   23 (158)
T cd00878           2 ILILGLDGAGKTTILYKLKLGE   23 (158)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Confidence            6799999999999999997764

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

>PRK12338 hypothetical protein; Provisional

Probab=96.01  E-value=0.0074  Score=47.97  Aligned_cols=28  Identities=25%  Similarity=0.259  Sum_probs=24.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ..++.|.|.+|+||||+|+.+..+....
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l~~~   31 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTLNIK   31 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHCCCe
Confidence            4688999999999999999999887644

>cd04135 Tc10 TC10 subfamily

Probab=96.00  E-value=0.021  Score=40.49  Aligned_cols=22  Identities=27%  Similarity=0.409  Sum_probs=18.7

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.++|.+|+|||||...+.+..
T Consensus         3 i~i~G~~~~GKTsl~~~~~~~~   24 (174)
T cd04135           3 CVVVGDGAVGKTCLLMSYANDA   24 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999998876543

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.00  E-value=0.0078  Score=47.90  Aligned_cols=27  Identities=30%  Similarity=0.416  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...++.++|++|+||||++..++....
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~  139 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYK  139 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            467999999999999999988765543

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=96.00  E-value=0.05  Score=38.11  Aligned_cols=20  Identities=15%  Similarity=0.144  Sum_probs=17.9

Q ss_pred             EEEEcCCCcchHHHHHHHHc
Q 039127           51 IPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~   70 (162)
                      ++++|.+|+|||+|+..+.+
T Consensus         3 i~vvG~~~~GKtsl~~~l~~   22 (164)
T cd04101           3 CAVVGDPAVGKTAFVQMFHS   22 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            67999999999999998864

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=96.00  E-value=0.015  Score=40.08  Aligned_cols=45  Identities=11%  Similarity=0.122  Sum_probs=31.6

Q ss_pred             CceeeehH-------HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           23 KLWLGREE-------GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        23 ~~~vGr~~-------~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..++|..-       .+.+.+.+.    ...+.-|++.+|.+|+|||.+++.+++.
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~----~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANP----NPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCC----CCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            46778775       223333222    3456788999999999999988887765

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>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=96.00  E-value=0.0069  Score=43.50  Aligned_cols=23  Identities=35%  Similarity=0.433  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++.+.|++|+||||++..+....
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~   24 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57789999999999998877553

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.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.00  E-value=0.0099  Score=43.42  Aligned_cols=25  Identities=32%  Similarity=0.141  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+.|+|..|+|||||++.+.....
T Consensus        26 ~~i~I~G~tGSGKTTll~aL~~~i~   50 (186)
T cd01130          26 KNILISGGTGSGKTTLLNALLAFIP   50 (186)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcC
Confidence            4789999999999999998876543

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.99  E-value=0.012  Score=48.86  Aligned_cols=27  Identities=30%  Similarity=0.300  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...++.++|.+|+||||+|..++....
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~  120 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFK  120 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH
Confidence            467899999999999999988765543

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=95.98  E-value=0.0094  Score=46.84  Aligned_cols=39  Identities=21%  Similarity=0.261  Sum_probs=30.3

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      +++..+....     ++..+|+|.|.||+||+||...+......
T Consensus        39 ~ll~~l~p~t-----G~a~viGITG~PGaGKSTli~~L~~~l~~   77 (323)
T COG1703          39 ELLRALYPRT-----GNAHVIGITGVPGAGKSTLIEALGRELRE   77 (323)
T ss_pred             HHHHHHhhcC-----CCCcEEEecCCCCCchHHHHHHHHHHHHH
Confidence            6677666544     67889999999999999999777655443

>COG3903 Predicted ATPase [General function prediction only]

Probab=95.98  E-value=0.00079  Score=54.68  Aligned_cols=93  Identities=16%  Similarity=0.182  Sum_probs=58.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce-------------------------------------------------EE
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------------------------------------FN   77 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------------------------------------~L   77 (162)
                      ..+.+.++|.||+||||++-.+.. .+..                                                 .+
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g~~~~~~~~~~~~~rr~l   91 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPGDSAVDTLVRRIGDRRAL   91 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCchhHhHHHHHhhcccccccchHHHHHHHHHHhhhhHH
Confidence            467899999999999999987766 1111                                                 67


Q ss_pred             EEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChhhHhhhCCCCeeeCCCCCHH-HHHHHHhhCC
Q 039127           78 FALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYELKKLVND-NCLLIFSQHP  144 (162)
Q Consensus        78 lVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~~~~~~~~l~~L~~~-~~~~lf~~~a  144 (162)
                      +|+||..+ -.+.-..+.-.+..+...-.++.|+|.....   .....+.+.+|+.. ++.++|...+
T Consensus        92 lvldnceh-l~~~~a~~i~all~~~~~~~~~atsre~~l~---~ge~~~~~~~L~~~d~a~~lf~~ra  155 (414)
T COG3903          92 LVLDNCEH-LLDACAALIVALLGACPRLAILATSREAILV---AGEVHRRVPSLSLFDEAIELFVCRA  155 (414)
T ss_pred             HHhcCcHH-HHHHHHHHHHHHHccchhhhhHHHhHhhhcc---cccccccCCccccCCchhHHHHHHH
Confidence            77887651 1122222333444444455688888865432   23335677777754 6888886654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	162
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	7e-11
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-05
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-09
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 58.3 bits (141), Expect = 7e-11
 Identities = 15/87 (17%), Positives = 29/87 (33%), Gaps = 21/87 (24%)

Query: 80  LDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPA--YELKKLVNDNCL 137
           LDD W    +             S+ ++++TTR++ V   +            L  +  L
Sbjct: 242 LDDVWDSWVLKA---------FDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGL 292

Query: 138 LIFSQHPSGT--------REIVHWRKC 156
            I S   +            I+  ++C
Sbjct: 293 EILSLFVNMKKADLPEQAHSII--KEC 317

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 42.9 bits (101), Expect = 2e-05
 Identities = 9/54 (16%), Positives = 16/54 (29%), Gaps = 6/54 (11%)

Query: 27  GREEGTVELV--LKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNF 78
            R++    +   L             + I GM G G +  A     D ++    
Sbjct: 128 TRKKLVNAIQQKLSKLKGEPG----WVTIHGMAGCGKSVLAAEAVRDHSLLEGC 177

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score = 54.2 bits (130), Expect = 2e-09
 Identities = 14/88 (15%), Positives = 27/88 (30%), Gaps = 21/88 (23%)

Query: 80  LDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIM-GTMPAYELKKLVNDNCLL 138
            DD  +E+ + W            R + +VTTR+  +++    T    E+  L  D C  
Sbjct: 249 FDDVVQEETIRWAQ--------ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYD 300

Query: 139 IFSQHPSGT----------REIVHWRKC 156
               +               + +     
Sbjct: 301 FLEAYGMPMPVGEKEEDVLNKTI--ELS 326

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score = 39.6 bits (92), Expect = 2e-04
 Identities = 14/62 (22%), Positives = 23/62 (37%), Gaps = 3/62 (4%)

Query: 19  VPSVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND--KTVNF 76
           VP       RE     ++ K D    D   F + + G  GSG +  A    +   + +  
Sbjct: 124 VPKQMTCYIREYHVDRVIKKLDEM-CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGI 182

Query: 77  NF 78
           N+
Sbjct: 183 NY 184

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

 Score = 48.3 bits (114), Expect = 2e-07
 Identities = 26/144 (18%), Positives = 45/144 (31%), Gaps = 37/144 (25%)

Query: 17  TVVPSVKLWLGREEGTVEL---VLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT 73
                 K  + R +  ++L   +L+           V+ I G+ GSG T  AL V     
Sbjct: 122 DNQVFAKYNVSRLQPYLKLRQALLELRPAK-----NVL-IDGVLGSGKTWVALDVCLSYK 175

Query: 74  V--NFNFALDDTWKEKYVDWTNM------RDLFAAVASRSKVIVTTRNQGVASIMGTMP- 124
           V    +F          + W N+        +   +      I        +     +  
Sbjct: 176 VQCKMDFK---------IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSR-SDHSSNIKL 225

Query: 125 -----AYELKKLVND----NCLLI 139
                  EL++L+      NCLL+
Sbjct: 226 RIHSIQAELRRLLKSKPYENCLLV 249

>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 = 45.6 bits (107), Expect = 2e-06
 Identities = 10/69 (14%), Positives = 20/69 (28%), Gaps = 15/69 (21%)

Query: 80  LDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTMPAYEL------KKLVN 133
           L +    K  +         A     K+++TTR + V   +       +        L  
Sbjct: 250 LLNVQNAKAWN---------AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300

Query: 134 DNCLLIFSQ 142
           D    +  +
Sbjct: 301 DEVKSLLLK 309

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	162
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.89
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.83
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.77
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.75
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.28
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.23
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	98.97
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.96
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.95
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.94
2fna_A	357	Conserved hypothetical protein; structural genomic	98.91
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	98.89
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	98.89
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.85
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.85
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.83
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.82
3pvs_A	447	Replication-associated recombination protein A; ma	98.8
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.77
3bos_A	242	Putative DNA replication factor; P-loop containing	98.72
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.7
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.69
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.68
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.68
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.59
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.59
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.58
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.57
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.57
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.54
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.53
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.47
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.42
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.4
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.38
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.36
3co5_A	143	Putative two-component system transcriptional RES	98.36
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.33
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.33
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.32
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.31
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.31
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.28
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.27
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.24
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.24
2r44_A	331	Uncharacterized protein; putative ATPase, structur	98.23
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.23
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.17
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.16
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.16
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.16
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.15
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.14
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.14
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.14
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.12
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.98
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	97.97
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.97
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.96
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	97.96
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.94
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.89
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	97.86
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.84
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.83
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.8
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.79
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.78
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.77
1tue_A	212	Replication protein E1; helicase, replication, E1E	97.77
2qgz_A	308	Helicase loader, putative primosome component; str	97.74
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.72
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.71
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	97.7
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.67
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.66
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.64
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.63
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.57
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.56
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.56
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.55
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.51
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	97.49
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.47
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.39
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	97.35
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.33
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.3
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.26
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.23
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.22
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.18
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.16
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.16
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.14
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.14
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.12
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.11
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.09
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.08
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.08
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.08
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.08
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	97.08
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.04
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.03
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.03
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.02
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.01
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.01
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.01
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.98
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.97
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.96
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.95
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.95
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.95
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.93
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.92
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.92
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.92
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.92
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.92
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.92
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.9
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.89
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.89
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.89
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.89
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.89
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.88
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.88
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.88
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	96.88
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.88
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.87
1via_A	175	Shikimate kinase; structural genomics, transferase	96.87
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.87
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.87
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.85
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.85
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.85
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.83
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.83
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.81
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	96.81
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.8
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	96.8
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.79
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.78
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.77
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.77
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.75
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.75
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.74
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.73
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.73
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.72
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.71
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.71
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.7
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.69
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.69
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.68
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.67
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.67
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	96.67
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.66
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.66
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	96.64
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.63
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.63
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.62
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	96.61
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.61
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.61
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.58
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.57
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.57
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.56
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.56
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	96.55
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.54
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	96.53
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.52
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.52
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.52
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.51
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	96.5
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.5
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.49
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.48
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.48
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.48
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.47
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	96.46
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.46
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.45
3llu_A	196	RAS-related GTP-binding protein C; structural geno	96.45
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	96.45
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	96.45
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	96.44
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.43
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.43
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	96.43
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	96.42
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.42
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.4
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	96.4
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	96.4
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.4
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.39
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	96.38
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.38
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	96.38
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	96.36
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	96.36
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.35
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.34
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.33
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	96.32
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.32
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	96.32
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.32
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	96.31
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.31
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.3
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	96.29
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.28
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	96.28
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.27
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.26
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.25
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.25
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.24
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	96.24
2wji_A	165	Ferrous iron transport protein B homolog; membrane	96.22
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.22
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.22
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.21
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.21
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.21
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.2
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.19
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	96.18
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.18
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.18
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	96.18
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.17
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	96.17
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.14
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	96.14
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.14
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	96.13
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.13
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.12
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.12
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.12
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.11
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	96.11
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	96.11
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	96.1
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	96.1
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	96.09
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	96.09
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.09
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.08
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	96.08
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.07
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.07
3end_A	307	Light-independent protochlorophyllide reductase ir	96.06
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.06
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.06
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	96.05
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.05
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.05
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.05
1g6h_A	257	High-affinity branched-chain amino acid transport	96.05
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.04
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	96.04
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.03
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.03
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.03
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.02
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	96.01
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	96.01
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	96.01
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	96.0
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.0
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	96.0
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.0
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.0
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.99
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.99
2og2_A	359	Putative signal recognition particle receptor; nuc	95.96
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.95
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.95
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.94
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.94
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.94
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	95.93
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.92
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.92
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.91
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.91
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.9
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.9
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.89
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	95.88
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.88
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.87
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.87
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	95.86
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	95.85
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.85
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	95.85
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.85
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.83
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.83
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	95.83
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	95.83
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	95.83
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.82
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	95.82
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	95.81
2xxa_A	433	Signal recognition particle protein; protein trans	95.81
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	95.81
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	95.81
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.8
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.8
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	95.79
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.78
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	95.77
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	95.77
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	95.76
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	95.75
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	95.75
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.75
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.74
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	95.73
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.72
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	95.71
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	95.7
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	95.7
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	95.7
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	95.69
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	95.68
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	95.68
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	95.67
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	95.67
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	95.66
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.64
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	95.64
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.63
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	95.62
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	95.61
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.61
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.61
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.59
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.58
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	95.58
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.57
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	95.57
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.56
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.55
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	95.54
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.54
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	95.54
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	95.54
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	95.51
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	95.5
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	95.5
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.5
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	95.49
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.49
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	95.49
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	95.48
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.47
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	95.47
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.46
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.46
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	95.45
2fh5_B	214	SR-beta, signal recognition particle receptor beta	95.44
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.42
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.42
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.41
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.4
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	95.39
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.38
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	95.38
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.37
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.37
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	95.37
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	95.37
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.35
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	95.35
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	95.35
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.35
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	95.34
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	95.34
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.34
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	95.32
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.32
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.31
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	95.3
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.3
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	95.29
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.29
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.28
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	95.28
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.27
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.25
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	95.24
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.23
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	95.22
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.22
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.22
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.21
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	95.21
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	95.21
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	95.2
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	95.16
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	95.15
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	95.14
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	95.14
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	95.12
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.12
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.11
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	95.11
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.1
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.1
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	95.09
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	95.09
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	95.08
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	95.08
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	95.07
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	95.07
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	95.03
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	94.99
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	94.96
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.94
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	94.93
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	94.92
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.92
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	94.91
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	94.86
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	94.86
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	94.86
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	94.84
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.83
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.82
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.82
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.82
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	94.79
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	94.79
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.78
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	94.76
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	94.75
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	94.73
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	94.73
1u94_A	356	RECA protein, recombinase A; homologous recombinat	94.71
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	94.69
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	94.68
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	94.68
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.67
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	94.66
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	94.65
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	94.65
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.65
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	94.65
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.6
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	94.58
2z43_A	324	DNA repair and recombination protein RADA; archaea	94.56
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	94.52
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	94.52
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	94.51
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	94.51
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	94.49
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.48
3cwq_A	209	Para family chromosome partitioning protein; alpha	94.47
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.46
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	94.45
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.44
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	94.44
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	94.42
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.41
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	94.41
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.39
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	94.38
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	94.32
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	94.29
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	94.29
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.26
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	94.26
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.2
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	94.19
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	94.16

>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=99.89  E-value=2.2e-23  Score=173.93  Aligned_cols=119  Identities=22%  Similarity=0.214  Sum_probs=92.3

Q ss_pred             CCCCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHc--cCCc-------------------
Q 039127           19 VPSVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYN--DKTV-------------------   74 (162)
Q Consensus        19 ~~~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~--~~~~-------------------   74 (162)
                      .|..+..|||+.   ++.++|....    +...++|+|+||||+||||||+++|+  +.+.                   
T Consensus       124 ~p~~~~~~GR~~~~~~l~~~L~~~~----~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~  199 (549)
T 2a5y_B          124 VPKQMTCYIREYHVDRVIKKLDEMC----DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKS  199 (549)
T ss_dssp             CBCCCCSCCCHHHHHHHHHHHHHHT----TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTH
T ss_pred             CCCCCccCCchHHHHHHHHHHhccc----CCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCC
Confidence            344445359999   7888886542    24579999999999999999999996  1110                   


Q ss_pred             --------------------------------------------eEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEe
Q 039127           75 --------------------------------------------NFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVT  110 (162)
Q Consensus        75 --------------------------------------------~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiT  110 (162)
                                                                  +|||||||+|  +.+++ .+    +. .+||+||||
T Consensus       200 ~~~~~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~--~~~~~-~~----~~-~~gs~ilvT  271 (549)
T 2a5y_B          200 TFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVV--QEETI-RW----AQ-ELRLRCLVT  271 (549)
T ss_dssp             HHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEEC--CHHHH-HH----HH-HTTCEEEEE
T ss_pred             HHHHHHHHHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCC--Cchhh-cc----cc-cCCCEEEEE
Confidence                                                        1999999999  66544 21    21 279999999


Q ss_pred             cCChhhHhhhCCC-CeeeCCCCCHHHHHHHHhhCCCCCCC
Q 039127          111 TRNQGVASIMGTM-PAYELKKLVNDNCLLIFSQHPSGTRE  149 (162)
Q Consensus       111 TR~~~v~~~~~~~-~~~~l~~L~~~~~~~lf~~~af~~~~  149 (162)
                      ||++.++..++.. .+|+|++|+.++||+||.++||+...
T Consensus       272 TR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  311 (549)
T 2a5y_B          272 TRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV  311 (549)
T ss_dssp             ESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-
T ss_pred             cCCHHHHHHcCCCCeEEECCCCCHHHHHHHHHHHhcCCCC
Confidence            9999999877633 57999999999999999999997654

>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=99.83  E-value=4.4e-21  Score=170.65  Aligned_cols=113  Identities=21%  Similarity=0.304  Sum_probs=90.4

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc---e-------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV---N-------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~---~-------------------   75 (162)
                      ..+.|+||++   ++.++|....     ...++++|+||||+||||||+++|++.+.   .                   
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~~-----~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~  196 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKLN-----GEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLL  196 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTTT-----TSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHH
T ss_pred             CCceeccHHHHHHHHHHHHhhcc-----CCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHH
Confidence            4467999999   6777776543     45789999999999999999999887311   0                   


Q ss_pred             -----------------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh
Q 039127           76 -----------------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ  114 (162)
Q Consensus        76 -----------------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~  114 (162)
                                                               |||||||+|  +...|..+       .+||+||||||++
T Consensus       197 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~--~~~~~~~~-------~~~~~ilvTtR~~  267 (1249)
T 3sfz_A          197 MKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW--DPWVLKAF-------DNQCQILLTTRDK  267 (1249)
T ss_dssp             HHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCC--CHHHHTTT-------CSSCEEEEEESST
T ss_pred             HHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCC--CHHHHHhh-------cCCCEEEEEcCCH
Confidence                                                     899999999  66655442       5789999999999


Q ss_pred             hhHhh-hCCCCeeeCCC-CCHHHHHHHHhhCCCCC
Q 039127          115 GVASI-MGTMPAYELKK-LVNDNCLLIFSQHPSGT  147 (162)
Q Consensus       115 ~v~~~-~~~~~~~~l~~-L~~~~~~~lf~~~af~~  147 (162)
                      .++.. ++....+++.+ |+.+++++||...++..
T Consensus       268 ~~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~  302 (1249)
T 3sfz_A          268 SVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK  302 (1249)
T ss_dssp             TTTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSC
T ss_pred             HHHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCC
Confidence            99854 45556799996 99999999999887543

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

Probab=99.77  E-value=3e-19  Score=156.61  Aligned_cols=105  Identities=20%  Similarity=0.189  Sum_probs=83.4

Q ss_pred             ceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC---------------------------
Q 039127           24 LWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT---------------------------   73 (162)
Q Consensus        24 ~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~---------------------------   73 (162)
                      ..+||+.   ++.++|...+      ..++++|+||||+||||||+.+|++.+                           
T Consensus       129 ~~VGRe~eLeeL~elL~~~d------~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d~~~IL~~L  202 (1221)
T 1vt4_I          129 YNVSRLQPYLKLRQALLELR------PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML  202 (1221)
T ss_dssp             SCCCCHHHHHHHHHHHHHCC------SSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSSHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHhccC------CCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCCHHHHHHHH
Confidence            3499998   7777777533      368999999999999999999985320                           


Q ss_pred             -----------------------------------------ceEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecC
Q 039127           74 -----------------------------------------VNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTR  112 (162)
Q Consensus        74 -----------------------------------------~~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR  112 (162)
                                                               .++||||||+|  +.+.|+.+    +   +||+||||||
T Consensus       203 l~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVw--d~eqLe~f----~---pGSRILVTTR  273 (1221)
T 1vt4_I          203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ--NAKAWNAF----N---LSCKILLTTR  273 (1221)
T ss_dssp             HHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCC--CHHHHHHH----H---SSCCEEEECS
T ss_pred             HHHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcC--hHHHHHhh----C---CCeEEEEecc
Confidence                                                     01899999999  77777764    2   6899999999


Q ss_pred             ChhhHhhhCCCCeeeCC------CCCHHHHHHHHhhC
Q 039127          113 NQGVASIMGTMPAYELK------KLVNDNCLLIFSQH  143 (162)
Q Consensus       113 ~~~v~~~~~~~~~~~l~------~L~~~~~~~lf~~~  143 (162)
                      ++.++..+.....|+++      +|+.+|||+||++.
T Consensus       274 d~~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~  310 (1221)
T 1vt4_I          274 FKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY  310 (1221)
T ss_dssp             CSHHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHH
T ss_pred             ChHHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHH
Confidence            99988644433346677      99999999999987

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.75  E-value=1.3e-18  Score=145.64  Aligned_cols=112  Identities=23%  Similarity=0.317  Sum_probs=84.6

Q ss_pred             CCCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc--------e-------------
Q 039127           20 PSVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV--------N-------------   75 (162)
Q Consensus        20 ~~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~--------~-------------   75 (162)
                      +..+.||||+.   .+.+.|....     ...++++|+|+||+||||||..++++...        .             
T Consensus       121 ~~~~~~vGR~~~l~~L~~~L~~~~-----~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~  195 (591)
T 1z6t_A          121 QRPVVFVTRKKLVNAIQQKLSKLK-----GEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGL  195 (591)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTST-----TSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHH
T ss_pred             CCCCeecccHHHHHHHHHHHhccc-----CCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHH
Confidence            34578999999   5666665432     35789999999999999999999865311        0             


Q ss_pred             ------------------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC
Q 039127           76 ------------------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN  113 (162)
Q Consensus        76 ------------------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~  113 (162)
                                                                +||||||+|  +...+.    .+   .+|++||+|||+
T Consensus       196 ~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~--~~~~l~----~l---~~~~~ilvTsR~  266 (591)
T 1z6t_A          196 LMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW--DSWVLK----AF---DSQCQILLTTRD  266 (591)
T ss_dssp             HHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEEC--CHHHHH----TT---CSSCEEEEEESC
T ss_pred             HHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCC--CHHHHH----Hh---cCCCeEEEECCC
Confidence                                                      799999999  554433    22   568999999999


Q ss_pred             hhhHhhhCCCCeeeC---CCCCHHHHHHHHhhCCCC
Q 039127          114 QGVASIMGTMPAYEL---KKLVNDNCLLIFSQHPSG  146 (162)
Q Consensus       114 ~~v~~~~~~~~~~~l---~~L~~~~~~~lf~~~af~  146 (162)
                      ..++..+.. ..+++   ++|+.+++++||...++.
T Consensus       267 ~~~~~~~~~-~~~~v~~l~~L~~~ea~~L~~~~~~~  301 (591)
T 1z6t_A          267 KSVTDSVMG-PKYVVPVESSLGKEKGLEILSLFVNM  301 (591)
T ss_dssp             GGGGTTCCS-CEEEEECCSSCCHHHHHHHHHHHHTS
T ss_pred             cHHHHhcCC-CceEeecCCCCCHHHHHHHHHHHhCC
Confidence            998765442 33444   589999999999998765

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.28  E-value=2.8e-11  Score=88.90  Aligned_cols=117  Identities=12%  Similarity=0.094  Sum_probs=84.6

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      ...++||+.   .+..++....      ....+.|+|.+|+|||+||+.+++....                        
T Consensus        22 ~~~~~g~~~~~~~l~~~l~~~~------~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (250)
T 1njg_A           22 FADVVGQEHVLTALANGLSLGR------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFV   95 (250)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHTC------CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHTTCCS
T ss_pred             HHHHhCcHHHHHHHHHHHHcCC------CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhccCCc
Confidence            367999998   5555554433      2347889999999999999988653210                        


Q ss_pred             -------------------------------eEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh-hHh-hhC
Q 039127           75 -------------------------------NFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG-VAS-IMG  121 (162)
Q Consensus        75 -------------------------------~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~~-~~~  121 (162)
                                                     ..++|+||++..+...+..+...+.....+..+|+||+... +.. ...
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~~~~~~l~~  175 (250)
T 1njg_A           96 DLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILS  175 (250)
T ss_dssp             SEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHT
T ss_pred             ceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChHhCCHHHHH
Confidence                                           06999999986677788888877766556778888887643 211 223


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ....+++.+++.++..+++...+
T Consensus       176 r~~~i~l~~l~~~e~~~~l~~~~  198 (250)
T 1njg_A          176 RCLQFHLKALDVEQIRHQLEHIL  198 (250)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHH
T ss_pred             HhhhccCCCCCHHHHHHHHHHHH
Confidence            33479999999999999998654

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.23  E-value=7.4e-11  Score=85.71  Aligned_cols=117  Identities=14%  Similarity=0.127  Sum_probs=83.5

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-----ce-----------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-----VN-----------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-----~~-----------------   75 (162)
                      ....++|++.   .+.+++....       .+.+.|+|.+|+|||+||+.+++...     ..                 
T Consensus        15 ~~~~~~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (226)
T 2chg_A           15 TLDEVVGQDEVIQRLKGYVERKN-------IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRH   87 (226)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTC-------CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTTCHHHHHH
T ss_pred             CHHHHcCcHHHHHHHHHHHhCCC-------CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEeccccccChHHHHH
Confidence            3467899998   5555554433       22388999999999999998876420     00                 


Q ss_pred             ----------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChhh-H-hhhCCCCeeeCCCCCHHHHH
Q 039127           76 ----------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGV-A-SIMGTMPAYELKKLVNDNCL  137 (162)
Q Consensus        76 ----------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v-~-~~~~~~~~~~l~~L~~~~~~  137 (162)
                                      .++++||++......++.+...+.....+..+|+||+.... . ........+++.+++.++..
T Consensus        88 ~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r~~~i~~~~~~~~~~~  167 (226)
T 2chg_A           88 KIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMK  167 (226)
T ss_dssp             HHHHHHTSCCSTTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHH
T ss_pred             HHHHHhcccCCCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHhCceeecCCCCHHHHH
Confidence                            68999999866667777777777665667788888876532 1 12222337899999999999


Q ss_pred             HHHhhCC
Q 039127          138 LIFSQHP  144 (162)
Q Consensus       138 ~lf~~~a  144 (162)
                      .++.+.+
T Consensus       168 ~~l~~~~  174 (226)
T 2chg_A          168 KRLLEIC  174 (226)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998654

>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=98.97  E-value=3e-09  Score=81.93  Aligned_cols=116  Identities=14%  Similarity=0.132  Sum_probs=81.8

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-------------------------   73 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-------------------------   73 (162)
                      ..+++|++.   .+.+++....       .+.+.++|++|+|||++|+.+++...                         
T Consensus        20 ~~~~~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~   92 (323)
T 1sxj_B           20 LSDIVGNKETIDRLQQIAKDGN-------MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQ   92 (323)
T ss_dssp             GGGCCSCTHHHHHHHHHHHSCC-------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHHHHCCHHHHHHHHHHHHcCC-------CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCccccChHHHHHH
Confidence            467999998   5555554433       22388999999999999988765420                         


Q ss_pred             -------------c-eEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh-hH-hhhCCCCeeeCCCCCHHHHH
Q 039127           74 -------------V-NFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG-VA-SIMGTMPAYELKKLVNDNCL  137 (162)
Q Consensus        74 -------------~-~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~-~~~~~~~~~~l~~L~~~~~~  137 (162)
                                   . ..++|+||++..+...++.|...+.....++.+|++|.... +. ........+++.+++.++..
T Consensus        93 ~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~  172 (323)
T 1sxj_B           93 IKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVL  172 (323)
T ss_dssp             HHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHH
T ss_pred             HHHHHhccccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHHhhceEEeecCCCHHHHH
Confidence                         0 16899999986666777777777766556777888776543 21 22233347999999999999


Q ss_pred             HHHhhCC
Q 039127          138 LIFSQHP  144 (162)
Q Consensus       138 ~lf~~~a  144 (162)
                      .++...+
T Consensus       173 ~~l~~~~  179 (323)
T 1sxj_B          173 KRLLQII  179 (323)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998653

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.96  E-value=6.2e-09  Score=80.83  Aligned_cols=113  Identities=16%  Similarity=0.180  Sum_probs=74.1

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC-------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK-------------------------   72 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~-------------------------   72 (162)
                      ....|+||+.   .+.+++...         +++.|+|++|+|||+|++.+++..                         
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~~---------~~v~i~G~~G~GKT~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLENY---------PLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHHC---------SEEEEECCTTSSHHHHHHHHHHHSSEEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             ChHhcCChHHHHHHHHHHHhcC---------CeEEEECCCcCCHHHHHHHHHHHcCcEEEEeecccccccCCCHHHHHHH
Confidence            4568999999   444444321         488999999999999998764320                         


Q ss_pred             ------------------------C-----c-----------------eEEEEEeCCCCCC-------hhhHHHHHhhcc
Q 039127           73 ------------------------T-----V-----------------NFNFALDDTWKEK-------YVDWTNMRDLFA   99 (162)
Q Consensus        73 ------------------------~-----~-----------------~~LlVlDdv~~~~-------~~~~~~l~~~l~   99 (162)
                                              .     .                 ..++|+||++..+       ...+..+...+.
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~~  160 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYD  160 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHHH
Confidence                                    0     0                 1789999998422       122333433333


Q ss_pred             ccCCCcEEEEecCChhh-Hhh----------hCC-CCeeeCCCCCHHHHHHHHhhC
Q 039127          100 AVASRSKVIVTTRNQGV-ASI----------MGT-MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       100 ~~~~gs~iiiTTR~~~v-~~~----------~~~-~~~~~l~~L~~~~~~~lf~~~  143 (162)
                       ..++.++|+|++.... ...          .+. ...+++.+|+.+++.+++...
T Consensus       161 -~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~  215 (350)
T 2qen_A          161 -SLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRG  215 (350)
T ss_dssp             -HCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHH
T ss_pred             -hcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHH
Confidence             2346789999887643 221          111 236899999999999999763

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=98.95  E-value=4.2e-09  Score=81.22  Aligned_cols=117  Identities=15%  Similarity=0.120  Sum_probs=83.0

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc-----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV-----------------------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-----------------------   74 (162)
                      ...+++|++.   .+.+++....       .+.+.++|.+|+|||++|+.+++....                       
T Consensus        23 ~~~~~~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   95 (327)
T 1iqp_A           23 RLDDIVGQEHIVKRLKHYVKTGS-------MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIRE   95 (327)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHTC-------CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHH
T ss_pred             CHHHhhCCHHHHHHHHHHHHcCC-------CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccCchHHHHH
Confidence            3467999998   5555554433       334889999999999999988765200                       


Q ss_pred             ---------------eEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChhh-Hh-hhCCCCeeeCCCCCHHHHH
Q 039127           75 ---------------NFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGV-AS-IMGTMPAYELKKLVNDNCL  137 (162)
Q Consensus        75 ---------------~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v-~~-~~~~~~~~~l~~L~~~~~~  137 (162)
                                     ..++++|+++..+...++.+...+.....+.++|+||....- .. .......+++.+++.++..
T Consensus        96 ~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~~~~~~l~~~~~~  175 (327)
T 1iqp_A           96 KVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIA  175 (327)
T ss_dssp             HHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHH
T ss_pred             HHHHHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhhCcEEEecCCCHHHHH
Confidence                           058999999977777788888877766667788888866431 11 1112236899999999999


Q ss_pred             HHHhhCC
Q 039127          138 LIFSQHP  144 (162)
Q Consensus       138 ~lf~~~a  144 (162)
                      .++...+
T Consensus       176 ~~l~~~~  182 (327)
T 1iqp_A          176 KRLRYIA  182 (327)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9887653

>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=98.94  E-value=8.1e-10  Score=87.95  Aligned_cols=117  Identities=14%  Similarity=0.036  Sum_probs=71.9

Q ss_pred             CceeeehH---HHHHHh-h---cCCCCCCCCCeEEEEE--EcCCCcchHHHHHHHHccCCc---------e---------
Q 039127           23 KLWLGREE---GTVELV-L---KDDSETIDGGFFVIPI--IGMGGSGNTTPALPVYNDKTV---------N---------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l-~---~~~~~~~~~~~~vv~I--~G~gGiGKTtLa~~~~~~~~~---------~---------   75 (162)
                      ..++||+.   .+.+.+ .   ...    ......+.|  +|++|+|||+||+.+++....         .         
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~~----~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSGA----GLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNA   97 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSS----CBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGC
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcCC----CCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCC
Confidence            67999998   454444 2   120    012345666  999999999999988754210         0         


Q ss_pred             ------------------------------------------EEEEEeCCCCC------ChhhHHHHHhhccccC-----
Q 039127           76 ------------------------------------------FNFALDDTWKE------KYVDWTNMRDLFAAVA-----  102 (162)
Q Consensus        76 ------------------------------------------~LlVlDdv~~~------~~~~~~~l~~~l~~~~-----  102 (162)
                                                                ++|||||++..      +.+.+..+...+....     
T Consensus        98 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~  177 (412)
T 1w5s_A           98 PNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGV  177 (412)
T ss_dssp             CSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSC
T ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCC
Confidence                                                      69999999832      1233444444443221     


Q ss_pred             CCcEEEEecCChhhHhh--------hCC-CCeeeCCCCCHHHHHHHHhhC
Q 039127          103 SRSKVIVTTRNQGVASI--------MGT-MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       103 ~gs~iiiTTR~~~v~~~--------~~~-~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ....+|+||+...+...        ... ...+++.+|+.++++++|...
T Consensus       178 ~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~  227 (412)
T 1w5s_A          178 NRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQR  227 (412)
T ss_dssp             CBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHH
T ss_pred             ceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHH
Confidence            23347778876543211        111 123899999999999999643

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=98.91  E-value=5.6e-09  Score=81.19  Aligned_cols=67  Identities=15%  Similarity=0.181  Sum_probs=42.6

Q ss_pred             EEEEEeCCCCCC----hhhHHHHHhhccccCCCcEEEEecCChhhHh-h---------h-CC-CCeeeCCCCCHHHHHHH
Q 039127           76 FNFALDDTWKEK----YVDWTNMRDLFAAVASRSKVIVTTRNQGVAS-I---------M-GT-MPAYELKKLVNDNCLLI  139 (162)
Q Consensus        76 ~LlVlDdv~~~~----~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~-~---------~-~~-~~~~~l~~L~~~~~~~l  139 (162)
                      .+|||||++..+    .+.+..+. .+.....+.++|+|++...... .         . +. ...+++.+|+.+++.++
T Consensus       139 ~vlvlDe~~~~~~~~~~~~~~~l~-~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~  217 (357)
T 2fna_A          139 VIIVLDEAQELVKLRGVNLLPALA-YAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEF  217 (357)
T ss_dssp             EEEEEETGGGGGGCTTCCCHHHHH-HHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHH
T ss_pred             eEEEEECHHHhhccCchhHHHHHH-HHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHH
Confidence            589999998422    22233333 3322234678999999865322 1         1 11 24689999999999999


Q ss_pred             HhhC
Q 039127          140 FSQH  143 (162)
Q Consensus       140 f~~~  143 (162)
                      +...
T Consensus       218 l~~~  221 (357)
T 2fna_A          218 LRRG  221 (357)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9863

>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=98.89  E-value=4.7e-09  Score=82.48  Aligned_cols=118  Identities=13%  Similarity=0.041  Sum_probs=73.6

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC------Cce------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK------TVN------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~------~~~------------------   75 (162)
                      ..++||+.   .+.+++....   .......+.|+|++|+|||+||+.+++..      ...                  
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~---~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   96 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLY---REEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLAD   96 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGG---GTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHH---cCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHH
Confidence            68999999   4444443210   11235678899999999999999887532      100                  


Q ss_pred             ---------------------------------EEEEEeCCCCCC----hhhHHHHHhhccc-cCCCcEEEEecCChhhH
Q 039127           76 ---------------------------------FNFALDDTWKEK----YVDWTNMRDLFAA-VASRSKVIVTTRNQGVA  117 (162)
Q Consensus        76 ---------------------------------~LlVlDdv~~~~----~~~~~~l~~~l~~-~~~gs~iiiTTR~~~v~  117 (162)
                                                       .+++||+++...    ...+..+...+.. ...+..+|+||+.....
T Consensus        97 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~~~~~~  176 (386)
T 2qby_A           97 LLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFV  176 (386)
T ss_dssp             HTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEESCGGGG
T ss_pred             HHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEECCCChH
Confidence                                             689999987321    2334444444322 12344567777765432


Q ss_pred             hhhC-----C--CCeeeCCCCCHHHHHHHHhhC
Q 039127          118 SIMG-----T--MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       118 ~~~~-----~--~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ..+.     .  ...+++.+++.++..++|...
T Consensus       177 ~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~  209 (386)
T 2qby_A          177 DLLDPRVKSSLSEEEIIFPPYNAEELEDILTKR  209 (386)
T ss_dssp             GGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHH
T ss_pred             hhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHH
Confidence            2111     1  136999999999999999864

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=98.89  E-value=4.5e-09  Score=82.70  Aligned_cols=118  Identities=13%  Similarity=0.049  Sum_probs=72.6

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC---------Cce---------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK---------TVN---------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~---------~~~---------------   75 (162)
                      ..++||+.   .+..++...-   .....+.+.|+|++|+|||+||+.+++..         ...               
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~---~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   95 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPAL---RGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRV   95 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGT---SSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHH---cCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHH
Confidence            68999999   5555543211   11235678899999999999999887643         111               


Q ss_pred             ------------------------------------EEEEEeCCCCCChh--hHHHHHhhcccc-----CCCcEEEEecC
Q 039127           76 ------------------------------------FNFALDDTWKEKYV--DWTNMRDLFAAV-----ASRSKVIVTTR  112 (162)
Q Consensus        76 ------------------------------------~LlVlDdv~~~~~~--~~~~l~~~l~~~-----~~gs~iiiTTR  112 (162)
                                                          .+++||+++.....  ..+.+...+...     ..+..+|.||+
T Consensus        96 ~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~I~~t~  175 (387)
T 2v1u_A           96 ASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITN  175 (387)
T ss_dssp             HHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEEEEECS
T ss_pred             HHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEEEEEEC
Confidence                                                59999999832222  223333323211     33456777776


Q ss_pred             ChhhH-----hhhCCC--CeeeCCCCCHHHHHHHHhhC
Q 039127          113 NQGVA-----SIMGTM--PAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       113 ~~~v~-----~~~~~~--~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .....     ......  ..+++.+++.++...++...
T Consensus       176 ~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~  213 (387)
T 2v1u_A          176 SLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETR  213 (387)
T ss_dssp             CSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHH
T ss_pred             CCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHH
Confidence            65221     111111  36899999999999999866

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.85  E-value=5.4e-09  Score=74.05  Aligned_cols=111  Identities=12%  Similarity=0.098  Sum_probs=69.0

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC----------ce------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT----------VN------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~----------~~------------   75 (162)
                      ....++||++   .+.+.+....       ...+.|+|.+|+|||+||+.+++...          ..            
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQRRT-------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAG   92 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSSS-------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTT
T ss_pred             cccccccchHHHHHHHHHHhcCC-------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHHHHhcc
Confidence            3467999998   5666555432       34577999999999999998876531          11            


Q ss_pred             ------------------------EEEEEeCCCCCC--------hhhHHHHHhhccccCCCcEEEEecCChhhH------
Q 039127           76 ------------------------FNFALDDTWKEK--------YVDWTNMRDLFAAVASRSKVIVTTRNQGVA------  117 (162)
Q Consensus        76 ------------------------~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~------  117 (162)
                                              .+++|||++...        ......+...+. .. ...+|.||......      
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~-~~-~~~~i~~~~~~~~~~~~~~~  170 (195)
T 1jbk_A           93 AKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-RG-ELHCVGATTLDEYRQYIEKD  170 (195)
T ss_dssp             TCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-TT-SCCEEEEECHHHHHHHTTTC
T ss_pred             CCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhc-cC-CeEEEEeCCHHHHHHHHhcC
Confidence                                    589999997432        112333433332 22 34466666554422      


Q ss_pred             -hhhCCCCeeeCCCCCHHHHHHHH
Q 039127          118 -SIMGTMPAYELKKLVNDNCLLIF  140 (162)
Q Consensus       118 -~~~~~~~~~~l~~L~~~~~~~lf  140 (162)
                       .....-..+.+.+++.++..+++
T Consensus       171 ~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          171 AALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHhceeecCCCCHHHHHHHh
Confidence             11222225889999988877654

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=98.85  E-value=2.9e-08  Score=78.01  Aligned_cols=116  Identities=12%  Similarity=0.120  Sum_probs=80.5

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------------------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------------------------   74 (162)
                      ..+++|++.   .+.+.+....      ....+.|+|.+|+|||++|+.+.+....                        
T Consensus        15 ~~~~vg~~~~~~~L~~~l~~~~------~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (373)
T 1jr3_A           15 FADVVGQEHVLTALANGLSLGR------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFV   88 (373)
T ss_dssp             TTTSCSCHHHHHHHHHHHHHTC------CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHHHHTSCCS
T ss_pred             hhhccCcHHHHHHHHHHHHhCC------CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhccCCC
Confidence            457999998   4555554433      2346789999999999999988643210                        


Q ss_pred             -------------e------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh-hH-hhhC
Q 039127           75 -------------N------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG-VA-SIMG  121 (162)
Q Consensus        75 -------------~------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~-~~~~  121 (162)
                                   .                  .++++|+++..+...++.+...+........+|++|.... +. ....
T Consensus        89 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~l~~~l~s  168 (373)
T 1jr3_A           89 DLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILS  168 (373)
T ss_dssp             SCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGGSCHHHHT
T ss_pred             ceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHhCcHHHHh
Confidence                         0                  5899999987677778888877765555666666665432 22 2223


Q ss_pred             CCCeeeCCCCCHHHHHHHHhhC
Q 039127          122 TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       122 ~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ....+++.+++.++...++...
T Consensus       169 r~~~i~~~~l~~~~~~~~l~~~  190 (373)
T 1jr3_A          169 RCLQFHLKALDVEQIRHQLEHI  190 (373)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHH
T ss_pred             heeEeeCCCCCHHHHHHHHHHH
Confidence            3347899999999999888754

>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=98.83  E-value=1.4e-08  Score=80.08  Aligned_cols=118  Identities=16%  Similarity=0.082  Sum_probs=73.5

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC-----------Cc--------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK-----------TV--------------   74 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~-----------~~--------------   74 (162)
                      ..++||+.   .+.+++....   .....+.+.|+|++|+|||+||+.+++..           ..              
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~---~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   96 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFV---KNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTP   96 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHH---TTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCH
T ss_pred             CCCCChHHHHHHHHHHHHHHH---cCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCH
Confidence            68999998   4444443210   01234588899999999999999887531           00              


Q ss_pred             -----------------------e--------------EEEEEeCCCCCChhh-HHHHHhhccccCCCcEEEEecCChhh
Q 039127           75 -----------------------N--------------FNFALDDTWKEKYVD-WTNMRDLFAAVASRSKVIVTTRNQGV  116 (162)
Q Consensus        75 -----------------------~--------------~LlVlDdv~~~~~~~-~~~l~~~l~~~~~gs~iiiTTR~~~v  116 (162)
                                             .              .+++||+++...... .+.+...+.....+..+|+||+....
T Consensus        97 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~iI~~t~~~~~  176 (384)
T 2qby_B           97 QAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINV  176 (384)
T ss_dssp             HHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSSSCEEEEEECSSTTT
T ss_pred             HHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCCcceEEEEEECCCch
Confidence                                   0              499999998322111 22202222222256788888886532


Q ss_pred             ----Hhhh-CC-CCeeeCCCCCHHHHHHHHhhC
Q 039127          117 ----ASIM-GT-MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       117 ----~~~~-~~-~~~~~l~~L~~~~~~~lf~~~  143 (162)
                          .... .. ...+++.+++.++...+|...
T Consensus       177 ~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~  209 (384)
T 2qby_B          177 RDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKY  209 (384)
T ss_dssp             TTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHH
T ss_pred             HhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHH
Confidence                1111 11 127999999999999999876

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=98.82  E-value=2.2e-08  Score=78.91  Aligned_cols=117  Identities=15%  Similarity=0.136  Sum_probs=79.0

Q ss_pred             CceeeehH---HHHHHhhc---CCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC----ce-----------------
Q 039127           23 KLWLGREE---GTVELVLK---DDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT----VN-----------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~---~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~----~~-----------------   75 (162)
                      ..++||+.   .+.+++..   ..    ....+.+.|+|.+|+|||+|++.+++...    ..                 
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~----~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~~~~~~   92 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNP----GHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIG   92 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHST----TSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCC----CCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCHHHHHH
Confidence            67999998   45555443   12    12234788999999999999998875431    11                 


Q ss_pred             ----------------------------------EEEEEeCCCCCChhhHHHHHhhccccC----CCcEEEEecCChhhH
Q 039127           76 ----------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVA----SRSKVIVTTRNQGVA  117 (162)
Q Consensus        76 ----------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~----~gs~iiiTTR~~~v~  117 (162)
                                                        .+++||+++..+...+..|...+....    .+..+|++|+.....
T Consensus        93 ~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~~~~  172 (389)
T 1fnn_A           93 EIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVL  172 (389)
T ss_dssp             HHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHH
T ss_pred             HHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCchHH
Confidence                                              489999998666666667766654311    356777777765432


Q ss_pred             hhhC-------CCCeeeCCCCCHHHHHHHHhhC
Q 039127          118 SIMG-------TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       118 ~~~~-------~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ..+.       ....+++.+++.++...++...
T Consensus       173 ~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~  205 (389)
T 1fnn_A          173 NNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDR  205 (389)
T ss_dssp             HTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHH
T ss_pred             HHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHH
Confidence            2211       1235999999999999999765

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.80  E-value=3.3e-08  Score=80.63  Aligned_cols=115  Identities=14%  Similarity=0.196  Sum_probs=75.6

Q ss_pred             CCCceeeehH------HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-------------------
Q 039127           21 SVKLWLGREE------GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~------~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------   75 (162)
                      ...+++|++.      .+...+....       ...+.|+|.+|+||||||+.+++.....                   
T Consensus        24 ~l~~ivGq~~~~~~~~~L~~~i~~~~-------~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~~~~~ir~~~~   96 (447)
T 3pvs_A           24 NLAQYIGQQHLLAAGKPLPRAIEAGH-------LHSMILWGPPGTGKTTLAEVIARYANADVERISAVTSGVKEIREAIE   96 (447)
T ss_dssp             STTTCCSCHHHHSTTSHHHHHHHHTC-------CCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTCCHHHHHHHHH
T ss_pred             CHHHhCCcHHHHhchHHHHHHHHcCC-------CcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccCCHHHHHHHHH
Confidence            4578999887      2334444433       4678899999999999999998765433                   


Q ss_pred             -----------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh--h-HhhhCCCCeeeCCCCCHHHHHHHHh
Q 039127           76 -----------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG--V-ASIMGTMPAYELKKLVNDNCLLIFS  141 (162)
Q Consensus        76 -----------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~--v-~~~~~~~~~~~l~~L~~~~~~~lf~  141 (162)
                                 .+|++|+++..+....+.|...+.. ..-.-|..||.+..  + ........++.+.+++.++...++.
T Consensus        97 ~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~-~~v~lI~att~n~~~~l~~aL~sR~~v~~l~~l~~edi~~il~  175 (447)
T 3pvs_A           97 RARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED-GTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLT  175 (447)
T ss_dssp             HHHHHHHTTCCEEEEEETTTCC------CCHHHHHT-TSCEEEEEESSCGGGSSCHHHHTTEEEEECCCCCHHHHHHHHH
T ss_pred             HHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc-CceEEEecCCCCcccccCHHHhCceeEEeeCCcCHHHHHHHHH
Confidence                       6999999997766677777666664 22223334666643  1 2223334478999999999998887


Q ss_pred             hC
Q 039127          142 QH  143 (162)
Q Consensus       142 ~~  143 (162)
                      +.
T Consensus       176 ~~  177 (447)
T 3pvs_A          176 QA  177 (447)
T ss_dssp             HH
T ss_pred             HH
Confidence            65

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=98.77  E-value=2.5e-08  Score=76.59  Aligned_cols=117  Identities=12%  Similarity=0.122  Sum_probs=78.6

Q ss_pred             CCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC---Cc----------------------
Q 039127           22 VKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK---TV----------------------   74 (162)
Q Consensus        22 ~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~---~~----------------------   74 (162)
                      ..+++|++.  +.+...+...      ..+.+.++|.+|+|||++|+.+++..   ..                      
T Consensus        16 ~~~~~g~~~~~~~l~~~l~~~------~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (319)
T 2chq_A           16 LDEVVGQDEVIQRLKGYVERK------NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKI   89 (319)
T ss_dssp             GGGSCSCHHHHHHHHTTTTTT------CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCTTTSSHHH
T ss_pred             HHHHhCCHHHHHHHHHHHhCC------CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccChHHHHHHH
Confidence            467899988  2222222222      23337899999999999998886542   00                      


Q ss_pred             -------------eEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh-hH-hhhCCCCeeeCCCCCHHHHHHH
Q 039127           75 -------------NFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG-VA-SIMGTMPAYELKKLVNDNCLLI  139 (162)
Q Consensus        75 -------------~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~-~~~~~~~~~~l~~L~~~~~~~l  139 (162)
                                   ..++++|+++..+...++.+...+.....+..+|++|.... +. ........+++.+++.++...+
T Consensus        90 ~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr~~~i~~~~~~~~~~~~~  169 (319)
T 2chq_A           90 KEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKR  169 (319)
T ss_dssp             HHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSCHHHHTTCEEEECCCCCHHHHHHH
T ss_pred             HHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcchHHHhhCeEEEecCCCHHHHHHH
Confidence                         06899999986666677777777765555677777776543 22 2223334799999999998888


Q ss_pred             HhhCC
Q 039127          140 FSQHP  144 (162)
Q Consensus       140 f~~~a  144 (162)
                      +...+
T Consensus       170 l~~~~  174 (319)
T 2chq_A          170 LLEIC  174 (319)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87543

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.72  E-value=1.3e-08  Score=74.95  Aligned_cols=97  Identities=19%  Similarity=0.143  Sum_probs=61.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc-----e---------------------EEEEEeCCCCCChhh--HHHHHhhcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV-----N---------------------FNFALDDTWKEKYVD--WTNMRDLFA   99 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~-----~---------------------~LlVlDdv~~~~~~~--~~~l~~~l~   99 (162)
                      ...+.|+|.+|+|||+||+.+++....     .                     .++++||++......  .+.+...+.
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~~~~~~~~~~~l~~~l~  131 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHASISTALLEGLEQFDLICIDDVDAVAGHPLWEEAIFDLYN  131 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGGGSCGGGGTTGGGSSEEEEETGGGGTTCHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHHhccCCCEEEEeccccccCCHHHHHHHHHHHH
Confidence            457789999999999999988754321     0                     589999998543322  344444433


Q ss_pred             cc-CCCc-EEEEecCChh---------hHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          100 AV-ASRS-KVIVTTRNQG---------VASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       100 ~~-~~gs-~iiiTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      .. ..+. ++|+||+...         +...+.....+++.+++.++..+++...+
T Consensus       132 ~~~~~~~~~ii~~~~~~~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~  187 (242)
T 3bos_A          132 RVAEQKRGSLIVSASASPMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRA  187 (242)
T ss_dssp             HHHHHCSCEEEEEESSCTTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHH
T ss_pred             HHHHcCCCeEEEEcCCCHHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHH
Confidence            21 1222 4777776422         11222222468999999999999988654

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=98.70  E-value=4.3e-08  Score=75.75  Aligned_cols=122  Identities=12%  Similarity=0.077  Sum_probs=76.2

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ...+++|++.   .+...+....  ........+.|+|.+|+|||+||+.+++.....                      
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~--~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~l~~~l~~~   87 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAK--ARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAILANS   87 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHH--HHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCSHHHHHHHHTTT
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHH--ccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCChHHHHHHHHHh
Confidence            4578999998   3433332100  000123467799999999999999997643221                      


Q ss_pred             ----EEEEEeCCCCCChhhHHHHHhhccccC------------------CCcEEEEecCCh-hhHhhh-CC-CCeeeCCC
Q 039127           76 ----FNFALDDTWKEKYVDWTNMRDLFAAVA------------------SRSKVIVTTRNQ-GVASIM-GT-MPAYELKK  130 (162)
Q Consensus        76 ----~LlVlDdv~~~~~~~~~~l~~~l~~~~------------------~gs~iiiTTR~~-~v~~~~-~~-~~~~~l~~  130 (162)
                          .+++||+++.........+...+....                  +...+|.+|... .+...+ .. ...+.+.+
T Consensus        88 ~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~~~~i~~t~~~~~~~~~l~~R~~~~i~l~~  167 (324)
T 1hqc_A           88 LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEY  167 (324)
T ss_dssp             CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCCCEEEEEESCCSSCSCSTTTTCSCEEECCC
T ss_pred             ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCCEEEEEeCCCcccCCHHHHhcccEEEecCC
Confidence                689999999666666666665554321                  234455555433 221111 11 23689999


Q ss_pred             CCHHHHHHHHhhCC
Q 039127          131 LVNDNCLLIFSQHP  144 (162)
Q Consensus       131 L~~~~~~~lf~~~a  144 (162)
                      ++.++...++...+
T Consensus       168 ~~~~e~~~~l~~~~  181 (324)
T 1hqc_A          168 YTPEELAQGVMRDA  181 (324)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999988887654

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=98.69  E-value=9e-08  Score=74.21  Aligned_cols=110  Identities=14%  Similarity=0.134  Sum_probs=74.1

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ...+++|++.   .+.+++....      ....+.+.|.+|+|||++|+.+.+.....                      
T Consensus        24 ~~~~ivg~~~~~~~l~~~l~~~~------~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~~~~i~~~~~~~~   97 (324)
T 3u61_B           24 TIDECILPAFDKETFKSITSKGK------IPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCKIDFVRGPLTNFA   97 (324)
T ss_dssp             STTTSCCCHHHHHHHHHHHHTTC------CCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCCHHHHHTHHHHHH
T ss_pred             CHHHHhCcHHHHHHHHHHHHcCC------CCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccCHHHHHHHHHHHH
Confidence            3478999988   5555555433      23566777889999999999998765322                      


Q ss_pred             ---------EEEEEeCCCCCC-hhhHHHHHhhccccCCCcEEEEecCChh-hHh-hhCCCCeeeCCCCCHHHH
Q 039127           76 ---------FNFALDDTWKEK-YVDWTNMRDLFAAVASRSKVIVTTRNQG-VAS-IMGTMPAYELKKLVNDNC  136 (162)
Q Consensus        76 ---------~LlVlDdv~~~~-~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~~-~~~~~~~~~l~~L~~~~~  136 (162)
                               .++++|+++... .+..+.|...+........+|+||.... +.. .......+++.+++.++-
T Consensus        98 ~~~~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~sR~~~i~~~~~~~~e~  170 (324)
T 3u61_B           98 SAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDK  170 (324)
T ss_dssp             HBCCCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHHHSEEEECCCCCHHHH
T ss_pred             hhcccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHhhCcEEEeCCCCHHHH
Confidence                     689999999666 6667777776665444567777776543 111 111123689999998774

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.68  E-value=6.8e-08  Score=75.26  Aligned_cols=122  Identities=13%  Similarity=0.101  Sum_probs=78.8

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ...+++|++.   .+..++....  ........+.|+|.+|+|||+||+.+++.....                      
T Consensus        27 ~~~~iiG~~~~~~~l~~~l~~~~--~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (338)
T 3pfi_A           27 NFDGYIGQESIKKNLNVFIAAAK--KRNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEKSGDLAAILTNL  104 (338)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHH--HTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCSHHHHHHHHHTC
T ss_pred             CHHHhCChHHHHHHHHHHHHHHH--hcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccchhHHHHHHHhc
Confidence            4468999998   4444443210  001234457899999999999999998765432                      


Q ss_pred             ---EEEEEeCCCCCChhhHHHHHhhccccC------------------CCcEEEEecCCh-hhHh-hhCC-CCeeeCCCC
Q 039127           76 ---FNFALDDTWKEKYVDWTNMRDLFAAVA------------------SRSKVIVTTRNQ-GVAS-IMGT-MPAYELKKL  131 (162)
Q Consensus        76 ---~LlVlDdv~~~~~~~~~~l~~~l~~~~------------------~gs~iiiTTR~~-~v~~-~~~~-~~~~~l~~L  131 (162)
                         .+++||+++.........+...+....                  +...+|.+|... .+.. .... ...+++.++
T Consensus       105 ~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~atn~~~~l~~~L~~R~~~~i~l~~~  184 (338)
T 3pfi_A          105 SEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKFTLIGATTRAGMLSNPLRDRFGMQFRLEFY  184 (338)
T ss_dssp             CTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCCEEEEEESCGGGSCHHHHTTCSEEEECCCC
T ss_pred             cCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCeEEEEeCCCccccCHHHHhhcCEEeeCCCc
Confidence               689999999776777777776654321                  113455555442 2211 1222 247999999


Q ss_pred             CHHHHHHHHhhCC
Q 039127          132 VNDNCLLIFSQHP  144 (162)
Q Consensus       132 ~~~~~~~lf~~~a  144 (162)
                      +.++...++.+.+
T Consensus       185 ~~~e~~~il~~~~  197 (338)
T 3pfi_A          185 KDSELALILQKAA  197 (338)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            9999988887653

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.68  E-value=1.1e-07  Score=72.39  Aligned_cols=125  Identities=18%  Similarity=0.054  Sum_probs=74.2

Q ss_pred             CCCceeeehH---HHHHHhhcC---CCC---CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------
Q 039127           21 SVKLWLGREE---GTVELVLKD---DSE---TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~---~~~---~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------   75 (162)
                      .-.+++|.+.   .+.+.+...   ...   .+-....-+.|+|.+|+|||+||+.+++.....                
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~   94 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGE   94 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCCSTTH
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHhccch
Confidence            3467899998   444443211   000   000123457899999999999999998766443                


Q ss_pred             -----------------EEEEEeCCCCC-----------ChhhHHHHHhhcc-----ccCCCcEEEEecCChhhHh--hh
Q 039127           76 -----------------FNFALDDTWKE-----------KYVDWTNMRDLFA-----AVASRSKVIVTTRNQGVAS--IM  120 (162)
Q Consensus        76 -----------------~LlVlDdv~~~-----------~~~~~~~l~~~l~-----~~~~gs~iiiTTR~~~v~~--~~  120 (162)
                                       .+|+||+++..           +......+...+.     ....+..+|.||.......  ..
T Consensus        95 ~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~ttn~~~~l~~~l~  174 (285)
T 3h4m_A           95 GASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAIL  174 (285)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEECSCGGGBCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCchhcCHHHc
Confidence                             58999999631           1112222322222     1223456777776543221  11


Q ss_pred             CC---CCeeeCCCCCHHHHHHHHhhCCC
Q 039127          121 GT---MPAYELKKLVNDNCLLIFSQHPS  145 (162)
Q Consensus       121 ~~---~~~~~l~~L~~~~~~~lf~~~af  145 (162)
                      ..   ...+.+...+.++..++|...+.
T Consensus       175 ~~~Rf~~~i~~~~p~~~~r~~il~~~~~  202 (285)
T 3h4m_A          175 RPGRFDRIIEVPAPDEKGRLEILKIHTR  202 (285)
T ss_dssp             STTSEEEEEECCCCCHHHHHHHHHHHHT
T ss_pred             CCCcCCeEEEECCCCHHHHHHHHHHHHh
Confidence            21   12688999999999999987643

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.59  E-value=6.8e-08  Score=66.78  Aligned_cols=85  Identities=13%  Similarity=0.004  Sum_probs=55.8

Q ss_pred             ceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-------------------------
Q 039127           24 LWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------------   75 (162)
Q Consensus        24 ~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------------   75 (162)
                      .++|++.   ++.+.+..-.     ....-|.|+|.+|+|||++|+.+++.....                         
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a-----~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~a~   76 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLS-----ETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFVYRELTPDNAPQLNDFIALAQ   76 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHT-----TCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCEEEECCTTTSSCHHHHHHHHT
T ss_pred             CceeCCHHHHHHHHHHHHHh-----CCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEEEECCCCCcchhhhcHHHHcC
Confidence            4678777   4444432211     011235699999999999999998763110                         


Q ss_pred             -EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC
Q 039127           76 -FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN  113 (162)
Q Consensus        76 -~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~  113 (162)
                       -.|+||+++..+......+...+.......++|.||..
T Consensus        77 ~g~l~ldei~~l~~~~q~~Ll~~l~~~~~~~~~I~~t~~  115 (145)
T 3n70_A           77 GGTLVLSHPEHLTREQQYHLVQLQSQEHRPFRLIGIGDT  115 (145)
T ss_dssp             TSCEEEECGGGSCHHHHHHHHHHHHSSSCSSCEEEEESS
T ss_pred             CcEEEEcChHHCCHHHHHHHHHHHhhcCCCEEEEEECCc
Confidence             47899999877777777777777544445577777754

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.59  E-value=7.9e-08  Score=73.84  Aligned_cols=95  Identities=14%  Similarity=0.093  Sum_probs=66.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc-------e------------------------------EEEEEeCCCCC----
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV-------N------------------------------FNFALDDTWKE----   86 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~-------~------------------------------~LlVlDdv~~~----   86 (162)
                      ...+.|+|.+|+|||+||+.+++....       .                              .+|++|+++..    
T Consensus        67 ~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~~~~~~~~vl~iDEid~l~~~~  146 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPD  146 (309)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTCCSSTTCHHHHHHHHHHHHTTSEEEEETGGGSCCCC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhhhhcccccHHHHHHHHHhcCCCEEEEEChhhhccCC
Confidence            456789999999999999866543310       0                              48999999833    


Q ss_pred             -----ChhhHHHHHhhccccCCCcEEEEecCChhh----------HhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 -----KYVDWTNMRDLFAAVASRSKVIVTTRNQGV----------ASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 -----~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v----------~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                           +......|...+........+|.||.....          ...+  ...+++.+++.++...++...+
T Consensus       147 ~~~~~~~~~~~~Ll~~l~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~R~--~~~i~~~~~~~~~~~~il~~~l  217 (309)
T 3syl_A          147 NERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSRI--AHHIEFPDYSDEELFEIAGHML  217 (309)
T ss_dssp             ---CCTHHHHHHHHHHHHHCTTTCEEEEEECHHHHHHHHHHSTTHHHHE--EEEEEECCCCHHHHHHHHHHHH
T ss_pred             CcccccHHHHHHHHHHHhcCCCCEEEEEeCChHHHHHHHhhCHHHHHhC--CeEEEcCCcCHHHHHHHHHHHH
Confidence                 455566777777665556677787765322          1111  1468999999999999886543

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=98.58  E-value=6e-07  Score=67.14  Aligned_cols=123  Identities=15%  Similarity=0.044  Sum_probs=68.6

Q ss_pred             CCceeeehH------HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------
Q 039127           22 VKLWLGREE------GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------   75 (162)
Q Consensus        22 ~~~~vGr~~------~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------   75 (162)
                      -.+++|.+.      +++.++......  .+....+-+.|+|.+|+|||++|+.+++.....                  
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~~   84 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGA   84 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccChhH
Confidence            357888887      333333322200  011223457799999999999999997754322                  


Q ss_pred             ---------------EEEEEeCCCCCC------------h---hhHHHHHhhccc--cCCCcEEEEecCChhhH--hhhC
Q 039127           76 ---------------FNFALDDTWKEK------------Y---VDWTNMRDLFAA--VASRSKVIVTTRNQGVA--SIMG  121 (162)
Q Consensus        76 ---------------~LlVlDdv~~~~------------~---~~~~~l~~~l~~--~~~gs~iiiTTR~~~v~--~~~~  121 (162)
                                     .+|++|+++...            .   .....+...+..  ...+..+|.||......  ....
T Consensus        85 ~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~tn~~~~ld~~l~~  164 (262)
T 2qz4_A           85 ARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMR  164 (262)
T ss_dssp             HHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEESCGGGGGSGGGS
T ss_pred             HHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecCCChhhcCHHHhc
Confidence                           689999998431            1   112223332222  12244566666554321  1122


Q ss_pred             --C-CCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 --T-MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 --~-~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                        . ...+.+...+.++..++|...+
T Consensus       165 ~~R~~~~i~i~~p~~~~r~~il~~~~  190 (262)
T 2qz4_A          165 PGRLDRHVFIDLPTLQERREIFEQHL  190 (262)
T ss_dssp             TTSCCEEEECCSCCHHHHHHHHHHHH
T ss_pred             CCcCCeEEEeCCcCHHHHHHHHHHHH
Confidence              1 2367899999999988887653

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.57  E-value=5.1e-07  Score=70.91  Aligned_cols=67  Identities=7%  Similarity=0.135  Sum_probs=42.9

Q ss_pred             EEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-------------hhh-HhhhCCCCeeeCCCCCHHHHHHHHhh
Q 039127           77 NFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-------------QGV-ASIMGTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus        77 LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-------------~~v-~~~~~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                      ++++|+++..+...+..+...+...... .++++|..             ..+ ......-..+++.+++.++...++..
T Consensus       192 vl~IDEi~~l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~  270 (368)
T 3uk6_A          192 VLFIDEVHMLDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRI  270 (368)
T ss_dssp             EEEEESGGGSBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHH
T ss_pred             eEEEhhccccChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHH
Confidence            8999999977777777777776543333 34444431             111 11222223589999999999999986


Q ss_pred             CC
Q 039127          143 HP  144 (162)
Q Consensus       143 ~a  144 (162)
                      .+
T Consensus       271 ~~  272 (368)
T 3uk6_A          271 RC  272 (368)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

>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=98.57  E-value=1.6e-07  Score=72.97  Aligned_cols=96  Identities=17%  Similarity=0.102  Sum_probs=63.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC---Cce--------------------------------EEEEEeCCCCCCh--hh
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK---TVN--------------------------------FNFALDDTWKEKY--VD   90 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~---~~~--------------------------------~LlVlDdv~~~~~--~~   90 (162)
                      ...+.|+|.+|+|||+||+.+++..   ...                                .+|++|+++....  ..
T Consensus        37 ~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~iDEi~~l~~~~~~  116 (324)
T 1l8q_A           37 YNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMYKSVDLLLLDDVQFLSGKERT  116 (324)
T ss_dssp             CSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHHTCSEEEEECGGGGTTCHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHcCcHHHHHHHhcCCCEEEEcCcccccCChHH
Confidence            4567899999999999999998754   111                                4899999974332  23


Q ss_pred             HHHHHhhccc-cCCCcEEEEecCChh---------hHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           91 WTNMRDLFAA-VASRSKVIVTTRNQG---------VASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        91 ~~~l~~~l~~-~~~gs~iiiTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      .+.+...+.. ...+..+|+||.+..         +...+.....+++.+ +.++...++...+
T Consensus       117 ~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~  179 (324)
T 1l8q_A          117 QIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIKEKL  179 (324)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCeEEEEecCChHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHHHHH
Confidence            3444444432 234567888775431         222333334689999 9999999888764

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.54  E-value=1.2e-07  Score=77.00  Aligned_cols=97  Identities=14%  Similarity=0.023  Sum_probs=66.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC-----Cce---------------------------------EEEEEeCCCCCCh-
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK-----TVN---------------------------------FNFALDDTWKEKY-   88 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~-----~~~---------------------------------~LlVlDdv~~~~~-   88 (162)
                      ...+.|+|.+|+||||||+.+++..     ...                                 -+|++||++.... 
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~~  209 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIGK  209 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSSC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccccCC
Confidence            5578899999999999999987643     111                                 4899999974332 


Q ss_pred             -hhHHHHHhhccc-cCCCcEEEEecCCh---------hhHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           89 -VDWTNMRDLFAA-VASRSKVIVTTRNQ---------GVASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        89 -~~~~~l~~~l~~-~~~gs~iiiTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                       ...+.+...+.. ...|..||+||.+.         .+...+.....+.+.+++.++...++.+.+
T Consensus       210 ~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~  276 (440)
T 2z4s_A          210 TGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIARKML  276 (440)
T ss_dssp             HHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHH
Confidence             344455555432 24567888888763         223334333468899999999999987654

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.53  E-value=1.6e-07  Score=73.22  Aligned_cols=117  Identities=9%  Similarity=0.075  Sum_probs=78.4

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------ce----------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------VN----------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------~~----------------   75 (162)
                      ...+++|++.   .+..++....       ...+.++|.+|+|||++|+.+.+...      ..                
T Consensus        35 ~~~~i~g~~~~~~~l~~~l~~~~-------~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~  107 (353)
T 1sxj_D           35 NLDEVTAQDHAVTVLKKTLKSAN-------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVR  107 (353)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTT-------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHT
T ss_pred             CHHHhhCCHHHHHHHHHHHhcCC-------CCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccccchHHHH
Confidence            3467899988   4544444432       22378999999999999988865421      00                


Q ss_pred             ---------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh-hHhh-hCCCCee
Q 039127           76 ---------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG-VASI-MGTMPAY  126 (162)
Q Consensus        76 ---------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~~~-~~~~~~~  126 (162)
                                                 -++++|+++..+......+...+.......++|++|.... +... ......+
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~sR~~~i  187 (353)
T 1sxj_D          108 EKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKF  187 (353)
T ss_dssp             THHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             HHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhccCceE
Confidence                                       1899999986667777777777766555666777664432 2111 1112368


Q ss_pred             eCCCCCHHHHHHHHhhCC
Q 039127          127 ELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       127 ~l~~L~~~~~~~lf~~~a  144 (162)
                      ++.+++.++....+...+
T Consensus       188 ~~~~~~~~~~~~~l~~~~  205 (353)
T 1sxj_D          188 RFKALDASNAIDRLRFIS  205 (353)
T ss_dssp             ECCCCCHHHHHHHHHHHH
T ss_pred             EeCCCCHHHHHHHHHHHH
Confidence            899999999888887643

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.47  E-value=2.3e-07  Score=65.47  Aligned_cols=44  Identities=14%  Similarity=0.166  Sum_probs=33.1

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...++||+.   .+.+.+....       ...+.|+|.+|+|||+||+.+++..
T Consensus        21 ~~~~~g~~~~~~~l~~~l~~~~-------~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           21 LDPVIGRDTEIRRAIQILSRRT-------KNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             SCCCCSCHHHHHHHHHHHTSSS-------SCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             cchhhcchHHHHHHHHHHhCCC-------CCceEEECCCCCCHHHHHHHHHHHH
Confidence            467999998   5555554432       3456799999999999999887653

>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=98.42  E-value=2e-07  Score=66.37  Aligned_cols=67  Identities=21%  Similarity=0.255  Sum_probs=44.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC----ce--------------------------------EEEEEeCCCCCChhhH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT----VN--------------------------------FNFALDDTWKEKYVDW   91 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~----~~--------------------------------~LlVlDdv~~~~~~~~   91 (162)
                      ...+.|+|.+|+||||||+.+++...    ..                                -+||||+++....+.|
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDE~~~~~~~~~  117 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLMDEGKDTKFLKTVLNSPVLVLDDLGSERLSDW  117 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHHHHHHHHHHHTCCSHHHHHHHTCSEEEEETCSSSCCCHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHhcCchHHHHHHHhcCCCEEEEeCCCCCcCCHH
Confidence            45788999999999999998875542    11                                5899999984333333


Q ss_pred             --HHHHhhcccc-CCCcEEEEecCCh
Q 039127           92 --TNMRDLFAAV-ASRSKVIVTTRNQ  114 (162)
Q Consensus        92 --~~l~~~l~~~-~~gs~iiiTTR~~  114 (162)
                        ..+...+... ..|..+|+||...
T Consensus       118 ~~~~l~~ll~~~~~~~~~ii~tsn~~  143 (180)
T 3ec2_A          118 QRELISYIITYRYNNLKSTIITTNYS  143 (180)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEECCCC
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence              3343433322 3567788888653

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.40  E-value=3.4e-06  Score=65.86  Aligned_cols=68  Identities=7%  Similarity=0.029  Sum_probs=48.7

Q ss_pred             EEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHh-hhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           77 NFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVAS-IMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        77 LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ++++|++...+......+...+.....+..+|++|.+. .+.. .......+++.+++.++....+.+.+
T Consensus       137 vlilDE~~~L~~~~~~~L~~~le~~~~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~  206 (354)
T 1sxj_E          137 CVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVV  206 (354)
T ss_dssp             EEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             EEEEeCccccCHHHHHHHHHHHHhhcCCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHH
Confidence            89999999777777778887776655567777777553 2222 22233579999999999998887654

>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=98.38  E-value=1.1e-06  Score=66.11  Aligned_cols=111  Identities=14%  Similarity=0.079  Sum_probs=65.0

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      ..++|++.   .+.+.+..-.     .....+.|+|.+|+|||+||+.+++.....                        
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~-----~~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~~~~~~~l~g~   80 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLA-----PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGH   80 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHT-----TSCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCHHHHHHHHHCC
T ss_pred             ccceeCCHHHHHHHHHHHHHh-----CCCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCChhHHHHHhcCC
Confidence            45788877   4444333211     011356699999999999999998653210                        


Q ss_pred             ---------------------EEEEEeCCCCCChhhHHHHHhhcccc-----------CCCcEEEEecCChh--------
Q 039127           76 ---------------------FNFALDDTWKEKYVDWTNMRDLFAAV-----------ASRSKVIVTTRNQG--------  115 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iiiTTR~~~--------  115 (162)
                                           -+++||+++.........|...+...           ....++|.||....        
T Consensus        81 ~~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~~iI~atn~~~~~~~~~~~  160 (265)
T 2bjv_A           81 EAGAFTGAQKRHPGRFERADGGTLFLDELATAPMMVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVNEGT  160 (265)
T ss_dssp             C---------CCCCHHHHTTTSEEEEESGGGSCHHHHHHHHHHHHHCEECCCCC--CEECCCEEEEEESSCHHHHHHHTS
T ss_pred             cccccccccccccchhhhcCCcEEEEechHhcCHHHHHHHHHHHHhCCeecCCCcccccCCeEEEEecCcCHHHHHHcCC
Confidence                                 27899999876677777776666532           12456777776521        


Q ss_pred             ----hHhhhCCCCeeeCCCCCH--HHHHHH
Q 039127          116 ----VASIMGTMPAYELKKLVN--DNCLLI  139 (162)
Q Consensus       116 ----v~~~~~~~~~~~l~~L~~--~~~~~l  139 (162)
                          +...+.. ..+++.+|..  ++...+
T Consensus       161 ~~~~L~~Rl~~-~~i~lp~L~~R~~di~~l  189 (265)
T 2bjv_A          161 FRADLLDALAF-DVVQLPPLRERESDIMLM  189 (265)
T ss_dssp             SCHHHHHHHCS-EEEECCCGGGCHHHHHHH
T ss_pred             ccHHHHHhhcC-cEEeCCChhhhhHHHHHH
Confidence                1122222 2478889875  444433

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.36  E-value=2.3e-06  Score=66.86  Aligned_cols=115  Identities=10%  Similarity=0.129  Sum_probs=75.2

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC-------------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT-------------------------   73 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-------------------------   73 (162)
                      ..+++|.+.   .+...+..+.       .+-+.++|..|+||||+|+.+.+...                         
T Consensus        24 ~~~~~g~~~~~~~L~~~i~~g~-------~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~~~~~ir~~   96 (340)
T 1sxj_C           24 LDEVYGQNEVITTVRKFVDEGK-------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQ   96 (340)
T ss_dssp             GGGCCSCHHHHHHHHHHHHTTC-------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTH
T ss_pred             HHHhcCcHHHHHHHHHHHhcCC-------CceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccccHHHHHHH
Confidence            467888877   3333333322       22378999999999999988765310                         


Q ss_pred             -------------ceEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChh-hHh-hhCCCCeeeCCCCCHHHHHH
Q 039127           74 -------------VNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQG-VAS-IMGTMPAYELKKLVNDNCLL  138 (162)
Q Consensus        74 -------------~~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~-v~~-~~~~~~~~~l~~L~~~~~~~  138 (162)
                                   ..-++|+|+++..+....+.|...+........+|++|.... +.. .......+++.+++.++...
T Consensus        97 i~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~~~~~~~~l~~~~~~~  176 (340)
T 1sxj_C           97 IKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIER  176 (340)
T ss_dssp             HHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHH
T ss_pred             HHHHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhceeEeccCCCHHHHHH
Confidence                         015789999987677777778777765555666776665432 211 12222368899999888777


Q ss_pred             HHhhC
Q 039127          139 IFSQH  143 (162)
Q Consensus       139 lf~~~  143 (162)
                      .+...
T Consensus       177 ~l~~~  181 (340)
T 1sxj_C          177 RIANV  181 (340)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77643

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.36  E-value=2.5e-07  Score=63.76  Aligned_cols=63  Identities=17%  Similarity=0.049  Sum_probs=46.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC----ce------------------EEEEEeCCCCCChhhHHHHHhhcccc-CCCcE
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT----VN------------------FNFALDDTWKEKYVDWTNMRDLFAAV-ASRSK  106 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~----~~------------------~LlVlDdv~~~~~~~~~~l~~~l~~~-~~gs~  106 (162)
                      -+.|+|.+|+|||++|+.+++...    ..                  -.++||+++.........+...+... ..+.+
T Consensus        29 ~vll~G~~GtGKt~lA~~i~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~l~lDei~~l~~~~q~~Ll~~l~~~~~~~~~  108 (143)
T 3co5_A           29 PVFLTGEAGSPFETVARYFHKNGTPWVSPARVEYLIDMPMELLQKAEGGVLYVGDIAQYSRNIQTGITFIIGKAERCRVR  108 (143)
T ss_dssp             CEEEEEETTCCHHHHHGGGCCTTSCEECCSSTTHHHHCHHHHHHHTTTSEEEEEECTTCCHHHHHHHHHHHHHHTTTTCE
T ss_pred             cEEEECCCCccHHHHHHHHHHhCCCeEEechhhCChHhhhhHHHhCCCCeEEEeChHHCCHHHHHHHHHHHHhCCCCCEE
Confidence            366999999999999999886543    00                  47899999977777777777766654 23457


Q ss_pred             EEEecC
Q 039127          107 VIVTTR  112 (162)
Q Consensus       107 iiiTTR  112 (162)
                      +|.||.
T Consensus       109 iI~~tn  114 (143)
T 3co5_A          109 VIASCS  114 (143)
T ss_dssp             EEEEEE
T ss_pred             EEEecC
Confidence            777774

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.33  E-value=2.2e-06  Score=66.31  Aligned_cols=112  Identities=13%  Similarity=0.061  Sum_probs=67.6

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      ..++|++.   ++.+.+..-.     .....+.|+|.+|+|||++|+.+++.....                        
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a-----~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~~lfg~   76 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVA-----PSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLESELFGH   76 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHC-----STTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHHHHTCC
T ss_pred             CCcEECCHHHHHHHHHHHHHh-----CCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHHHhcCc
Confidence            35778877   4444433211     012245699999999999999998732100                        


Q ss_pred             ---------------------EEEEEeCCCCCChhhHHHHHhhccccC-----------CCcEEEEecCChh--------
Q 039127           76 ---------------------FNFALDDTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRNQG--------  115 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~~~--------  115 (162)
                                           -.|+||+++.........|...+....           ...+||.||....        
T Consensus        77 ~~g~~tg~~~~~~g~~~~a~~g~L~LDEi~~l~~~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~~l~~~v~~g~  156 (304)
T 1ojl_A           77 EKGAFTGADKRREGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAEEVSAGR  156 (304)
T ss_dssp             CSSCCC---CCCCCHHHHHTTSEEEEESCTTCCHHHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESSCHHHHHHHTS
T ss_pred             cccccCchhhhhcCHHHhcCCCEEEEeccccCCHHHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCccHHHHHHhCC
Confidence                                 378999999777777777777665421           2356777776531        


Q ss_pred             ----hHhhhCCCCeeeCCCCC--HHHHHHHH
Q 039127          116 ----VASIMGTMPAYELKKLV--NDNCLLIF  140 (162)
Q Consensus       116 ----v~~~~~~~~~~~l~~L~--~~~~~~lf  140 (162)
                          +...+. .-.+++.+|.  .+|...++
T Consensus       157 fr~~L~~Rl~-~~~i~lPpL~eR~edi~~l~  186 (304)
T 1ojl_A          157 FRQDLYYRLN-VVAIEMPSLRQRREDIPLLA  186 (304)
T ss_dssp             SCHHHHHHHS-SEEEECCCSGGGGGGHHHHH
T ss_pred             cHHHHHhhcC-eeEEeccCHHHhHhhHHHHH
Confidence                111222 2247788988  45544444

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=98.33  E-value=4.9e-06  Score=65.63  Aligned_cols=96  Identities=14%  Similarity=-0.059  Sum_probs=59.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCCCh-------
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKEKY-------   88 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~~~-------   88 (162)
                      +-+.|+|.+|+|||+||+.+++.....                                 .+|+||+++....       
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~  164 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGES  164 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------C
T ss_pred             ceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcc
Confidence            457799999999999999998765432                                 6899999984221       


Q ss_pred             ----hhHHHHHhhccc---cCCCcEEEEecCChh-hHh-hh-CCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           89 ----VDWTNMRDLFAA---VASRSKVIVTTRNQG-VAS-IM-GTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        89 ----~~~~~l~~~l~~---~~~gs~iiiTTR~~~-v~~-~~-~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                          .....+...+..   ...+..||.||.... +.. .. .-...+.+...+.++...+|..+.
T Consensus       165 ~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l  230 (355)
T 2qp9_X          165 EASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINV  230 (355)
T ss_dssp             THHHHHHHHHHHHHHHCC---CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccccCCCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHH
Confidence                112333333332   123445555665442 111 11 223467888899999888887654

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=98.32  E-value=4.2e-06  Score=69.17  Aligned_cols=123  Identities=11%  Similarity=0.074  Sum_probs=74.0

Q ss_pred             CCCceeeehH---HHHHHhhcCC----------CCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc-------------
Q 039127           21 SVKLWLGREE---GTVELVLKDD----------SETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV-------------   74 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~----------~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-------------   74 (162)
                      ...+++|++.   .+.+++....          ........+.+.|+|.+|+|||++|+.+++....             
T Consensus        37 ~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~~~~~  116 (516)
T 1sxj_A           37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSK  116 (516)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCH
T ss_pred             CHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCCcchH
Confidence            3468999998   6666654310          0000113468889999999999999998754321             


Q ss_pred             --------------------------------eEEEEEeCCCCCCh---hhHHHHHhhccccCCCcEEEEecCCh--hhH
Q 039127           75 --------------------------------NFNFALDDTWKEKY---VDWTNMRDLFAAVASRSKVIVTTRNQ--GVA  117 (162)
Q Consensus        75 --------------------------------~~LlVlDdv~~~~~---~~~~~l~~~l~~~~~gs~iiiTTR~~--~v~  117 (162)
                                                      ..++++|+++....   ..+..+...+.. ....-|++++...  .+.
T Consensus       117 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~-~~~~iIli~~~~~~~~l~  195 (516)
T 1sxj_A          117 TLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK-TSTPLILICNERNLPKMR  195 (516)
T ss_dssp             HHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH-CSSCEEEEESCTTSSTTG
T ss_pred             HHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh-cCCCEEEEEcCCCCccch
Confidence                                            15889999975322   223555555443 2223344444322  222


Q ss_pred             hhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127          118 SIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       118 ~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ........+.+.+++.++...++...+
T Consensus       196 ~l~~r~~~i~f~~~~~~~~~~~L~~i~  222 (516)
T 1sxj_A          196 PFDRVCLDIQFRRPDANSIKSRLMTIA  222 (516)
T ss_dssp             GGTTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhHhceEEEEeCCCCHHHHHHHHHHHH
Confidence            222223368999999999888886644

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.31  E-value=6.2e-06  Score=63.13  Aligned_cols=121  Identities=12%  Similarity=0.124  Sum_probs=73.6

Q ss_pred             CceeeehH---HHHHHhhcCCC--CCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc-----------------------
Q 039127           23 KLWLGREE---GTVELVLKDDS--ETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV-----------------------   74 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~-----------------------   74 (162)
                      ..++|.+.   .+...+.....  .........+.++|.+|+|||++|+.+++....                       
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~~l~   96 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLI   96 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHHHHH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHHHhc
Confidence            45788888   33333322100  001123457889999999999999988654210                       


Q ss_pred             ------------e-----------EEEEEeCCCCCChhhHHHHHhhccccC-----------CCcEEEEecCCh------
Q 039127           75 ------------N-----------FNFALDDTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRNQ------  114 (162)
Q Consensus        75 ------------~-----------~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~~------  114 (162)
                                  .           -+++||+++..+...+..|...+....           ....+|.||...      
T Consensus        97 g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~iiI~ttn~~~~~i~~  176 (311)
T 4fcw_A           97 GAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQMLDDGRLTDSHGRTVDFRNTVIIMTSNLGSPLILE  176 (311)
T ss_dssp             CCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEECTTSCEEECTTEEEEEEESTTHHHHHT
T ss_pred             CCCCccccccccchHHHHHHhCCCeEEEEeChhhcCHHHHHHHHHHHhcCEEEcCCCCEEECCCcEEEEecccCHHHHHh
Confidence                        0           489999998777777777777665321           133366676651      


Q ss_pred             ---------hh--------H-----hhhCCC-CeeeCCCCCHHHHHHHHhhC
Q 039127          115 ---------GV--------A-----SIMGTM-PAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       115 ---------~v--------~-----~~~~~~-~~~~l~~L~~~~~~~lf~~~  143 (162)
                               .+        .     .....- ..+.+.+++.++...++...
T Consensus       177 ~~~~~~~~~~l~~~~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~  228 (311)
T 4fcw_A          177 GLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQ  228 (311)
T ss_dssp             TTTSCCCSSTHHHHTHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHH
T ss_pred             hhcccccHHHHHHHHHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHH
Confidence                     11        0     111222 35778889988888877653

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.31  E-value=3.7e-07  Score=63.60  Aligned_cols=84  Identities=13%  Similarity=0.054  Sum_probs=51.4

Q ss_pred             CceeeehHHHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC---C--ce----------------EEEEEe
Q 039127           23 KLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK---T--VN----------------FNFALD   81 (162)
Q Consensus        23 ~~~vGr~~~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~---~--~~----------------~LlVlD   81 (162)
                      ..++|.+.+.+..|..-.       -..+.|+|..|+|||||++.+++..   .  ..                -+++||
T Consensus        18 ~f~~g~n~~~~~~l~~~~-------g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~lLilD   90 (149)
T 2kjq_A           18 KFLGTENAELVYVLRHKH-------GQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLTDAAFEAEYLAVD   90 (149)
T ss_dssp             CCCSCCTHHHHHHCCCCC-------CSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCCGGGGGCSEEEEE
T ss_pred             hcCcCccHHHHHHHHhcC-------CCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHHHHHhCCCEEEEe
Confidence            444566555555443322       3478899999999999999987643   1  11                388999


Q ss_pred             CCCCCChhhHHHHHhhccc-cCCCc-EEEEecCC
Q 039127           82 DTWKEKYVDWTNMRDLFAA-VASRS-KVIVTTRN  113 (162)
Q Consensus        82 dv~~~~~~~~~~l~~~l~~-~~~gs-~iiiTTR~  113 (162)
                      |+........+.+...+.. ...|. .+|+||+.
T Consensus        91 E~~~~~~~~~~~l~~li~~~~~~g~~~iiits~~  124 (149)
T 2kjq_A           91 QVEKLGNEEQALLFSIFNRFRNSGKGFLLLGSEY  124 (149)
T ss_dssp             STTCCCSHHHHHHHHHHHHHHHHTCCEEEEEESS
T ss_pred             CccccChHHHHHHHHHHHHHHHcCCcEEEEECCC
Confidence            9985433333444444332 12234 48888874

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.28  E-value=2.3e-05  Score=59.70  Aligned_cols=121  Identities=13%  Similarity=0.034  Sum_probs=67.4

Q ss_pred             CCCceeeehH---HHHHHhhcC---CC--CCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------
Q 039127           21 SVKLWLGREE---GTVELVLKD---DS--ETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~---~~--~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------   75 (162)
                      .-.+++|.+.   .+.+.+...   ..  .........+.|+|.+|+|||+||+.+++.....                 
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~~~~~~   98 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDG   98 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSSSCSCH
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhcccchH
Confidence            3468999988   444333210   00  0001124577899999999999999998765432                 


Q ss_pred             ----------------EEEEEeCCCCCC-----------hhhHHHHHhhccc---c--CCCcEEEEecCChh-----hHh
Q 039127           76 ----------------FNFALDDTWKEK-----------YVDWTNMRDLFAA---V--ASRSKVIVTTRNQG-----VAS  118 (162)
Q Consensus        76 ----------------~LlVlDdv~~~~-----------~~~~~~l~~~l~~---~--~~gs~iiiTTR~~~-----v~~  118 (162)
                                      .++++|+++...           ......+...+..   .  ..+..||.||....     +..
T Consensus        99 ~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~l~~~l~~  178 (297)
T 3b9p_A           99 EKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR  178 (297)
T ss_dssp             HHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGGBCHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhhCCHHHHh
Confidence                            689999986321           1112223322221   1  12345666666532     122


Q ss_pred             hhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          119 IMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       119 ~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      .+  ...+.+...+.++...++...
T Consensus       179 R~--~~~i~~~~p~~~~r~~il~~~  201 (297)
T 3b9p_A          179 RF--TKRVYVSLPDEQTRELLLNRL  201 (297)
T ss_dssp             HC--CEEEECCCCCHHHHHHHHHHH
T ss_pred             hC--CeEEEeCCcCHHHHHHHHHHH
Confidence            11  235777777888877777654

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=98.27  E-value=1e-05  Score=62.81  Aligned_cols=123  Identities=14%  Similarity=-0.086  Sum_probs=72.4

Q ss_pred             CCceeeehH---HHHHHhh---cCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------
Q 039127           22 VKLWLGREE---GTVELVL---KDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~---~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------   75 (162)
                      -.+++|.+.   .+.+.+.   .....  ......+-+.++|.+|+|||+||+.+++.....                  
T Consensus        17 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~~   96 (322)
T 3eie_A           17 WEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESE   96 (322)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHHTTTGGGHH
T ss_pred             HHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHhhcccchHH
Confidence            367899888   4444331   10000  011234567899999999999999998765433                  


Q ss_pred             ---------------EEEEEeCCCCCCh-----------hhHHHHHhhccc---cCCCcEEEEecCChhhH-hhh--CCC
Q 039127           76 ---------------FNFALDDTWKEKY-----------VDWTNMRDLFAA---VASRSKVIVTTRNQGVA-SIM--GTM  123 (162)
Q Consensus        76 ---------------~LlVlDdv~~~~~-----------~~~~~l~~~l~~---~~~gs~iiiTTR~~~v~-~~~--~~~  123 (162)
                                     .+|+||+++....           .....+...+..   ...+..||.||...... ..+  .-.
T Consensus        97 ~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~~~~ld~al~~Rf~  176 (322)
T 3eie_A           97 KLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRRRFE  176 (322)
T ss_dssp             HHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESCGGGSCHHHHHHCC
T ss_pred             HHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCCceEEEEecCChhhCCHHHHcccC
Confidence                           6899999973211           113344444332   23344566566553221 111  112


Q ss_pred             CeeeCCCCCHHHHHHHHhhCC
Q 039127          124 PAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       124 ~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ..+.+...+.++-.++|..++
T Consensus       177 ~~i~~~~p~~~~r~~il~~~~  197 (322)
T 3eie_A          177 RRIYIPLPDLAARTTMFEINV  197 (322)
T ss_dssp             EEEECCCCCHHHHHHHHHHHH
T ss_pred             eEEEeCCCCHHHHHHHHHHHh
Confidence            357888899999999988764

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=98.24  E-value=3.2e-06  Score=63.92  Aligned_cols=97  Identities=13%  Similarity=0.125  Sum_probs=58.4

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------------------EEEEEeCCCCC-----
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------------------FNFALDDTWKE-----   86 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------------------~LlVlDdv~~~-----   86 (162)
                      .....+.|+|.+|+|||+||+.+++.....                                  .+|+||+++..     
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~  141 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVP  141 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBT
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCC
Confidence            346778899999999999999987643211                                  68999998621     


Q ss_pred             -----ChhhHHHHHhhccc---cCCCcEEEEecCChhhHhh---hCC-CCeeeCCCCCH-HHHHHHHhh
Q 039127           87 -----KYVDWTNMRDLFAA---VASRSKVIVTTRNQGVASI---MGT-MPAYELKKLVN-DNCLLIFSQ  142 (162)
Q Consensus        87 -----~~~~~~~l~~~l~~---~~~gs~iiiTTR~~~v~~~---~~~-~~~~~l~~L~~-~~~~~lf~~  142 (162)
                           .......|...+..   ......||.||........   .+. ...+++.+++. ++...++..
T Consensus       142 ~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~  210 (272)
T 1d2n_A          142 IGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALEL  210 (272)
T ss_dssp             TTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHHhcCccCCCCCEEEEEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHh
Confidence                 12223334333332   1222346667766643322   122 23688988887 666666654

>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=98.24  E-value=4.4e-06  Score=63.73  Aligned_cols=95  Identities=18%  Similarity=0.119  Sum_probs=58.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc----------------------------------------eEEEEEeCCCCCCh
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV----------------------------------------NFNFALDDTWKEKY   88 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~----------------------------------------~~LlVlDdv~~~~~   88 (162)
                      ..+.++|.+|+|||++|+.+++....                                        ..+++||+++....
T Consensus        51 ~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~  130 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICK  130 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSC
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCccHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCc
Confidence            45679999999999999998653211                                        16899999985432


Q ss_pred             hh------------HHHHHhhcccc----------CCCcEEEEecC----Ch-hhH-hhhCCC-CeeeCCCCCHHHHHHH
Q 039127           89 VD------------WTNMRDLFAAV----------ASRSKVIVTTR----NQ-GVA-SIMGTM-PAYELKKLVNDNCLLI  139 (162)
Q Consensus        89 ~~------------~~~l~~~l~~~----------~~gs~iiiTTR----~~-~v~-~~~~~~-~~~~l~~L~~~~~~~l  139 (162)
                      ..            +..|...+...          ..+..+|.|+.    .. .+. .....- ..+++.+++.++...+
T Consensus       131 ~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~l~~~l~~R~~~~i~~~~~~~~~~~~i  210 (310)
T 1ofh_A          131 KGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERI  210 (310)
T ss_dssp             CSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHH
T ss_pred             cccccccchhHHHHHHHHHHHhcCCeEecccccccCCcEEEEEcCCcccCCcccCCHHHHhhCCceEEcCCcCHHHHHHH
Confidence            22            44555444421          12344555531    21 111 111111 3589999999999999


Q ss_pred             HhhC
Q 039127          140 FSQH  143 (162)
Q Consensus       140 f~~~  143 (162)
                      +.+.
T Consensus       211 l~~~  214 (310)
T 1ofh_A          211 LTEP  214 (310)
T ss_dssp             HHSS
T ss_pred             HHhh
Confidence            8853

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=98.23  E-value=7.4e-06  Score=63.54  Aligned_cols=114  Identities=11%  Similarity=0.059  Sum_probs=73.0

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------   75 (162)
                      ...++|++.   .+...+....         -+.++|.+|+|||+||+.+.+.....                       
T Consensus        26 ~~~i~g~~~~~~~l~~~l~~~~---------~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~g~~~~~~   96 (331)
T 2r44_A           26 GKVVVGQKYMINRLLIGICTGG---------HILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLIGTMIYNQ   96 (331)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHTC---------CEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHHEEEEEET
T ss_pred             ccceeCcHHHHHHHHHHHHcCC---------eEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcCCceeecC
Confidence            367899988   4444444433         46799999999999999987632211                       


Q ss_pred             --------------EEEEEeCCCCCChhhHHHHHhhcccc-----------CCCcEEEEecCChh------h-HhhhCCC
Q 039127           76 --------------FNFALDDTWKEKYVDWTNMRDLFAAV-----------ASRSKVIVTTRNQG------V-ASIMGTM  123 (162)
Q Consensus        76 --------------~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iiiTTR~~~------v-~~~~~~~  123 (162)
                                    .++++|+++..+......+...+...           .....++.|+....      + ......-
T Consensus        97 ~~~~~~~~~g~l~~~vl~iDEi~~~~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~viat~np~~~~~~~~l~~~l~~Rf  176 (331)
T 2r44_A           97 HKGNFEVKKGPVFSNFILADEVNRSPAKVQSALLECMQEKQVTIGDTTYPLDNPFLVLATQNPVEQEGTYPLPEAQVDRF  176 (331)
T ss_dssp             TTTEEEEEECTTCSSEEEEETGGGSCHHHHHHHHHHHHHSEEEETTEEEECCSSCEEEEEECTTCCSCCCCCCHHHHTTS
T ss_pred             CCCceEeccCcccccEEEEEccccCCHHHHHHHHHHHhcCceeeCCEEEECCCCEEEEEecCCCcccCcccCCHHHHhhe
Confidence                          28899999876676666666555421           22344554554221      1 1122222


Q ss_pred             C-eeeCCCCCHHHHHHHHhhCC
Q 039127          124 P-AYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       124 ~-~~~l~~L~~~~~~~lf~~~a  144 (162)
                      . .+.+.+.+.++-.+++.+.+
T Consensus       177 ~~~i~i~~p~~~~~~~il~~~~  198 (331)
T 2r44_A          177 MMKIHLTYLDKESELEVMRRVS  198 (331)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHH
T ss_pred             eEEEEcCCCCHHHHHHHHHhcc
Confidence            2 48899999999999887754

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=98.23  E-value=1.2e-05  Score=61.92  Aligned_cols=97  Identities=12%  Similarity=0.026  Sum_probs=61.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCCC-------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKEK-------   87 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~~-------   87 (162)
                      .+.+.|+|.+|+|||+||+.+++.....                                 .++++|+++...       
T Consensus        49 ~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~  128 (301)
T 3cf0_A           49 SKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNI  128 (301)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHHHHHHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTT
T ss_pred             CceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHHhhhcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCc
Confidence            4567899999999999999998765432                                 699999997210       


Q ss_pred             -------hhhHHHHHhhccc--cCCCcEEEEecCChhhH-h-hhC---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           88 -------YVDWTNMRDLFAA--VASRSKVIVTTRNQGVA-S-IMG---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        88 -------~~~~~~l~~~l~~--~~~gs~iiiTTR~~~v~-~-~~~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                             ......+...+..  ...+..||.||...... . ...   -...+.+...+.++-.++|+...
T Consensus       129 ~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l  199 (301)
T 3cf0_A          129 GDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL  199 (301)
T ss_dssp             CCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHHHHhhcccCCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHH
Confidence                   1113344444432  12344666677554321 1 122   12368899999998888887653

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.17  E-value=9.8e-06  Score=69.82  Aligned_cols=120  Identities=14%  Similarity=0.075  Sum_probs=74.1

Q ss_pred             CceeeehH---HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCc---e-------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV---N-------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~---~-------------------   75 (162)
                      ..++|.+.   .+.+.+......  ........+.++|.+|+|||++|+.+++....   .                   
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~~~~~  570 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTSGGQ  570 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCCC---
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccccccch
Confidence            45788887   343433321100  11123346889999999999999998765310   0                   


Q ss_pred             ----------EEEEEeCCCCCChhhHHHHHhhcccc-----------CCCcEEEEecCCh-----hh----H-----hhh
Q 039127           76 ----------FNFALDDTWKEKYVDWTNMRDLFAAV-----------ASRSKVIVTTRNQ-----GV----A-----SIM  120 (162)
Q Consensus        76 ----------~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~gs~iiiTTR~~-----~v----~-----~~~  120 (162)
                                .+++||+++....+.+..|...+..+           .....||.||...     .+    .     ...
T Consensus       571 l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~~~~~~~~~~~~~~~f~p~l~  650 (758)
T 3pxi_A          571 LTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVGASEKDKVMGELKRAFRPEFI  650 (758)
T ss_dssp             CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSSTTCCHHHHHHHHHHSCHHHH
T ss_pred             hhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCChhhHHHHHHHHHhhCCHHHH
Confidence                      47999999977788888888777642           1245788888631     11    1     111


Q ss_pred             CC-CCeeeCCCCCHHHHHHHHhh
Q 039127          121 GT-MPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       121 ~~-~~~~~l~~L~~~~~~~lf~~  142 (162)
                      .. ...+.+.+++.++...++..
T Consensus       651 ~Rl~~~i~~~~l~~~~~~~i~~~  673 (758)
T 3pxi_A          651 NRIDEIIVFHSLEKKHLTEIVSL  673 (758)
T ss_dssp             TTSSEEEECC--CHHHHHHHHHH
T ss_pred             hhCCeEEecCCCCHHHHHHHHHH
Confidence            22 23788999999988877754

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=98.16  E-value=1.7e-05  Score=61.91  Aligned_cols=97  Identities=8%  Similarity=0.015  Sum_probs=69.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC--------------------------------------ce--------------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT--------------------------------------VN--------------   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~--------------------------------------~~--------------   75 (162)
                      ...+.++|..|+|||++|+.+.+...                                      ..              
T Consensus        24 ~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~~~~i~~ir~l~~~~~~~  103 (334)
T 1a5t_A           24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEH  103 (334)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSC
T ss_pred             ceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccccCCCCCHHHHHHHHHHHhhc
Confidence            45788999999999999988753210                                      00              


Q ss_pred             ------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHh-hhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           76 ------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVAS-IMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        76 ------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~-~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                            -++|+|+++..+....+.|...+........+|++|.+. .+.. .......+++.+++.++....+....
T Consensus       104 ~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~SRc~~~~~~~~~~~~~~~~L~~~~  180 (334)
T 1a5t_A          104 ARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSREV  180 (334)
T ss_dssp             CTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHC
T ss_pred             cccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhhcceeeeCCCCCHHHHHHHHHHhc
Confidence                  688999999777777888888887655566666666554 2332 22333479999999999988887764

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.16  E-value=4.8e-06  Score=72.72  Aligned_cols=112  Identities=13%  Similarity=0.126  Sum_probs=64.8

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC----------Cce-------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK----------TVN-------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~----------~~~-------------   75 (162)
                      ...++||+.   .+++.|....       ..-+.++|.+|+|||+||+.+++..          ...             
T Consensus       169 ld~viGr~~~i~~l~~~l~~~~-------~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~~g~  241 (854)
T 1qvr_A          169 LDPVIGRDEEIRRVIQILLRRT-------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGA  241 (854)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSS-------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------
T ss_pred             CcccCCcHHHHHHHHHHHhcCC-------CCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhhccC
Confidence            356899998   5666655433       2345799999999999999887653          111             


Q ss_pred             -----------------------EEEEEeCCCCCC--------hhhHHHHHhhccccCCCcEEEEecCChhhH------h
Q 039127           76 -----------------------FNFALDDTWKEK--------YVDWTNMRDLFAAVASRSKVIVTTRNQGVA------S  118 (162)
Q Consensus        76 -----------------------~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~------~  118 (162)
                                             .+|++|+++...        .+....+...+.. . .-.+|.+|......      .
T Consensus       242 ~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~-~-~i~~I~at~~~~~~~~~~d~a  319 (854)
T 1qvr_A          242 KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR-G-ELRLIGATTLDEYREIEKDPA  319 (854)
T ss_dssp             ----CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT-T-CCCEEEEECHHHHHHHTTCTT
T ss_pred             ccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC-C-CeEEEEecCchHHhhhccCHH
Confidence                                   588999997421        1112224333332 2 23455555433221      1


Q ss_pred             hhCCCCeeeCCCCCHHHHHHHHhh
Q 039127          119 IMGTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       119 ~~~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                      ....-..+.+.+++.++...++..
T Consensus       320 L~rRf~~i~l~~p~~~e~~~iL~~  343 (854)
T 1qvr_A          320 LERRFQPVYVDEPTVEETISILRG  343 (854)
T ss_dssp             TCSCCCCEEECCCCHHHHHHHHHH
T ss_pred             HHhCCceEEeCCCCHHHHHHHHHh
Confidence            112223588999999999988863

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=98.16  E-value=1.5e-05  Score=62.77  Aligned_cols=122  Identities=13%  Similarity=-0.014  Sum_probs=69.0

Q ss_pred             CCceeeehH---HHHHHhhc---CCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------
Q 039127           22 VKLWLGREE---GTVELVLK---DDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~---~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------   75 (162)
                      -.+++|.+.   .+.+.+..   ....  ......+.+.|+|.+|+|||+||+.+++.....                  
T Consensus        83 ~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~~~  162 (357)
T 3d8b_A           83 WEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGE  162 (357)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSSTTHHH
T ss_pred             HHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccccchHH
Confidence            367899988   34433321   1100  001234567899999999999999998765432                  


Q ss_pred             ---------------EEEEEeCCCCC-----------ChhhHHHHHhhcccc----CCCcEEEEecCCh-hhHhh-hCC-
Q 039127           76 ---------------FNFALDDTWKE-----------KYVDWTNMRDLFAAV----ASRSKVIVTTRNQ-GVASI-MGT-  122 (162)
Q Consensus        76 ---------------~LlVlDdv~~~-----------~~~~~~~l~~~l~~~----~~gs~iiiTTR~~-~v~~~-~~~-  122 (162)
                                     .+|+||+++..           ....+..+...+...    ..+..||.||... .+... ... 
T Consensus       163 ~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~Rf  242 (357)
T 3d8b_A          163 KMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRRL  242 (357)
T ss_dssp             HHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHTTC
T ss_pred             HHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHhhC
Confidence                           68999998521           011233344433321    2233455566443 22111 122 


Q ss_pred             CCeeeCCCCCHHHHHHHHhhC
Q 039127          123 MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       123 ~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ...+.+...+.++...++...
T Consensus       243 ~~~i~i~~p~~~~r~~il~~~  263 (357)
T 3d8b_A          243 VKRLYIPLPEASARKQIVINL  263 (357)
T ss_dssp             CEEEECCCCCHHHHHHHHHHH
T ss_pred             ceEEEeCCcCHHHHHHHHHHH
Confidence            235788888888888887654

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=98.15  E-value=4e-05  Score=62.20  Aligned_cols=123  Identities=16%  Similarity=-0.021  Sum_probs=71.1

Q ss_pred             CCceeeehH---HHHHHhh---c-CCCC-CCCCCeEEEEEEcCCCcchHHHHHHHHccC-Cce-----------------
Q 039127           22 VKLWLGREE---GTVELVL---K-DDSE-TIDGGFFVIPIIGMGGSGNTTPALPVYNDK-TVN-----------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~---~-~~~~-~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~-~~~-----------------   75 (162)
                      -.+++|.+.   .+.+.+.   . ..-- ......+-+.++|++|+|||+||+.+++.. ...                 
T Consensus       133 ~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~l~~~~~g~~  212 (444)
T 2zan_A          133 WSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGES  212 (444)
T ss_dssp             GGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC---------C
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHHHHhhhcchH
Confidence            367889888   4443331   1 1100 001234677899999999999999998765 211                 


Q ss_pred             ----------------EEEEEeCCCCCC-------h----hhHHHHHhhccc---cCCCcEEEEecCChhh-Hh-hhCC-
Q 039127           76 ----------------FNFALDDTWKEK-------Y----VDWTNMRDLFAA---VASRSKVIVTTRNQGV-AS-IMGT-  122 (162)
Q Consensus        76 ----------------~LlVlDdv~~~~-------~----~~~~~l~~~l~~---~~~gs~iiiTTR~~~v-~~-~~~~-  122 (162)
                                      .+|+||+++...       .    .....+...+..   ...+..||.||..... .. .... 
T Consensus       213 ~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn~~~~ld~al~rRf  292 (444)
T 2zan_A          213 EKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRF  292 (444)
T ss_dssp             CCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEESCGGGSCHHHHTTC
T ss_pred             HHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCCEEEEecCCCccccCHHHHhhc
Confidence                            689999998431       0    122333333332   1234456666655422 11 1222 


Q ss_pred             CCeeeCCCCCHHHHHHHHhhCC
Q 039127          123 MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       123 ~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ...+.+...+.++...+|..+.
T Consensus       293 ~~~i~i~~P~~~~r~~il~~~l  314 (444)
T 2zan_A          293 EKRIYIPLPEAHARAAMFRLHL  314 (444)
T ss_dssp             CEEEECCCCCHHHHHHHHHHHH
T ss_pred             ceEEEeCCcCHHHHHHHHHHHH
Confidence            2367788888888888887654

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.14  E-value=2.5e-05  Score=62.11  Aligned_cols=123  Identities=15%  Similarity=0.093  Sum_probs=69.5

Q ss_pred             CCceeeehH---HHHHHhhc----CCC-CCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------
Q 039127           22 VKLWLGREE---GTVELVLK----DDS-ETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~----~~~-~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------   75 (162)
                      -.+++|++.   .+.+.+..    ... .......+-+.|+|.+|+|||+||+.+++.....                  
T Consensus       114 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~~~~g~~~  193 (389)
T 3vfd_A          114 FDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGE  193 (389)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC-------CH
T ss_pred             hHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhccccchHH
Confidence            357899988   44444311    000 0001123567899999999999999998765433                  


Q ss_pred             ---------------EEEEEeCCCCC-----------ChhhHHHHHhhcccc----CCCcEEEEecCChh-hHh-hhCCC
Q 039127           76 ---------------FNFALDDTWKE-----------KYVDWTNMRDLFAAV----ASRSKVIVTTRNQG-VAS-IMGTM  123 (162)
Q Consensus        76 ---------------~LlVlDdv~~~-----------~~~~~~~l~~~l~~~----~~gs~iiiTTR~~~-v~~-~~~~~  123 (162)
                                     .+|+||+++..           .......+...+...    .....||.||.... +.. ....-
T Consensus       194 ~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~  273 (389)
T 3vfd_A          194 KLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRF  273 (389)
T ss_dssp             HHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CEEEEEEESCGGGCCHHHHTTC
T ss_pred             HHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCEEEEEecCCchhcCHHHHcCc
Confidence                           58999999632           111222333333211    12234555554432 211 12222


Q ss_pred             -CeeeCCCCCHHHHHHHHhhCC
Q 039127          124 -PAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       124 -~~~~l~~L~~~~~~~lf~~~a  144 (162)
                       ..+.+...+.++...++...+
T Consensus       274 ~~~i~i~~p~~~~r~~il~~~~  295 (389)
T 3vfd_A          274 IKRVYVSLPNEETRLLLLKNLL  295 (389)
T ss_dssp             CEEEECCCCCHHHHHHHHHHHH
T ss_pred             ceEEEcCCcCHHHHHHHHHHHH
Confidence             357888899999888887654

>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=98.14  E-value=9.3e-06  Score=66.83  Aligned_cols=97  Identities=15%  Similarity=0.076  Sum_probs=61.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC--------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE--------   86 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~--------   86 (162)
                      ..-+.|+|.+|+|||+||+.+++.....                                 .+|+||+++..        
T Consensus       238 ~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~  317 (489)
T 3hu3_A          238 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH  317 (489)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCTTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCC
T ss_pred             CCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhcchhHHHHHHHHHHHHhcCCcEEEecchhhhcccccccc
Confidence            3457799999999999999998765433                                 49999998411        


Q ss_pred             ---ChhhHHHHHhhcccc--CCCcEEEEecCChh-hHhhh-C---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 ---KYVDWTNMRDLFAAV--ASRSKVIVTTRNQG-VASIM-G---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 ---~~~~~~~l~~~l~~~--~~gs~iiiTTR~~~-v~~~~-~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                         .......|...+...  .....||.||.... +...+ .   -...+.+...+.++-.++|..++
T Consensus       318 ~~~~~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~  385 (489)
T 3hu3_A          318 GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHT  385 (489)
T ss_dssp             CHHHHHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHhhccccCCceEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHH
Confidence               112334455554432  22335555665542 22222 1   12368899999999999998764

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=98.14  E-value=9.3e-06  Score=62.94  Aligned_cols=96  Identities=9%  Similarity=-0.005  Sum_probs=72.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc---C-----C----------ce--------------------EEEEEeCCCCCChh
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND---K-----T----------VN--------------------FNFALDDTWKEKYV   89 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~---~-----~----------~~--------------------~LlVlDdv~~~~~~   89 (162)
                      .+.+.++|..|.|||++|+.+.+.   .     .          ..                    -++|+|+++..+..
T Consensus        18 ~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~~~~id~ir~li~~~~~~p~~~~~kvviIdead~lt~~   97 (305)
T 2gno_A           18 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQQ   97 (305)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcCCCCHHHHHHHHHHHhhccccCCceEEEeccHHHhCHH
Confidence            678889999999999999988652   0     0          00                    58999999988888


Q ss_pred             hHHHHHhhccccCCCcEEEEecCC-hhhHhhhCCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           90 DWTNMRDLFAAVASRSKVIVTTRN-QGVASIMGTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        90 ~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ..+.|+..+....+.+.+|++|.+ ..+...+... .+++.+++.++....+.+.+
T Consensus        98 a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A           98 AANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             HHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCCCCHHHHHHHHHHHh
Confidence            888888888766666766666544 3444444444 79999999999998887654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.12  E-value=6.7e-07  Score=64.62  Aligned_cols=24  Identities=21%  Similarity=0.116  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+.|+|.+|+|||+||+.+++..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~   78 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANEL   78 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            577899999999999999987643

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.98  E-value=2.8e-05  Score=66.92  Aligned_cols=112  Identities=17%  Similarity=0.196  Sum_probs=67.0

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC----------c---------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT----------V---------------   74 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~----------~---------------   74 (162)
                      ..++||+.   .+++.|....       ..-+.++|.+|+|||++|+.+++...          .               
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~-------~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~~~~~  258 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRR-------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTK  258 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS-------SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCC
T ss_pred             CCccCCHHHHHHHHHHHhccC-------CCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHhcccc
Confidence            57899998   5565555433       33457999999999999998875420          0               


Q ss_pred             --------------------eEEEEEeCCCCC--------ChhhHHHHHhhccccCCCcEEEEecCChhhHhhh------
Q 039127           75 --------------------NFNFALDDTWKE--------KYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIM------  120 (162)
Q Consensus        75 --------------------~~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~------  120 (162)
                                          ..+|++|+++..        .......+...+... ....+|.+|.........      
T Consensus       259 ~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~~-~~~~~I~at~~~~~~~~~~~d~aL  337 (758)
T 1r6b_X          259 YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTYQEFSNIFEKDRAL  337 (758)
T ss_dssp             CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS-CCCEEEEEECHHHHHCCCCCTTSS
T ss_pred             ccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHhC-CCeEEEEEeCchHHhhhhhcCHHH
Confidence                                068899999843        111222222222222 234556665543322111      


Q ss_pred             -CCCCeeeCCCCCHHHHHHHHhh
Q 039127          121 -GTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       121 -~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                       ..-..+.+...+.++..+++..
T Consensus       338 ~~Rf~~i~v~~p~~~e~~~il~~  360 (758)
T 1r6b_X          338 ARRFQKIDITEPSIEETVQIING  360 (758)
T ss_dssp             GGGEEEEECCCCCHHHHHHHHHH
T ss_pred             HhCceEEEcCCCCHHHHHHHHHH
Confidence             1112588999999998888864

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=97.97  E-value=1.8e-05  Score=64.74  Aligned_cols=110  Identities=14%  Similarity=0.112  Sum_probs=63.8

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC----------Cce-------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK----------TVN-------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~----------~~~-------------   75 (162)
                      ...++||+.   .++..|....       ..-+.++|.+|+|||++|+.+++..          ...             
T Consensus       179 ld~iiGr~~~i~~l~~~l~r~~-------~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~~~~g~  251 (468)
T 3pxg_A          179 LDPVIGRSKEIQRVIEVLSRRT-------KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGE  251 (468)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSS-------SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------
T ss_pred             CCCccCcHHHHHHHHHHHhccC-------CCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCCccccch
Confidence            356999999   5555554433       2345699999999999999987653          000             


Q ss_pred             -----------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChhhHh-------hhCCCCeeeCCCC
Q 039127           76 -----------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVAS-------IMGTMPAYELKKL  131 (162)
Q Consensus        76 -----------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~-------~~~~~~~~~l~~L  131 (162)
                                       .++++|  .  ..+....|+..+..  ..-++|.+|.......       ....-.++.+.+.
T Consensus       252 ~e~~~~~~~~~~~~~~~~iLfiD--~--~~~a~~~L~~~L~~--g~v~vI~at~~~e~~~~~~~~~al~~Rf~~i~v~~p  325 (468)
T 3pxg_A          252 FEDRLKKVMDEIRQAGNIILFID--A--AIDASNILKPSLAR--GELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQP  325 (468)
T ss_dssp             -CTTHHHHHHHHHTCCCCEEEEC--C----------CCCTTS--SSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCC
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEe--C--chhHHHHHHHhhcC--CCEEEEecCCHHHHHHHhhcCHHHHHhCccceeCCC
Confidence                             467777  2  33333334443331  1234555554433111       1112236899999


Q ss_pred             CHHHHHHHHhhCC
Q 039127          132 VNDNCLLIFSQHP  144 (162)
Q Consensus       132 ~~~~~~~lf~~~a  144 (162)
                      +.++...++...+
T Consensus       326 ~~e~~~~iL~~~~  338 (468)
T 3pxg_A          326 SVDESIQILQGLR  338 (468)
T ss_dssp             CHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999998653

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.97  E-value=7.4e-06  Score=63.92  Aligned_cols=46  Identities=11%  Similarity=-0.018  Sum_probs=31.0

Q ss_pred             ceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           24 LWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        24 ~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+.||++   .+...|...-   .+.....+.|+|.+|.|||++++.+.+..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i---~~~~~~~lli~GpPGTGKT~~v~~v~~~L   69 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSL---MSSQNKLFYITNADDSTKFQLVNDVMDEL   69 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH---HTTCCCEEEEECCCSHHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHh---cCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            4788988   3333332210   11245677899999999999999887654

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.96  E-value=6.8e-05  Score=58.29  Aligned_cols=97  Identities=13%  Similarity=-0.021  Sum_probs=59.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC-Cce---------------------------------EEEEEeCCCCC-------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK-TVN---------------------------------FNFALDDTWKE-------   86 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~-~~~---------------------------------~LlVlDdv~~~-------   86 (162)
                      .+-+.++|.+|+|||+||+.+++.. ...                                 .+|++|+++..       
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~~~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~  124 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN  124 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSCCSSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSC
T ss_pred             CceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHHhhhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccc
Confidence            4577899999999999999998765 211                                 68999999742       


Q ss_pred             Chh----hHHHHHhhccc---cCCCcEEEEecCChh-hHhh-h-CCCCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 KYV----DWTNMRDLFAA---VASRSKVIVTTRNQG-VASI-M-GTMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 ~~~----~~~~l~~~l~~---~~~gs~iiiTTR~~~-v~~~-~-~~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      ...    ....+...+..   ...+..||.||.... +... . .-...+.+...+.++...+|+.+.
T Consensus       125 ~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l  192 (322)
T 1xwi_A          125 ESEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHL  192 (322)
T ss_dssp             CTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhcccccCCCEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHH
Confidence            011    12223333322   123344555564432 1111 1 222367888889998888887653

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=97.96  E-value=3.8e-05  Score=59.58  Aligned_cols=43  Identities=14%  Similarity=0.182  Sum_probs=28.9

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|.+.   .+...+....       ..-+.|+|.+|+|||+||+.+++..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~-------~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPG-------IGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGG-------GCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCC-------CceEEEECCCCccHHHHHHHHHHhC
Confidence            56899988   2222222222       1237799999999999999987543

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.94  E-value=9.2e-05  Score=63.69  Aligned_cols=96  Identities=11%  Similarity=0.096  Sum_probs=64.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce-------------------------------------------EEEEEeCCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------------------------------FNFALDDTW   84 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------------------------------~LlVlDdv~   84 (162)
                      ...+.++|.+|+|||++|+.+++.....                                           .+++||+++
T Consensus       488 ~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~~~l~g~~~g~~g~~~~~~l~~~~~~~~~~vl~lDEi~  567 (758)
T 1r6b_X          488 VGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIE  567 (758)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEETGG
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhHhhhcCCCCCCcCccccchHHHHHHhCCCcEEEEeCcc
Confidence            4468899999999999999987543210                                           588999999


Q ss_pred             CCChhhHHHHHhhccccC-----------CCcEEEEecCChh----------------------h-----HhhhCCC-Ce
Q 039127           85 KEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRNQG----------------------V-----ASIMGTM-PA  125 (162)
Q Consensus        85 ~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~~~----------------------v-----~~~~~~~-~~  125 (162)
                      ....+.+..|...+..+.           ....||.||....                      +     ......- ..
T Consensus       568 ~~~~~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~  647 (758)
T 1r6b_X          568 KAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNI  647 (758)
T ss_dssp             GSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHTTCSEE
T ss_pred             ccCHHHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcc
Confidence            777777778777765321           2344677765411                      0     1111222 36


Q ss_pred             eeCCCCCHHHHHHHHhhC
Q 039127          126 YELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       126 ~~l~~L~~~~~~~lf~~~  143 (162)
                      +.+.+|+.++...++...
T Consensus       648 i~~~~l~~~~~~~i~~~~  665 (758)
T 1r6b_X          648 IWFDHLSTDVIHQVVDKF  665 (758)
T ss_dssp             EECCCCCHHHHHHHHHHH
T ss_pred             eeeCCCCHHHHHHHHHHH
Confidence            889999998888777653

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.89  E-value=3.1e-05  Score=60.42  Aligned_cols=123  Identities=17%  Similarity=0.118  Sum_probs=69.5

Q ss_pred             CCCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------
Q 039127           21 SVKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------   75 (162)
                      ....++|.+.  +-+...+.... ..+.....+.++|.+|+||||||+.+++.....                       
T Consensus        23 ~l~~~~g~~~~~~~l~~~i~~~~-~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~~~~l~~~~~~~~  101 (334)
T 1in4_A           23 SLDEFIGQENVKKKLSLALEAAK-MRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSLE  101 (334)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHH-HHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHHHHHCC
T ss_pred             cHHHccCcHHHHHHHHHHHHHHH-hcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcCHHHHHHHHHHcc
Confidence            4467888876  32333222100 001223568899999999999999998654111                       


Q ss_pred             --EEEEEeCCCCCChhhHHHHHhhccccC--------C-----------CcEEEEecCChhhHhhhCC-C-CeeeCCCCC
Q 039127           76 --FNFALDDTWKEKYVDWTNMRDLFAAVA--------S-----------RSKVIVTTRNQGVASIMGT-M-PAYELKKLV  132 (162)
Q Consensus        76 --~LlVlDdv~~~~~~~~~~l~~~l~~~~--------~-----------gs~iiiTTR~~~v~~~~~~-~-~~~~l~~L~  132 (162)
                        .++++|+++.......+.+...+....        .           -.-+..|++...+...... . -...+++.+
T Consensus       102 ~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~li~at~~~~~Ls~~l~sR~~l~~~Ld~~~  181 (334)
T 1in4_A          102 RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYT  181 (334)
T ss_dssp             TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCC
T ss_pred             CCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeEEEEecCCcccCCHHHHHhcCceeeCCCCC
Confidence              477889987544444444433322111        0           1112235554443322211 1 247899999


Q ss_pred             HHHHHHHHhhCC
Q 039127          133 NDNCLLIFSQHP  144 (162)
Q Consensus       133 ~~~~~~lf~~~a  144 (162)
                      .++-..++.+.+
T Consensus       182 ~~~l~~iL~~~~  193 (334)
T 1in4_A          182 VKELKEIIKRAA  193 (334)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999987653

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=97.86  E-value=0.00013  Score=60.14  Aligned_cols=113  Identities=12%  Similarity=0.122  Sum_probs=69.7

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      ..++|++.   .+...+....         -+.++|.+|+|||+||+.+++.....                        
T Consensus        22 ~~ivGq~~~i~~l~~al~~~~---------~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~~t~~dL~G~~~~~~   92 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSGE---------SVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQA   92 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHTC---------EEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTTCCHHHHHCCBC---
T ss_pred             hhhHHHHHHHHHHHHHHhcCC---------eeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhcCCHHHhcCcccHHH
Confidence            67899998   3333344433         56799999999999999998644210                        


Q ss_pred             -------------E-----EEEEeCCCCCChhhHHHHHhhcccc----------CCCcEEEEecCC-hh----hHhhhCC
Q 039127           76 -------------F-----NFALDDTWKEKYVDWTNMRDLFAAV----------ASRSKVIVTTRN-QG----VASIMGT  122 (162)
Q Consensus        76 -------------~-----LlVlDdv~~~~~~~~~~l~~~l~~~----------~~gs~iiiTTR~-~~----v~~~~~~  122 (162)
                                   +     ++++|+++..+......|...+...          .+...+|++|.. ..    .......
T Consensus        93 ~~~~g~~~~~~~g~l~~~~IL~IDEI~r~~~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~ATN~lpe~~~~~~aLldR  172 (500)
T 3nbx_X           93 LKDEGRYERLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERQFRNGAHVEKIPMRLLVAASNELPEADSSLEALYDR  172 (500)
T ss_dssp             -------CBCCTTSGGGCSEEEEESGGGCCHHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEESSCCCTTCTTHHHHTT
T ss_pred             HhhchhHHhhhccCCCcceeeeHHhHhhhcHHHHHHHHHHHHHHhccCCCCcCCcchhhhhhccccCCCccccHHHHHHH
Confidence                         2     5999999877777777777666321          111133666642 11    0011111


Q ss_pred             -CCeeeCCCCCH-HHHHHHHhhCC
Q 039127          123 -MPAYELKKLVN-DNCLLIFSQHP  144 (162)
Q Consensus       123 -~~~~~l~~L~~-~~~~~lf~~~a  144 (162)
                       ...+.+++++. ++-..++....
T Consensus       173 F~~~i~v~~p~~~ee~~~IL~~~~  196 (500)
T 3nbx_X          173 MLIRLWLDKVQDKANFRSMLTSQQ  196 (500)
T ss_dssp             CCEEEECCSCCCHHHHHHHHTCCC
T ss_pred             HHHHHHHHHhhhhhhHHHHHhccc
Confidence             22477888887 55667777654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.84  E-value=7.3e-05  Score=64.41  Aligned_cols=110  Identities=14%  Similarity=0.113  Sum_probs=64.9

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC----------Cc--------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK----------TV--------------   74 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~----------~~--------------   74 (162)
                      ...++||+.   .++..|....       ..-+.++|.+|+|||++|+.+++..          ..              
T Consensus       179 ld~iiG~~~~i~~l~~~l~~~~-------~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~g~~~~G~  251 (758)
T 3pxi_A          179 LDPVIGRSKEIQRVIEVLSRRT-------KNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMGTKYRGE  251 (758)
T ss_dssp             SCCCCCCHHHHHHHHHHHHCSS-------SCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC---------
T ss_pred             CCCccCchHHHHHHHHHHhCCC-------CCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecccccccch
Confidence            357899999   5666665433       2236799999999999999987653          00              


Q ss_pred             -----e-----------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCChhhHh-------hhCCCCeeeCCCC
Q 039127           75 -----N-----------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVAS-------IMGTMPAYELKKL  131 (162)
Q Consensus        75 -----~-----------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~-------~~~~~~~~~l~~L  131 (162)
                           +           .+|++|  .  ..+....+...+.  ...-++|.+|.......       ....-..+.+...
T Consensus       252 ~e~~l~~~~~~~~~~~~~iLfiD--~--~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~d~al~rRf~~i~v~~p  325 (758)
T 3pxi_A          252 FEDRLKKVMDEIRQAGNIILFID--A--AIDASNILKPSLA--RGELQCIGATTLDEYRKYIEKDAALERRFQPIQVDQP  325 (758)
T ss_dssp             -CTTHHHHHHHHHTCCCCEEEEC--C----------CCCTT--SSSCEEEEECCTTTTHHHHTTCSHHHHSEEEEECCCC
T ss_pred             HHHHHHHHHHHHHhcCCEEEEEc--C--chhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhccHHHHhhCcEEEeCCC
Confidence                 0           577788  2  3333333443333  12335555555443211       1111236899999


Q ss_pred             CHHHHHHHHhhCC
Q 039127          132 VNDNCLLIFSQHP  144 (162)
Q Consensus       132 ~~~~~~~lf~~~a  144 (162)
                      +.++...++....
T Consensus       326 ~~~~~~~il~~~~  338 (758)
T 3pxi_A          326 SVDESIQILQGLR  338 (758)
T ss_dssp             CHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999998643

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.83  E-value=0.00014  Score=58.44  Aligned_cols=96  Identities=14%  Similarity=0.086  Sum_probs=61.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC--------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE--------   86 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~--------   86 (162)
                      .+-+.++|++|.|||.||+++++.....                                 +++.+|+++..        
T Consensus       182 prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~  261 (405)
T 4b4t_J          182 PKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGS  261 (405)
T ss_dssp             CCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGSCSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSS
T ss_pred             CCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhhccccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCC
Confidence            4567799999999999999998876544                                 89999998742        


Q ss_pred             Ch--hh----HHHHHhhccc--cCCCcEEEEecCChhhH-h-hhC---CCCeeeCCCCCHHHHHHHHhhC
Q 039127           87 KY--VD----WTNMRDLFAA--VASRSKVIVTTRNQGVA-S-IMG---TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        87 ~~--~~----~~~l~~~l~~--~~~gs~iiiTTR~~~v~-~-~~~---~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      +.  ..    ...++..+..  ...+-.||.||...+.. . ...   -+..+.+...+.++-.++|+.+
T Consensus       262 ~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~  331 (405)
T 4b4t_J          262 GGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIH  331 (405)
T ss_dssp             SGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhhhccCCCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHH
Confidence            00  11    2223333332  22333556666554321 1 122   2347889989988888888755

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.80  E-value=0.0002  Score=54.48  Aligned_cols=94  Identities=14%  Similarity=0.094  Sum_probs=58.9

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCCC----------
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKEK----------   87 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~~----------   87 (162)
                      +.++|.+|+||||||+.++......                                 +++++|+++...          
T Consensus        47 vlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~  126 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGA  126 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSSTTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------
T ss_pred             EEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhhhhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchH
Confidence            8899999999999999998654321                                 689999987310          


Q ss_pred             -hhhHHHHHhhcccc--CCCcEEEEecCChhhHh--hhC---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           88 -YVDWTNMRDLFAAV--ASRSKVIVTTRNQGVAS--IMG---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        88 -~~~~~~l~~~l~~~--~~gs~iiiTTR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                       ......+...+..+  ....-++.+|....+..  ...   -...+.+...+.++-.++|+...
T Consensus       127 ~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~  191 (274)
T 2x8a_A          127 SVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTIT  191 (274)
T ss_dssp             CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHH
Confidence             01122333333322  22334555666654432  121   23367899999999888887653

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.79  E-value=3.4e-05  Score=59.17  Aligned_cols=27  Identities=19%  Similarity=0.235  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+.+.++|++|+|||+||+.+++...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~   61 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMG   61 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345778999999999999999987653

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.78  E-value=6.7e-05  Score=56.04  Aligned_cols=122  Identities=14%  Similarity=-0.004  Sum_probs=66.9

Q ss_pred             CCceeeehH------HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------
Q 039127           22 VKLWLGREE------GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------   75 (162)
Q Consensus        22 ~~~~vGr~~------~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------   75 (162)
                      -.+++|.+.      +++.++......  .+....+-+.|+|.+|+|||+||+.+++.....                  
T Consensus        11 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~~~~~~~   90 (257)
T 1lv7_A           11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGA   90 (257)
T ss_dssp             GGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCCCH
T ss_pred             HHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHHhhhhhH
Confidence            467899887      344444322100  001112347799999999999999997654321                  


Q ss_pred             ---------------EEEEEeCCCCCC----------h----hhHHHHHhhccc--cCCCcEEEEecCChh-hHhh-hCC
Q 039127           76 ---------------FNFALDDTWKEK----------Y----VDWTNMRDLFAA--VASRSKVIVTTRNQG-VASI-MGT  122 (162)
Q Consensus        76 ---------------~LlVlDdv~~~~----------~----~~~~~l~~~l~~--~~~gs~iiiTTR~~~-v~~~-~~~  122 (162)
                                     .++++|+++...          .    .....+...+..  ...+..+|.||.... +... ...
T Consensus        91 ~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~tn~~~~l~~~l~r~  170 (257)
T 1lv7_A           91 SRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRP  170 (257)
T ss_dssp             HHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGST
T ss_pred             HHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEeeCCchhCCHHHcCC
Confidence                           588999984210          0    112233333321  123445666665543 2111 111


Q ss_pred             ---CCeeeCCCCCHHHHHHHHhhC
Q 039127          123 ---MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       123 ---~~~~~l~~L~~~~~~~lf~~~  143 (162)
                         ...+.+...+.++-.+++..+
T Consensus       171 ~rf~~~i~i~~P~~~~r~~il~~~  194 (257)
T 1lv7_A          171 GRFDRQVVVGLPDVRGREQILKVH  194 (257)
T ss_dssp             TSSCEEEECCCCCHHHHHHHHHHH
T ss_pred             CcCCeEEEeCCCCHHHHHHHHHHH
Confidence               235778888888877777654

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=97.77  E-value=9.5e-06  Score=60.97  Aligned_cols=94  Identities=15%  Similarity=0.108  Sum_probs=55.8

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCCChh--------
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKEKYV--------   89 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~~~~--------   89 (162)
                      +.|+|.+|+|||+||+.+++.....                                 .+|++|+++.....        
T Consensus        47 vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~  126 (268)
T 2r62_A           47 VLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVS  126 (268)
T ss_dssp             CCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCSSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC---------
T ss_pred             EEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhcchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCC
Confidence            6699999999999999998653211                                 68999999632111        


Q ss_pred             -------hHHHHHhhcccc---CCCcEEEEecCChhhH--hhhC---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           90 -------DWTNMRDLFAAV---ASRSKVIVTTRNQGVA--SIMG---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        90 -------~~~~l~~~l~~~---~~gs~iiiTTR~~~v~--~~~~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                             .+..+...+...   .....+|.||......  ....   -...+.+...+.++..+++...+
T Consensus       127 ~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~  196 (268)
T 2r62_A          127 GNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHI  196 (268)
T ss_dssp             -CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHT
T ss_pred             CchhHHHHHHHHHHHhhCcccCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHH
Confidence                   122233333211   1123566666654321  1111   12357888888888888887553

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=97.77  E-value=8.5e-06  Score=59.80  Aligned_cols=45  Identities=16%  Similarity=0.090  Sum_probs=32.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce-------------------EEEEEeCCCCCChhhHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------FNFALDDTWKEKYVDWTNMR   95 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------~LlVlDdv~~~~~~~~~~l~   95 (162)
                      ...+.++|++|.|||++|..+++....+                   -+++|||+.   ...|..+.
T Consensus        58 kn~ili~GPPGtGKTt~a~ala~~l~g~i~~fans~s~f~l~~l~~~kIiiLDEad---~~~~~~~d  121 (212)
T 1tue_A           58 KNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNSTSHFWLEPLTDTKVAMLDDAT---TTCWTYFD  121 (212)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHHHHTCEECCCCCSSSCGGGGGGTTCSSEEEEEEC---HHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHhCCCeeeEEeccchhhhcccCCCCEEEEECCC---chhHHHHH
Confidence            3458899999999999987776543221                   578999996   33455543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.74  E-value=8.7e-06  Score=63.10  Aligned_cols=24  Identities=13%  Similarity=0.050  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...+.|+|.+|+|||+||..+++.
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            356789999999999999888754

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=97.72  E-value=0.00011  Score=61.11  Aligned_cols=97  Identities=19%  Similarity=0.146  Sum_probs=58.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------------EEEEEeCCCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------------FNFALDDTWK   85 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------------~LlVlDdv~~   85 (162)
                      ....+.++|.+|+||||||+.++......                                         -+++||+++.
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~~~~~ig~~~~~~~~~~~~a~~~~~vl~lDEid~  186 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYVGAMPGRIIQGMKKAGKLNPVFLLDEIDK  186 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC--------------------CHHHHHHTTCSSSEEEEEEESSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhHHHHHhccCchHHHHHHHHhhccCCEEEEhhhhh
Confidence            34588999999999999999987543211                                         4788999885


Q ss_pred             CChh----hHHHHHhhccccC---------------CCcEEEEecCChhh-H-hhhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127           86 EKYV----DWTNMRDLFAAVA---------------SRSKVIVTTRNQGV-A-SIMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        86 ~~~~----~~~~l~~~l~~~~---------------~gs~iiiTTR~~~v-~-~~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ....    ....+...+....               ....+|.||..... . ........+.+.+++.++-..++..+
T Consensus       187 l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~v~iI~ttN~~~~l~~aL~~R~~vi~~~~~~~~e~~~Il~~~  265 (543)
T 3m6a_A          187 MSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSKVLFIATANNLATIPGPLRDRMEIINIAGYTEIEKLEIVKDH  265 (543)
T ss_dssp             CC---------CCGGGTCTTTTTBCCCSSSCCCCBCSSCEEEEECSSTTTSCHHHHHHEEEEECCCCCHHHHHHHHHHT
T ss_pred             hhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccceEEEeccCccccCCHHHHhhcceeeeCCCCHHHHHHHHHHH
Confidence            4333    2234444442111               22355666654321 1 11111236899999999988888765

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.71  E-value=0.00019  Score=58.21  Aligned_cols=97  Identities=16%  Similarity=0.108  Sum_probs=61.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-------   86 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-------   86 (162)
                      ..+-+.++|++|.|||.||+++++.....                                 +++.+|+++..       
T Consensus       214 ~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~sk~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~  293 (437)
T 4b4t_L          214 PPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSE  293 (437)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTCCSSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSS
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhccccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccC
Confidence            35677899999999999999998876544                                 89999998732       


Q ss_pred             ---Chh----hHHHHHhhccc--cCCCcEEEEecCChhhH-h-hhCC---CCeeeCCCCCHHHHHHHHhhC
Q 039127           87 ---KYV----DWTNMRDLFAA--VASRSKVIVTTRNQGVA-S-IMGT---MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        87 ---~~~----~~~~l~~~l~~--~~~gs~iiiTTR~~~v~-~-~~~~---~~~~~l~~L~~~~~~~lf~~~  143 (162)
                         ...    ....++..+..  ...+..||.||...+.. . ...+   +..+++...+.++-.++|+.+
T Consensus       294 ~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~  364 (437)
T 4b4t_L          294 GTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIH  364 (437)
T ss_dssp             CCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHHHHhhcccCCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHH
Confidence               001    12233333332  22344667777654432 1 1222   235778888888888888754

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=97.70  E-value=0.00018  Score=56.81  Aligned_cols=24  Identities=33%  Similarity=0.296  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+.++|.+|+|||++|+.+++..
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            457799999999999999987654

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.67  E-value=0.00015  Score=59.47  Aligned_cols=122  Identities=16%  Similarity=0.040  Sum_probs=69.4

Q ss_pred             CCceeeehH------HHHHHhhcCCC--CCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------
Q 039127           22 VKLWLGREE------GTVELVLKDDS--ETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------   75 (162)
Q Consensus        22 ~~~~vGr~~------~i~~~l~~~~~--~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------   75 (162)
                      -.+++|.++      +++..+.....  ..+....+-+.|+|++|+|||+||+.+++.....                  
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~g~~~   94 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGA   94 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCTTHHH
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHhcccH
Confidence            357899888      34444322100  0000112337799999999999999998754332                  


Q ss_pred             ---------------EEEEEeCCCCCCh--------------hhHHHHHhhccc--cCCCcEEEEecCChhhHh--hhCC
Q 039127           76 ---------------FNFALDDTWKEKY--------------VDWTNMRDLFAA--VASRSKVIVTTRNQGVAS--IMGT  122 (162)
Q Consensus        76 ---------------~LlVlDdv~~~~~--------------~~~~~l~~~l~~--~~~gs~iiiTTR~~~v~~--~~~~  122 (162)
                                     .+|+||+++....              .....+...+..  ...+..||.||...+...  ....
T Consensus        95 ~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~~~~Ld~allR~  174 (476)
T 2ce7_A           95 ARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRP  174 (476)
T ss_dssp             HHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESCGGGSCGGGGST
T ss_pred             HHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCChhhhchhhccc
Confidence                           6999999863211              122333333321  123456666776654321  2222


Q ss_pred             ---CCeeeCCCCCHHHHHHHHhhC
Q 039127          123 ---MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       123 ---~~~~~l~~L~~~~~~~lf~~~  143 (162)
                         ...+.+...+.++-.++|+.+
T Consensus       175 gRFd~~i~i~~Pd~~~R~~Il~~~  198 (476)
T 2ce7_A          175 GRFDKKIVVDPPDMLGRKKILEIH  198 (476)
T ss_dssp             TSSCEEEECCCCCHHHHHHHHHHH
T ss_pred             CcceeEeecCCCCHHHHHHHHHHH
Confidence               226788888887777777654

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=97.66  E-value=0.00024  Score=61.99  Aligned_cols=66  Identities=14%  Similarity=0.068  Sum_probs=47.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc---e-------------------------------------------EEEEEe
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV---N-------------------------------------------FNFALD   81 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~---~-------------------------------------------~LlVlD   81 (162)
                      ...+.|+|..|+|||++|+.+++....   .                                           -+|+||
T Consensus       588 ~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~~s~l~g~~~~~~G~~~~g~l~~~~~~~~~~vl~lD  667 (854)
T 1qvr_A          588 IGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFD  667 (854)
T ss_dssp             SEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC--------------CHHHHHHHCSSEEEEES
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhHHHHHcCCCCCCcCccccchHHHHHHhCCCeEEEEe
Confidence            457889999999999999988654310   0                                           478999


Q ss_pred             CCCCCChhhHHHHHhhccccC-----------CCcEEEEecCC
Q 039127           82 DTWKEKYVDWTNMRDLFAAVA-----------SRSKVIVTTRN  113 (162)
Q Consensus        82 dv~~~~~~~~~~l~~~l~~~~-----------~gs~iiiTTR~  113 (162)
                      ++...+.+.+..|...+..+.           ++..||.||..
T Consensus       668 Ei~~l~~~~~~~Ll~~l~~~~~~~~~g~~vd~~~~iiI~tsn~  710 (854)
T 1qvr_A          668 EIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILTSNL  710 (854)
T ss_dssp             SGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEECCT
T ss_pred             cccccCHHHHHHHHHHhccCceECCCCCEeccCCeEEEEecCc
Confidence            998777788888877776431           23447777764

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.64  E-value=0.00016  Score=58.63  Aligned_cols=97  Identities=15%  Similarity=0.113  Sum_probs=60.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-----C-
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-----K-   87 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-----~-   87 (162)
                      ..+-|.++|++|.|||.||+++++.....                                 +++.+|+++..     + 
T Consensus       214 ~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~~~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~  293 (434)
T 4b4t_M          214 APKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDS  293 (434)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCSSCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSG
T ss_pred             CCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhhhcccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCC
Confidence            35677899999999999999998876544                                 89999998621     0 


Q ss_pred             -h---hh----HHHHHhhcccc--CCCcEEEEecCChhhH-h-hhCC---CCeeeCCCCCHHHHHHHHhhC
Q 039127           88 -Y---VD----WTNMRDLFAAV--ASRSKVIVTTRNQGVA-S-IMGT---MPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        88 -~---~~----~~~l~~~l~~~--~~gs~iiiTTR~~~v~-~-~~~~---~~~~~l~~L~~~~~~~lf~~~  143 (162)
                       .   ..    ...++..+...  ..+-.||.||...+.. . ...+   +..+++...+.++-.++|+.+
T Consensus       294 ~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~  364 (434)
T 4b4t_M          294 EKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIH  364 (434)
T ss_dssp             GGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHH
T ss_pred             CCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHH
Confidence             0   11    12233333321  2233566677665432 1 1122   235788888888888888644

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.63  E-value=0.00018  Score=58.69  Aligned_cols=98  Identities=16%  Similarity=0.070  Sum_probs=60.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-------   86 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-------   86 (162)
                      ..+-|.++|++|.|||.||+++++.....                                 +++++|+++..       
T Consensus       242 pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~  321 (467)
T 4b4t_H          242 PPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDD  321 (467)
T ss_dssp             CCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCCCSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSS
T ss_pred             CCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhcccCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCc
Confidence            35667799999999999999998866544                                 89999998732       


Q ss_pred             -Ch--h----hHHHHHhhcccc--CCCcEEEEecCChhhH-h-hhC---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 -KY--V----DWTNMRDLFAAV--ASRSKVIVTTRNQGVA-S-IMG---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 -~~--~----~~~~l~~~l~~~--~~gs~iiiTTR~~~v~-~-~~~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                       ..  .    ....++..+...  ..+-.||.||...+.. . ...   -...+++...+.++-.++|+.+.
T Consensus       322 ~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l  393 (467)
T 4b4t_H          322 GAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHS  393 (467)
T ss_dssp             SCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHh
Confidence             00  0    112222333221  2233456666554321 1 222   23468888888888888887553

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.57  E-value=0.00047  Score=56.86  Aligned_cols=123  Identities=15%  Similarity=0.050  Sum_probs=70.4

Q ss_pred             CCceeeehH------HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------
Q 039127           22 VKLWLGREE------GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------   75 (162)
Q Consensus        22 ~~~~vGr~~------~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------   75 (162)
                      -.+++|.++      +++..+......  .+-.-.+-+.|+|.+|+|||+||+.+++.....                  
T Consensus        30 f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~g~~~  109 (499)
T 2dhr_A           30 FKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGA  109 (499)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCTTHHH
T ss_pred             HHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhhhhHH
Confidence            467899888      344443221100  000111237899999999999999998654322                  


Q ss_pred             ---------------EEEEEeCCCCCC----------hhh----HHHHHhhcccc--CCCcEEEEecCChhhHh--hhC-
Q 039127           76 ---------------FNFALDDTWKEK----------YVD----WTNMRDLFAAV--ASRSKVIVTTRNQGVAS--IMG-  121 (162)
Q Consensus        76 ---------------~LlVlDdv~~~~----------~~~----~~~l~~~l~~~--~~gs~iiiTTR~~~v~~--~~~-  121 (162)
                                     .++++|+++...          .+.    ...+...+...  ..+..++.+|.......  ... 
T Consensus       110 ~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAatn~p~~LD~aLlr~  189 (499)
T 2dhr_A          110 ARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRP  189 (499)
T ss_dssp             HHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECCSCGGGSCTTTSST
T ss_pred             HHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEecCChhhcCcccccc
Confidence                           689999985321          111    22333333322  22334555666654421  111 


Q ss_pred             --CCCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 --TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 --~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                        -...+.+...+.++-.++|+.++
T Consensus       190 gRfdr~i~i~~Pd~~~R~~IL~~~~  214 (499)
T 2dhr_A          190 GRFDRQIAIDAPDVKGREQILRIHA  214 (499)
T ss_dssp             TSSCCEEECCCCCHHHHHHHHHHTT
T ss_pred             cccceEEecCCCCHHHHHHHHHHHH
Confidence              12367899899988888887664

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.56  E-value=0.0004  Score=51.64  Aligned_cols=93  Identities=13%  Similarity=0.092  Sum_probs=55.7

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC----------C
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE----------K   87 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~----------~   87 (162)
                      +.|+|.+|+||||||+.+++.....                                 .++++|+++..          .
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~  131 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGG  131 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHHHhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCcccccc
Confidence            8899999999999999998654322                                 68999998411          0


Q ss_pred             hhh----HHHHHhhccccCC--CcEEEEecCChhhHh--hhC---CCCeeeCCCCCHHHHHHHHhhC
Q 039127           88 YVD----WTNMRDLFAAVAS--RSKVIVTTRNQGVAS--IMG---TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        88 ~~~----~~~l~~~l~~~~~--gs~iiiTTR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ...    ...+...+.....  ...++.+|.......  ...   -...+.+...+.++-.++++..
T Consensus       132 ~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~  198 (254)
T 1ixz_A          132 NDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIH  198 (254)
T ss_dssp             CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCCCCCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHH
Confidence            011    1233333332222  223445665554321  111   1236788888988878887654

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=97.56  E-value=0.00063  Score=51.68  Aligned_cols=93  Identities=15%  Similarity=0.145  Sum_probs=54.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC---------c---------eEEEEEeCCCCCChhhHHHHHhhcc--------cc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT---------V---------NFNFALDDTWKEKYVDWTNMRDLFA--------AV  101 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~---------~---------~~LlVlDdv~~~~~~~~~~l~~~l~--------~~  101 (162)
                      ..-+.++|++|.|||.+|..+.+...         .         +.+++.|+... ..+....++..+.        ..
T Consensus       104 ~n~~~l~GppgtGKt~~a~ala~~~~l~G~vn~~~~~f~l~~~~~k~i~l~Ee~~~-~~d~~~~lr~i~~G~~~~id~K~  182 (267)
T 1u0j_A          104 RNTIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNENFPFNDCVDKMVIWWEEGKM-TAKVVESAKAILGGSKVRVDQKC  182 (267)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHSSCEEECCTTCSSCTTGGGSSCSEEEECSCCE-ETTTHHHHHHHHTTCCEEC----
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhhhcccceeeccccccccccccccEEEEeccccc-hhHHHHHHHHHhCCCcEEEecCc
Confidence            45688999999999999999987420         0         05555555532 1222234444332        11


Q ss_pred             C-----CCcEEEEecCCh-------------hhHhhhCCCCeeeCC--------CCCHHHHHHHHh
Q 039127          102 A-----SRSKVIVTTRNQ-------------GVASIMGTMPAYELK--------KLVNDNCLLIFS  141 (162)
Q Consensus       102 ~-----~gs~iiiTTR~~-------------~v~~~~~~~~~~~l~--------~L~~~~~~~lf~  141 (162)
                      .     +...+|+||-..             .....-.....++..        +|++++...+|.
T Consensus       183 k~~~~v~~tPvIitsN~~i~~~~~g~~~s~~~~~~L~sR~~~f~F~~~~p~~~~~lt~~~~~~f~~  248 (267)
T 1u0j_A          183 KSSAQIDPTPVIVTSNTNMCAVIDGNSTTFEHQQPLQDRMFKFELTRRLDHDFGKVTKQEVKDFFR  248 (267)
T ss_dssp             --CCEECCCCEEEEESSCTTCEEETTEEECTTHHHHHTTEEEEECCSCCCTTSCCCCHHHHHHHHH
T ss_pred             CCcccccCCCEEEEecCCcccccccCccchhhhHHHhhhEEEEECCCcCCcccCCCCHHHHHHHHH
Confidence            1     345789999872             111222222245555        799999999887

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.55  E-value=0.00041  Score=52.42  Aligned_cols=93  Identities=14%  Similarity=0.104  Sum_probs=55.3

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC--C--------
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE--K--------   87 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~--~--------   87 (162)
                      +.|+|.+|+||||||+.++......                                 .++++|+++..  .        
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~  155 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGG  155 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSTTTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------
T ss_pred             EEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHHhhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCc
Confidence            7899999999999999998654321                                 68999998411  0        


Q ss_pred             hhhH----HHHHhhccccCC--CcEEEEecCChhhHh--hhC---CCCeeeCCCCCHHHHHHHHhhC
Q 039127           88 YVDW----TNMRDLFAAVAS--RSKVIVTTRNQGVAS--IMG---TMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        88 ~~~~----~~l~~~l~~~~~--gs~iiiTTR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ...+    ..+...+.....  ...++.+|.......  ...   -...+.+...+.++-.+++..+
T Consensus       156 ~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~  222 (278)
T 1iy2_A          156 NDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIH  222 (278)
T ss_dssp             CHHHHHHHHHHHHHHTTCCTTCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCCCCCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHH
Confidence            1111    222222322221  223444555544321  111   2346889999988888887754

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=97.51  E-value=0.0004  Score=60.34  Aligned_cols=98  Identities=15%  Similarity=0.061  Sum_probs=61.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-------   86 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-------   86 (162)
                      ..+-|.++|++|.|||+||+.+++.....                                 .+|++|+++..       
T Consensus       237 ~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~  316 (806)
T 3cf2_A          237 PPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT  316 (806)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTC
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCC
Confidence            35667899999999999999999887655                                 79999998631       


Q ss_pred             Chh----hHHHHHhhcccc--CCCcEEEEecCChh-hHhhhC----CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 KYV----DWTNMRDLFAAV--ASRSKVIVTTRNQG-VASIMG----TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 ~~~----~~~~l~~~l~~~--~~gs~iiiTTR~~~-v~~~~~----~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      +.+    ....|...+...  ..+-.||.||...+ +-..+.    -...+++...+.++-.++|+.+.
T Consensus       317 ~~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l  385 (806)
T 3cf2_A          317 HGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHT  385 (806)
T ss_dssp             CCTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTC
T ss_pred             CChHHHHHHHHHHHHHhcccccCCEEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHh
Confidence            001    122233322221  12334555665433 222221    12368899999999999998764

>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=97.49  E-value=0.00024  Score=55.81  Aligned_cols=25  Identities=32%  Similarity=0.161  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+.++|.+|+|||++|+.+++..
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3467899999999999999998754

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.47  E-value=0.00029  Score=57.02  Aligned_cols=98  Identities=14%  Similarity=0.035  Sum_probs=60.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-------   86 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-------   86 (162)
                      ..+-|.++|++|.|||.||+++++.....                                 +++.+|+++..       
T Consensus       215 ~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~  294 (437)
T 4b4t_I          215 PPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDS  294 (437)
T ss_dssp             CCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGCCSSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCS
T ss_pred             CCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhhhccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCC
Confidence            34667899999999999999999776544                                 88999987631       


Q ss_pred             ---Ch----hhHHHHHhhccc--cCCCcEEEEecCChhhH-hh-hCC---CCeeeCCCCCHHHHHHHHhhCC
Q 039127           87 ---KY----VDWTNMRDLFAA--VASRSKVIVTTRNQGVA-SI-MGT---MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        87 ---~~----~~~~~l~~~l~~--~~~gs~iiiTTR~~~v~-~~-~~~---~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                         ..    .....++..+..  ...+..||.||...+.. .. ..+   +..+++..-+.++-.++|+.+.
T Consensus       295 ~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l  366 (437)
T 4b4t_I          295 NSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHT  366 (437)
T ss_dssp             SCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHh
Confidence               00    112223333322  12234566666554432 21 222   2257788888888888887553

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=97.35  E-value=0.00024  Score=59.76  Aligned_cols=41  Identities=15%  Similarity=0.242  Sum_probs=30.6

Q ss_pred             CceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           23 KLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        23 ~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..++|.+.  +.+.......        ..+.|+|.+|+||||||+.++..
T Consensus        41 ~~i~G~~~~l~~l~~~i~~g--------~~vll~Gp~GtGKTtlar~ia~~   83 (604)
T 3k1j_A           41 DQVIGQEHAVEVIKTAANQK--------RHVLLIGEPGTGKSMLGQAMAEL   83 (604)
T ss_dssp             HHCCSCHHHHHHHHHHHHTT--------CCEEEECCTTSSHHHHHHHHHHT
T ss_pred             ceEECchhhHhhccccccCC--------CEEEEEeCCCCCHHHHHHHHhcc
Confidence            56888887  4444444433        37789999999999999998654

>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=97.33  E-value=0.00011  Score=50.91  Aligned_cols=24  Identities=38%  Similarity=0.462  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+|.|.|++|+||||+|+.+ ....
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~g   25 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KERG   25 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHTT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHCC
Confidence            47889999999999999999 4443

>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=97.30  E-value=0.00012  Score=51.38  Aligned_cols=29  Identities=10%  Similarity=-0.012  Sum_probs=24.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCceEE
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVNFN   77 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~~L   77 (162)
                      .+|.|.|++|+||||+|+.+.......++
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~~~~   32 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPEPWL   32 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCeE
Confidence            47889999999999999999987654443

>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=97.26  E-value=0.00013  Score=50.65  Aligned_cols=25  Identities=16%  Similarity=0.046  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+|.|.|+.|+||||+|+.+.....
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3788999999999999999987643

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.23  E-value=0.0002  Score=50.14  Aligned_cols=22  Identities=36%  Similarity=0.350  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4788999999999999999987

>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=97.22  E-value=0.00021  Score=50.63  Aligned_cols=26  Identities=27%  Similarity=0.197  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -.+++|+|+.|+|||||++.+.....
T Consensus         9 g~~i~l~G~~GsGKSTl~~~La~~~~   34 (191)
T 1zp6_A            9 GNILLLSGHPGSGKSTIAEALANLPG   34 (191)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhccC
Confidence            35899999999999999999988743

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.18  E-value=0.00042  Score=52.99  Aligned_cols=40  Identities=15%  Similarity=0.238  Sum_probs=28.9

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +++..++...  .......++.|.|++|+||||+|+.+....
T Consensus        18 ~~~~~~l~~~--~~~~~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           18 DNLEELIQGK--KAVESPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             HHHHHHHTTC--CCCSSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             HHHHHHhccc--cCCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4455555443  233446788999999999999999998754

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.16  E-value=0.00042  Score=50.18  Aligned_cols=27  Identities=26%  Similarity=0.412  Sum_probs=23.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...+++|+|..|+|||||++.+.....
T Consensus        21 ~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           21 GRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            467999999999999999998876543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.16  E-value=0.0004  Score=49.70  Aligned_cols=21  Identities=33%  Similarity=0.200  Sum_probs=17.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHH
Q 039127           49 FVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      .++.++|..|+||||++..+.
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~   24 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFV   24 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            477899999999999984443

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.14  E-value=0.00024  Score=50.16  Aligned_cols=25  Identities=20%  Similarity=0.151  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..|.|.|+.|+||||+|+.+.....
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4788999999999999999987543

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.14  E-value=0.00033  Score=56.71  Aligned_cols=29  Identities=21%  Similarity=0.146  Sum_probs=24.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ..+-+.++|++|.|||.||+++++.....
T Consensus       205 ~prGiLL~GPPGtGKT~lakAiA~~~~~~  233 (428)
T 4b4t_K          205 PPRGVLLYGPPGTGKTMLVKAVANSTKAA  233 (428)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHHHHTCE
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            35567899999999999999998776544

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.12  E-value=0.00024  Score=51.10  Aligned_cols=26  Identities=23%  Similarity=0.240  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...|.|+|+.|+||||+|+.+.....
T Consensus        25 ~~~i~l~G~~GsGKsTl~~~La~~l~   50 (199)
T 3vaa_A           25 MVRIFLTGYMGAGKTTLGKAFARKLN   50 (199)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            35889999999999999999987654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.11  E-value=0.00023  Score=50.29  Aligned_cols=26  Identities=23%  Similarity=0.300  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+.|.|+|+.|+||||+|+.+.....
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~   30 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTK   30 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            34788999999999999999987654

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.09  E-value=0.00021  Score=49.84  Aligned_cols=25  Identities=20%  Similarity=0.210  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+|+|+|+.|+|||||++.+.....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4689999999999999999988754

>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=97.08  E-value=0.0004  Score=49.14  Aligned_cols=26  Identities=19%  Similarity=0.170  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+|.|.|++|+||||+|+.+.....
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~~l~   30 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALATGLR   30 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46889999999999999999987543

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.08  E-value=0.00064  Score=48.96  Aligned_cols=37  Identities=27%  Similarity=0.258  Sum_probs=27.7

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ++++.+....    .....+++|.|..|+|||||++.+...
T Consensus         9 ~l~~~~~~~~----~~~~~~i~i~G~~GsGKstl~~~l~~~   45 (201)
T 1rz3_A            9 FLCKTILAIK----TAGRLVLGIDGLSRSGKTTLANQLSQT   45 (201)
T ss_dssp             HHHHHHHTSC----CSSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhc----cCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4566665432    134578999999999999999988764

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.08  E-value=0.00051  Score=51.38  Aligned_cols=41  Identities=15%  Similarity=0.101  Sum_probs=29.9

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +++..++...  .......++.++|++|+||||+|+.+.....
T Consensus        17 ~~~~~~~~~~--~~~~~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           17 RNLRSLTRGK--KSSKQPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             HHHHHHHTTC--CCCSSCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             HHHHHHHccC--CcccCCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4445555444  2334467899999999999999999987654

>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=97.08  E-value=0.00038  Score=50.03  Aligned_cols=25  Identities=32%  Similarity=0.319  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++.|+|+.|+|||||++.+....
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4789999999999999999987655

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=97.08  E-value=0.00038  Score=58.56  Aligned_cols=50  Identities=16%  Similarity=0.069  Sum_probs=38.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce--------------------------------------EEEEEeCCCCCChhhH
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN--------------------------------------FNFALDDTWKEKYVDW   91 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------------------------~LlVlDdv~~~~~~~~   91 (162)
                      -+.++|.+|+|||+||+.+++.....                                      -++++|+++..+....
T Consensus       329 ~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~~A~~gil~IDEid~l~~~~q  408 (595)
T 3f9v_A          329 HILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIAVIDEIDKMRDEDR  408 (595)
T ss_dssp             CEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEECSSGGGTSSCSEEECHHHHHSSSEECCTTTTCCCSHHH
T ss_pred             ceEEECCCchHHHHHHHHHHHhCCCceecCCCccccccccceeeeccccccccccCCeeEecCCCcEEeehhhhCCHhHh
Confidence            46799999999999999987654311                                      4789999997777777


Q ss_pred             HHHHhhcc
Q 039127           92 TNMRDLFA   99 (162)
Q Consensus        92 ~~l~~~l~   99 (162)
                      ..|...+.
T Consensus       409 ~~Ll~~le  416 (595)
T 3f9v_A          409 VAIHEAME  416 (595)
T ss_dssp             HHHHHHHH
T ss_pred             hhhHHHHh
Confidence            77776654

>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=97.04  E-value=0.00047  Score=48.24  Aligned_cols=26  Identities=23%  Similarity=0.410  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.++.|+|+.|+||||+++.+....
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            34689999999999999999987654

>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=97.03  E-value=0.00033  Score=49.44  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+|.|.|++|+||||+|+.+....
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999997754

>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=97.03  E-value=0.00067  Score=55.09  Aligned_cols=46  Identities=24%  Similarity=0.268  Sum_probs=33.2

Q ss_pred             CceeeehH------HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           23 KLWLGREE------GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        23 ~~~vGr~~------~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|.+.      .+++.+....     ...+-+.++|++|+|||+||+.+.+...
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~-----~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKK-----MAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTC-----CTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCC-----CCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            68999998      3344444333     2234577999999999999999987654

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.02  E-value=0.00022  Score=51.23  Aligned_cols=25  Identities=20%  Similarity=0.275  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+|.|.|+.|+||||+|+.+....
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3579999999999999999997764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.01  E-value=0.00034  Score=49.84  Aligned_cols=24  Identities=25%  Similarity=0.356  Sum_probs=21.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|+|.|+.|+||||+++.+.....
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            688999999999999999988655

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.01  E-value=0.00035  Score=49.47  Aligned_cols=24  Identities=13%  Similarity=0.232  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|+.|+|||||++.+....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            588999999999999999987654

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.01  E-value=0.0005  Score=49.27  Aligned_cols=28  Identities=25%  Similarity=0.316  Sum_probs=23.8

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ....+|.|.|+.|+||||+|+.+.....
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~~~g   40 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVKDYS   40 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            3467899999999999999999986654

>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=96.98  E-value=0.00053  Score=48.90  Aligned_cols=25  Identities=32%  Similarity=0.236  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...+|+|.|+.|+||||+|+.+...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4678999999999999999999876

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.97  E-value=0.00041  Score=52.04  Aligned_cols=25  Identities=24%  Similarity=0.291  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .++.|+|+.|+||||||+.+.....
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~~   26 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQETG   26 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcCC
Confidence            4788999999999999999986543

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.96  E-value=0.0005  Score=48.54  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+|.|.|+.|+||||+|+.+.....
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~   28 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYG   28 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999876543

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.95  E-value=0.00042  Score=49.80  Aligned_cols=25  Identities=32%  Similarity=0.425  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+++|+|+.|+|||||++.+....
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999997655

>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=96.95  E-value=0.00031  Score=49.49  Aligned_cols=26  Identities=23%  Similarity=0.231  Sum_probs=22.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+.|.|+|++|+||||+|+.+.....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~   36 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSG   36 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhC
Confidence            45788999999999999999986654

>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=96.95  E-value=0.00056  Score=48.49  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|+.|+|||||++.+....
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~~   26 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQL   26 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCcHHHHHHHHhccc
Confidence            478899999999999999998643

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.93  E-value=0.00047  Score=47.97  Aligned_cols=27  Identities=22%  Similarity=0.222  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...+|.|.|+.|+||||+|+.+.....
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHhC
Confidence            467899999999999999999987654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.92  E-value=0.00056  Score=48.18  Aligned_cols=25  Identities=20%  Similarity=0.213  Sum_probs=21.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -..|.+.|+.|+||||+|+.+....
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999997644

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.92  E-value=0.00061  Score=49.08  Aligned_cols=27  Identities=37%  Similarity=0.294  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...+++|.|..|+|||||++.+.....
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            346899999999999999999887543

>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=96.92  E-value=0.0023  Score=49.46  Aligned_cols=25  Identities=16%  Similarity=0.300  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||++.+..-..
T Consensus        81 e~vaivG~sGsGKSTLl~ll~gl~~  105 (306)
T 3nh6_A           81 QTLALVGPSGAGKSTILRLLFRFYD  105 (306)
T ss_dssp             CEEEEESSSCHHHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCchHHHHHHHHHcCCC
Confidence            4889999999999999999976543

>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=96.92  E-value=0.00056  Score=51.39  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+|.|.|++|+||||+|+.+...
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHH
Confidence            468899999999999999999875

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.92  E-value=0.00056  Score=49.02  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..|.|.|+.|+||||+|+.+.....
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l~   29 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWIE   29 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            5789999999999999999987543

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.92  E-value=0.00055  Score=48.96  Aligned_cols=24  Identities=17%  Similarity=0.167  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|+.|+|||||++.+....
T Consensus         8 ~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            8 NLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHHhhC
Confidence            489999999999999999987653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.90  E-value=0.00053  Score=48.61  Aligned_cols=26  Identities=23%  Similarity=0.261  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+|.|.|+.|+||||+|+.+.....
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~   34 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYG   34 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999986553

>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=96.89  E-value=0.00057  Score=48.49  Aligned_cols=24  Identities=29%  Similarity=0.289  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...|.|+|+.|+||||+++.+...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            457899999999999999999887

>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=96.89  E-value=0.00086  Score=48.26  Aligned_cols=26  Identities=35%  Similarity=0.383  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+++|.|..|+||||+|+.+....
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999998865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.89  E-value=0.00075  Score=47.76  Aligned_cols=26  Identities=31%  Similarity=0.267  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...++.+.|++|+||||+++.+....
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45788999999999999999987654

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.89  E-value=0.00055  Score=48.12  Aligned_cols=22  Identities=32%  Similarity=0.514  Sum_probs=18.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -.+++|+|..|+|||||++.++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHc
Confidence            4589999999999999999533

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.89  E-value=0.00058  Score=48.82  Aligned_cols=24  Identities=25%  Similarity=0.470  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|+.|+||||+++.+....
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            588999999999999999987655

>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=96.88  E-value=0.00066  Score=49.19  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -.+++|+|+.|+|||||++.+.....
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            45899999999999999999987654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.88  E-value=0.00038  Score=50.17  Aligned_cols=25  Identities=20%  Similarity=0.206  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++.|+|++|+|||||++.+....
T Consensus        12 ~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           12 IPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            4578899999999999999987655

>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=96.88  E-value=0.00065  Score=48.67  Aligned_cols=27  Identities=19%  Similarity=0.330  Sum_probs=22.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ....|.|.|++|+||||+|+.+.....
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l~   45 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKLG   45 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345889999999999999999987543

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=96.88  E-value=0.0057  Score=48.33  Aligned_cols=50  Identities=14%  Similarity=0.098  Sum_probs=39.3

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce--------------------------------------------EEEEEeCCCCC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN--------------------------------------------FNFALDDTWKE   86 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~--------------------------------------------~LlVlDdv~~~   86 (162)
                      +.|+|.+|.||+.+|+.++......                                            -.|+||++.+.
T Consensus       155 vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~lfg~~~g~~tga~~~~~g~~~~a~~gtlfldei~~l  234 (368)
T 3dzd_A          155 VLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESELFGHEKGAFTGALTRKKGKLELADQGTLFLDEVGEL  234 (368)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHHHHEECSCSSSSCCCCEECHHHHTTTSEEEEETGGGS
T ss_pred             heEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHHhcCccccccCCcccccCChHhhcCCCeEEecChhhC
Confidence            5589999999999999987542211                                            25899999988


Q ss_pred             ChhhHHHHHhhccc
Q 039127           87 KYVDWTNMRDLFAA  100 (162)
Q Consensus        87 ~~~~~~~l~~~l~~  100 (162)
                      +......|...+..
T Consensus       235 ~~~~Q~~Ll~~l~~  248 (368)
T 3dzd_A          235 DQRVQAKLLRVLET  248 (368)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHh
Confidence            88888888887754

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.88  E-value=0.00037  Score=48.93  Aligned_cols=29  Identities=28%  Similarity=0.167  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCceE
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVNF   76 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~~   76 (162)
                      ..+|.|.|+.|+||||+|+.+.......+
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~~~~   33 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLPGSF   33 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHSTTCE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCE
Confidence            35789999999999999999987655433

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.87  E-value=0.00048  Score=48.97  Aligned_cols=25  Identities=32%  Similarity=0.307  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+|+|.|+.|+||||+|+.+.....
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~l~   37 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEKYG   37 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5799999999999999999987643

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.87  E-value=0.00049  Score=48.23  Aligned_cols=25  Identities=36%  Similarity=0.440  Sum_probs=21.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .|.|.|++|+||||+|+.+......
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~   30 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDL   30 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            5889999999999999999876543

>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=96.87  E-value=0.00059  Score=48.92  Aligned_cols=21  Identities=29%  Similarity=0.262  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +|+|.|+.|+||||+++.+..
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999999987

>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=96.87  E-value=0.00039  Score=49.03  Aligned_cols=24  Identities=21%  Similarity=0.297  Sum_probs=21.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +|.|.|++|+||||+|+.+.....
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg   27 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALG   27 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999987643

>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=96.85  E-value=0.00087  Score=47.20  Aligned_cols=26  Identities=27%  Similarity=0.279  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+|.|.|+.|+||||+|+.+.....
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~   31 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999999999999999987543

>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=96.85  E-value=0.00062  Score=49.52  Aligned_cols=24  Identities=29%  Similarity=0.270  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+|+|+|+.|+||||+|+.+....
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999887643

>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=96.85  E-value=0.00077  Score=48.44  Aligned_cols=22  Identities=32%  Similarity=0.404  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .+++|.|+.|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999976

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.83  E-value=0.00062  Score=47.16  Aligned_cols=24  Identities=25%  Similarity=0.216  Sum_probs=21.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|.|.|+.|+||||+|+.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~   25 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLN   25 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999987644

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.83  E-value=0.00063  Score=48.05  Aligned_cols=23  Identities=39%  Similarity=0.579  Sum_probs=20.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +|+|.|+.|+||||+|+.+....
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998754

>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=96.81  E-value=0.00051  Score=47.80  Aligned_cols=25  Identities=24%  Similarity=0.182  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+|.|.|+.|+||||+|+.+.....
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg   27 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALG   27 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhC
Confidence            3688999999999999999987654

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=96.81  E-value=0.0078  Score=41.43  Aligned_cols=25  Identities=24%  Similarity=0.196  Sum_probs=21.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ....|+++|.+|+|||||...+.+.
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~   31 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHS   31 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4557889999999999999998653

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=96.80  E-value=0.00082  Score=52.16  Aligned_cols=25  Identities=28%  Similarity=0.438  Sum_probs=20.2

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .+.++|+|.|-||+||||.|..+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~   70 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSA   70 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCccCHHHHHHHHHH
Confidence            4578999999999999998765543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=96.80  E-value=0.0026  Score=43.92  Aligned_cols=26  Identities=27%  Similarity=0.468  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|.+|+|||||...+.+..
T Consensus         8 ~~~~i~v~G~~~~GKssl~~~l~~~~   33 (181)
T 3tw8_B            8 HLFKLLIIGDSGVGKSSLLLRFADNT   33 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHCSCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCC
Confidence            45567899999999999999987654

>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=96.78  E-value=0.00079  Score=49.92  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+++|+|+.|+|||||++.+...
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~   50 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQN   50 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            458999999999999999999843

>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=96.77  E-value=0.00079  Score=47.88  Aligned_cols=21  Identities=33%  Similarity=0.352  Sum_probs=18.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .++|+|..|+|||||++.+..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g   22 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVE   22 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999988753

>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=96.77  E-value=0.00075  Score=49.08  Aligned_cols=26  Identities=23%  Similarity=0.244  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...|.|.|++|+||||+|+.+.....
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~   29 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFH   29 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            35788999999999999999987654

>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=96.75  E-value=0.001  Score=50.98  Aligned_cols=27  Identities=26%  Similarity=0.373  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....+|+|.|..|+||||||+.+....
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999998876544

>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=96.75  E-value=0.00094  Score=49.77  Aligned_cols=28  Identities=21%  Similarity=0.264  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ....+|+|.|..|+||||+|+.+.....
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3457899999999999999999987544

>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=96.74  E-value=0.001  Score=46.73  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.++.|.|+.|+||||+++.+....
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4678899999999999999987753

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.73  E-value=0.00074  Score=49.42  Aligned_cols=26  Identities=23%  Similarity=0.294  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...|.|.|+.|+||||+|+.+.....
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~   32 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFE   32 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcC
Confidence            35789999999999999999987654

>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=96.73  E-value=0.00088  Score=47.80  Aligned_cols=24  Identities=25%  Similarity=0.382  Sum_probs=22.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..|+|.|+.|+||||+++.+....
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            578999999999999999999876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.72  E-value=0.00081  Score=48.30  Aligned_cols=24  Identities=21%  Similarity=0.134  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+|+|.|+.|+||||+|+.+...
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            468999999999999999998764

>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=96.71  E-value=0.0051  Score=49.39  Aligned_cols=27  Identities=19%  Similarity=0.169  Sum_probs=23.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...+|.|+|++|+||||+|+.+..+..
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~~  283 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSAG  283 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGGT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcC
Confidence            467899999999999999999987653

>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=96.71  E-value=0.00094  Score=48.02  Aligned_cols=24  Identities=17%  Similarity=0.221  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+|+|.|+.|+||||+|+.+...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~   32 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEA   32 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            358899999999999999998864

>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=96.70  E-value=0.0025  Score=55.38  Aligned_cols=97  Identities=12%  Similarity=0.034  Sum_probs=53.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCCC-------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKEK-------   87 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~~-------   87 (162)
                      .+-+.++|++|.|||.||+++++.....                                 ++|++|+++..-       
T Consensus       511 ~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~  590 (806)
T 3cf2_A          511 SKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNI  590 (806)
T ss_dssp             CSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC-------
T ss_pred             CceEEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccchHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCC
Confidence            4456799999999999999999887654                                 899999986320       


Q ss_pred             ---h----hhHHHHHhhccccC--CCcEEEEecCChhh-Hh-hhC---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           88 ---Y----VDWTNMRDLFAAVA--SRSKVIVTTRNQGV-AS-IMG---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        88 ---~----~~~~~l~~~l~~~~--~gs~iiiTTR~~~v-~~-~~~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                         .    .....|+..+....  .+--||.||...+. -. .+.   -...+.+..-+.++-.++|+.+.
T Consensus       591 ~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l  661 (806)
T 3cf2_A          591 GDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL  661 (806)
T ss_dssp             -------CHHHHHHHHHHHSSCSSSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTS
T ss_pred             CCCchHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHh
Confidence               0    01233443333222  22233335544332 11 122   23467787777777778887654

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.69  E-value=0.0011  Score=48.88  Aligned_cols=30  Identities=27%  Similarity=0.241  Sum_probs=25.2

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+.++|.|.|++|+||+|.|+.+.......
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~g~~   56 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKFHFN   56 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHHCCE
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHCCc
Confidence            457899999999999999999998776543

>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=96.69  E-value=0.0005  Score=49.49  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=20.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +|+|.|..|+||||+|+.+....
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68899999999999999987654

>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=96.68  E-value=0.003  Score=49.83  Aligned_cols=65  Identities=12%  Similarity=0.036  Sum_probs=43.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC----ce-------------------------------------------EEEEEe
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT----VN-------------------------------------------FNFALD   81 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~----~~-------------------------------------------~LlVlD   81 (162)
                      .++.|+|..|+|||||.+.+.....    ..                                           =++++|
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~PdvillD  203 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDIILVG  203 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEEEES
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEEecC
Confidence            4899999999999999988743221    11                                           467788


Q ss_pred             CCCCCChhhHHHHHhhccccCCCcEEEEecCChhhHh
Q 039127           82 DTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVAS  118 (162)
Q Consensus        82 dv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~  118 (162)
                      ...  +.+.++.+....   ..|..+|+|+...+.+.
T Consensus       204 Ep~--d~e~~~~~~~~~---~~G~~vl~t~H~~~~~~  235 (356)
T 3jvv_A          204 EMR--DLETIRLALTAA---ETGHLVFGTLHTTSAAK  235 (356)
T ss_dssp             CCC--SHHHHHHHHHHH---HTTCEEEEEESCSSHHH
T ss_pred             CCC--CHHHHHHHHHHH---hcCCEEEEEEccChHHH
Confidence            887  666655544432   23556888887765543

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.67  E-value=0.00092  Score=48.31  Aligned_cols=23  Identities=26%  Similarity=0.443  Sum_probs=19.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|.|.|+.|+||||+|+.+....
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            47899999999999999986654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.67  E-value=0.00079  Score=48.48  Aligned_cols=22  Identities=18%  Similarity=0.341  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +.++|+|+.|+|||||++.+..
T Consensus         5 ~~i~lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            5 RPVVLSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            4789999999999999998875

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=96.67  E-value=0.0038  Score=43.66  Aligned_cols=24  Identities=21%  Similarity=0.174  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-.|+++|.+|+|||||...+.+.
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcC
Confidence            455779999999999999998765

>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=96.66  E-value=0.00099  Score=48.20  Aligned_cols=24  Identities=17%  Similarity=0.351  Sum_probs=20.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|.|.|++|+||||+|+.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~   25 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYG   25 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999976553

>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=96.64  E-value=0.019  Score=40.03  Aligned_cols=25  Identities=20%  Similarity=0.278  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+.+..
T Consensus        16 ~~~i~v~G~~~~GKssl~~~l~~~~   40 (187)
T 1zj6_A           16 EHKVIIVGLDNAGKTTILYQFSMNE   40 (187)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567899999999999999998543

>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=96.63  E-value=0.0012  Score=47.67  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||++.+..-.
T Consensus        21 ei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           21 RVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            489999999999999999987654

>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=96.63  E-value=0.0014  Score=47.42  Aligned_cols=25  Identities=24%  Similarity=0.300  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+|.|.|+.|+||||+++.+....
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4688999999999999999987654

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.62  E-value=0.00087  Score=48.80  Aligned_cols=25  Identities=24%  Similarity=0.290  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..|.|.|++|+||||+|+.+.....
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~   30 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYG   30 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4688999999999999999987654

>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=96.61  E-value=0.0039  Score=45.04  Aligned_cols=24  Identities=17%  Similarity=0.135  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      --|+++|.+|+|||+|...+.+..
T Consensus        28 ~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           28 CKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            456799999999999999987553

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.61  E-value=0.00083  Score=48.93  Aligned_cols=26  Identities=19%  Similarity=0.134  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...|.|.|+.|+||||+|+.+.....
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35788999999999999999987654

>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=96.61  E-value=0.0016  Score=50.44  Aligned_cols=26  Identities=23%  Similarity=0.171  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ....+++|.|..|+|||||++.+..-
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhh
Confidence            34679999999999999999988763

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.58  E-value=0.0013  Score=49.14  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+|+|.|+.|+||||+++.+...
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHh
Confidence            358999999999999999999844

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.57  E-value=0.0016  Score=48.22  Aligned_cols=24  Identities=25%  Similarity=0.278  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+++|.|..|+|||||++.+...
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988764

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.57  E-value=0.00091  Score=48.09  Aligned_cols=24  Identities=25%  Similarity=0.342  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|+|+|+.|+|||||++.+....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            347799999999999999987654

>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=96.56  E-value=0.0017  Score=49.41  Aligned_cols=24  Identities=33%  Similarity=0.706  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ...+|+|.|+.|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999873

>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=96.56  E-value=0.0016  Score=47.23  Aligned_cols=23  Identities=26%  Similarity=0.219  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -.+++|+|..|+|||||++.+..
T Consensus        25 G~~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           25 QAITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999975

>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=96.55  E-value=0.0092  Score=41.29  Aligned_cols=24  Identities=29%  Similarity=0.375  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...|+++|.+|+|||||...+...
T Consensus        18 ~~~i~v~G~~~~GKssli~~l~~~   41 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRLQIG   41 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            456779999999999999998743

>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=96.54  E-value=0.0015  Score=48.58  Aligned_cols=26  Identities=23%  Similarity=0.190  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|.|.|++|+||||+|+.+....
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            35688999999999999999997654

>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=96.53  E-value=0.023  Score=38.64  Aligned_cols=25  Identities=28%  Similarity=0.379  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|.++|.+|+|||||...+....
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3567899999999999999987543

>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=96.52  E-value=0.0014  Score=46.41  Aligned_cols=26  Identities=23%  Similarity=0.181  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+++.|.|..|+|||||+..+....
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhh
Confidence            35689999999999999998887653

>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=96.52  E-value=0.002  Score=46.38  Aligned_cols=26  Identities=27%  Similarity=0.316  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..-.+|+|.|+.|+||||+|+.+...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            34678999999999999999999876

>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=96.52  E-value=0.0014  Score=47.59  Aligned_cols=26  Identities=19%  Similarity=0.342  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+.++|+|+.|+|||||++.+....
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            34688999999999999999988654

>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=96.50  E-value=0.0043  Score=43.66  Aligned_cols=24  Identities=29%  Similarity=0.407  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      --|+|+|.+|+|||||...+.+..
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCcCHHHHHHHHhcCC
Confidence            457799999999999999987654

>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=96.50  E-value=0.0017  Score=47.05  Aligned_cols=23  Identities=26%  Similarity=0.398  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999976

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.49  E-value=0.0036  Score=48.70  Aligned_cols=27  Identities=19%  Similarity=0.112  Sum_probs=23.0

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....+++|.|..|+|||||++.+....
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999886543

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.48  E-value=0.0013  Score=48.02  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||++.+....
T Consensus        24 ~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           24 YPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhC
Confidence            478999999999999999987644

>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=96.48  E-value=0.002  Score=44.92  Aligned_cols=25  Identities=20%  Similarity=0.194  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.+++|+|..|+|||||++.+..-.
T Consensus        33 Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            3589999999999999999987654

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.47  E-value=0.002  Score=46.65  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ....++|+|.+|+|||||+..+...
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3678889999999999999888755

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=96.46  E-value=0.0043  Score=44.57  Aligned_cols=25  Identities=20%  Similarity=0.130  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..-|+++|.+|+|||||...+....
T Consensus        28 ~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           28 KCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567899999999999999987653

>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=96.46  E-value=0.0018  Score=49.26  Aligned_cols=23  Identities=35%  Similarity=0.342  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+|.|.|++|+||||+|+.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            47889999999999999999874

>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=96.45  E-value=0.0018  Score=49.99  Aligned_cols=25  Identities=24%  Similarity=0.272  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...+++|+|..|+|||||++.+...
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagl  125 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRY  125 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            3569999999999999999988754

>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=96.45  E-value=0.0077  Score=42.62  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..-|+++|.+|+|||+|.+.+.+..
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~~   44 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHKM   44 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhcC
Confidence            3456799999999999999877653

>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=96.45  E-value=0.013  Score=40.73  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...|.++|..|+|||||...+.+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~~~   46 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMNEV   46 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTTSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCC
Confidence            44677999999999999999986543

>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=96.45  E-value=0.0054  Score=44.81  Aligned_cols=23  Identities=17%  Similarity=0.226  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.|+|-+|+|||+|...+.+..
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCcCHHHHHHHHHhCC
Confidence            36699999999999999887544

>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=96.44  E-value=0.0059  Score=41.58  Aligned_cols=24  Identities=17%  Similarity=0.338  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.|.++|.+|+|||||...+.+..
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            457799999999999999987654

>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=96.43  E-value=0.0018  Score=46.91  Aligned_cols=24  Identities=21%  Similarity=0.194  Sum_probs=20.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|.|.|+.|+||||+|+.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g   25 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYG   25 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999977543

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.43  E-value=0.0016  Score=47.63  Aligned_cols=24  Identities=33%  Similarity=0.350  Sum_probs=20.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .|.|.|+.|+||||+|+.+.....
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg   25 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYS   25 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            578999999999999999987643

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=96.43  E-value=0.0072  Score=42.36  Aligned_cols=26  Identities=27%  Similarity=0.425  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|.|+|..|+|||||...+.+..
T Consensus        15 ~~~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           15 YLFKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            34567899999999999999988654

>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=96.42  E-value=0.0017  Score=47.75  Aligned_cols=26  Identities=19%  Similarity=0.170  Sum_probs=22.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...|.|.|+.|+||||+|+.+.....
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35788999999999999999987654

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.40  E-value=0.0035  Score=49.54  Aligned_cols=26  Identities=23%  Similarity=0.203  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....+.|+|+.|+||||+++.++...
T Consensus        23 ~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A           23 YRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            45678899999999999999887654

>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=96.40  E-value=0.006  Score=41.50  Aligned_cols=23  Identities=17%  Similarity=0.208  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||||...+.+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~~   26 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGVE   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC-
T ss_pred             EEEEECCCCCCHHHHHHHHcCcc
Confidence            46799999999999999986543

>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=96.40  E-value=0.009  Score=41.01  Aligned_cols=26  Identities=27%  Similarity=0.236  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|.++|.+|+|||||...+.+..
T Consensus        14 ~~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           14 YIFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCC
Confidence            34567899999999999999987654

>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=96.40  E-value=0.002  Score=46.03  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=21.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +|+|.|..|+||||+|+.+.....
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg   27 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALG   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcC
Confidence            789999999999999999877543

>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=96.39  E-value=0.0019  Score=47.46  Aligned_cols=26  Identities=8%  Similarity=0.115  Sum_probs=22.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -.+++|+|+.|+|||||.+.+.....
T Consensus        16 G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           16 GTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCC
Confidence            45899999999999999999876543

>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=96.38  E-value=0.018  Score=40.36  Aligned_cols=25  Identities=20%  Similarity=0.248  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+|+|.+|+|||||...+.+..
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcCC
Confidence            4467899999999999999987544

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.38  E-value=0.0014  Score=49.20  Aligned_cols=25  Identities=28%  Similarity=0.278  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..|+|+|+.|+||||+++.+.....
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcC
Confidence            3789999999999999999987554

>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=96.38  E-value=0.0054  Score=43.19  Aligned_cols=25  Identities=24%  Similarity=0.356  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+++|.+|+|||||...+.+..
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            4467899999999999999988654

>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=96.36  E-value=0.027  Score=38.92  Aligned_cols=26  Identities=15%  Similarity=0.479  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..-.|.++|.+|+|||||...+.+..
T Consensus        17 ~~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           17 PTYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCC
Confidence            34567899999999999999988654

>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=96.36  E-value=0.0056  Score=51.26  Aligned_cols=59  Identities=14%  Similarity=0.129  Sum_probs=41.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC-----ce--------------------------------------------EEEE
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT-----VN--------------------------------------------FNFA   79 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~-----~~--------------------------------------------~LlV   79 (162)
                      +++.|.|.+|.||||++..+.....     +.                                            -++|
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~~~~~~~~~~~~~~~~dvlI  284 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVHRLLGYGPQGFRHNHLEPAPYDLLI  284 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHTSCEEEHHHHTTEETTEESCSSSSCCSCSEEE
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecCcHHHHHHhHhhhcccHHHHHHHHcCCcchhhhhhcccccCCEEE
Confidence            3788999999999999887754221     10                                            2689


Q ss_pred             EeCCCCCChhhHHHHHhhccccCCCcEEEEe
Q 039127           80 LDDTWKEKYVDWTNMRDLFAAVASRSKVIVT  110 (162)
Q Consensus        80 lDdv~~~~~~~~~~l~~~l~~~~~gs~iiiT  110 (162)
                      +|.+...+...+..+...++   .+.++|+.
T Consensus       285 IDEasml~~~~~~~Ll~~~~---~~~~lilv  312 (574)
T 3e1s_A          285 VDEVSMMGDALMLSLLAAVP---PGARVLLV  312 (574)
T ss_dssp             ECCGGGCCHHHHHHHHTTSC---TTCEEEEE
T ss_pred             EcCccCCCHHHHHHHHHhCc---CCCEEEEE
Confidence            99987666777777766654   45566654

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.35  E-value=0.0025  Score=46.01  Aligned_cols=25  Identities=28%  Similarity=0.337  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ....++|+|.+|+|||||+..+...
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            4678999999999999999888755

>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=96.34  E-value=0.003  Score=46.80  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=21.6

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ....++.+.|.||+||||++..+...
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~   37 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRY   37 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHH
Confidence            34678889999999999999888743

>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=96.33  E-value=0.0019  Score=47.10  Aligned_cols=26  Identities=23%  Similarity=0.377  Sum_probs=22.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +|.|.|++|+||+|.|+.+.......
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g~~   27 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKGFV   27 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCe
Confidence            57899999999999999998776543

>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=96.32  E-value=0.01  Score=41.48  Aligned_cols=24  Identities=17%  Similarity=0.607  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.|.++|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            457799999999999999997654

>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=96.32  E-value=0.0027  Score=48.84  Aligned_cols=26  Identities=23%  Similarity=0.162  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+++|.|..|+|||||++.+....
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            35799999999999999999988743

>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=96.32  E-value=0.0077  Score=42.20  Aligned_cols=25  Identities=24%  Similarity=0.396  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+|+|.+|+|||||...+....
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            4567899999999999999987654

>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=96.32  E-value=0.0025  Score=45.86  Aligned_cols=23  Identities=30%  Similarity=0.154  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -.++.|+|.+|+|||||+..+..
T Consensus        20 G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           20 GVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35889999999999999999876

>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=96.31  E-value=0.0098  Score=41.53  Aligned_cols=24  Identities=33%  Similarity=0.498  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..|+++|.+|+|||||...+.+..
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            467899999999999999987654

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.31  E-value=0.0016  Score=46.16  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ++++|+|..|+|||||++.+..-
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999888654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.30  E-value=0.0015  Score=47.82  Aligned_cols=23  Identities=22%  Similarity=0.338  Sum_probs=15.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHH-cc
Q 039127           49 FVIPIIGMGGSGNTTPALPVY-ND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~-~~   71 (162)
                      .+++|+|+.|+|||||++.+. ..
T Consensus        28 ~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           28 VILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEEEEECSCC----CHHHHHHC--
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            589999999999999999998 43

>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=96.29  E-value=0.0055  Score=42.39  Aligned_cols=24  Identities=17%  Similarity=0.250  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.|+++|.+|+|||||...+....
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCC
Confidence            356799999999999999887543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.28  E-value=0.0033  Score=49.28  Aligned_cols=26  Identities=12%  Similarity=0.257  Sum_probs=23.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+|.|+|+.|+|||+||..++....
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCC
Confidence            35899999999999999999998775

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.28  E-value=0.011  Score=49.64  Aligned_cols=25  Identities=24%  Similarity=0.226  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       382 ~~~~ivG~sGsGKSTll~~l~g~~~  406 (598)
T 3qf4_B          382 QKVALVGPTGSGKTTIVNLLMRFYD  406 (598)
T ss_dssp             CEEEEECCTTSSTTHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCcC
Confidence            5889999999999999999976543

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.27  E-value=0.0032  Score=42.60  Aligned_cols=24  Identities=13%  Similarity=0.238  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|.++|.+|+|||||...+.+..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            467899999999999999987654

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.26  E-value=0.0026  Score=47.41  Aligned_cols=26  Identities=12%  Similarity=0.013  Sum_probs=22.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.+..-...
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~~p   50 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIVKP   50 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            58999999999999999999876543

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.25  E-value=0.0027  Score=49.87  Aligned_cols=34  Identities=26%  Similarity=0.264  Sum_probs=26.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDT   83 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv   83 (162)
                      .+|+|.|+.|+||||||..+...... .++-.|+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~-~iis~Ds~   41 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNG-EIISGDSM   41 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTE-EEEECCSS
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCC-ceeccccc
Confidence            58999999999999999999887652 33444554

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.25  E-value=0.0024  Score=47.36  Aligned_cols=27  Identities=22%  Similarity=0.180  Sum_probs=23.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+++|+|..|+|||||.+.+..-.+..
T Consensus        32 e~~~iiG~nGsGKSTLl~~l~Gl~~p~   58 (235)
T 3tif_A           32 EFVSIMGPSGSGKSTMLNIIGCLDKPT   58 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC
Confidence            488999999999999999998765443

>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=96.24  E-value=0.0047  Score=48.46  Aligned_cols=26  Identities=23%  Similarity=0.311  Sum_probs=22.0

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ....+|+|+|.+|+|||||+..+...
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~~  102 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGMH  102 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            35678999999999999999887643

>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=96.24  E-value=0.013  Score=41.23  Aligned_cols=25  Identities=16%  Similarity=0.276  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.|+|+|..|+|||||...+.+..
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4467899999999999999987654

>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=96.22  E-value=0.0041  Score=42.79  Aligned_cols=23  Identities=22%  Similarity=0.339  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..++++|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46889999999999999999864

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.22  E-value=0.0029  Score=49.31  Aligned_cols=25  Identities=20%  Similarity=0.256  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +++.|+|+.|+||||||+.+.....
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~   30 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALP   30 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5789999999999999999988765

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.22  E-value=0.003  Score=45.65  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .++.|.|.+|+|||||++.+...
T Consensus        24 ~~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           24 FFIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHH
Confidence            58889999999999999988743

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.21  E-value=0.0025  Score=46.85  Aligned_cols=26  Identities=27%  Similarity=0.235  Sum_probs=22.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.+..-...
T Consensus        31 e~~~iiG~nGsGKSTLl~~l~Gl~~p   56 (224)
T 2pcj_A           31 EFVSIIGASGSGKSTLLYILGLLDAP   56 (224)
T ss_dssp             CEEEEEECTTSCHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            48899999999999999999876543

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.21  E-value=0.0024  Score=45.84  Aligned_cols=22  Identities=23%  Similarity=0.164  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      +++|+|..|+|||||++.+...
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            6789999999999999888754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.21  E-value=0.0034  Score=48.36  Aligned_cols=26  Identities=31%  Similarity=0.328  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+++|+|..|+||||+++.++...
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999887653

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=96.20  E-value=0.0061  Score=43.54  Aligned_cols=25  Identities=16%  Similarity=0.247  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.|+++|.+|+|||||...+.+..
T Consensus        30 ~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           30 AIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3456799999999999998887543

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=96.19  E-value=0.0034  Score=44.45  Aligned_cols=25  Identities=20%  Similarity=0.399  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...++|+|..|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4578899999999999999987654

>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=96.18  E-value=0.023  Score=38.82  Aligned_cols=25  Identities=20%  Similarity=0.361  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.|+++|.+|+|||||...+....
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            3467899999999999999987654

>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=96.18  E-value=0.0029  Score=48.57  Aligned_cols=25  Identities=24%  Similarity=0.191  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...++.++|.+|+||||++..+...
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~  128 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAI  128 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999887643

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.18  E-value=0.0026  Score=46.39  Aligned_cols=22  Identities=27%  Similarity=0.308  Sum_probs=20.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      +++|+|..|+|||||.+.+..-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            8899999999999999988754

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=96.18  E-value=0.0054  Score=42.78  Aligned_cols=25  Identities=20%  Similarity=0.260  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ....|+++|.+|+|||||...+...
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3467889999999999999999874

>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=96.17  E-value=0.0027  Score=47.23  Aligned_cols=26  Identities=15%  Similarity=0.263  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+++|.|++|+||||+|+.+.....
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg   34 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALG   34 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35899999999999999999976543

>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=96.17  E-value=0.023  Score=40.01  Aligned_cols=25  Identities=20%  Similarity=0.287  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||+|...+....
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~~~   53 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKLGE   53 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCSSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhCC
Confidence            4557899999999999999986543

>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=96.14  E-value=0.0043  Score=48.41  Aligned_cols=27  Identities=33%  Similarity=0.395  Sum_probs=22.7

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....+++|+|..|+||||+++.+....
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            356899999999999999998887543

>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=96.14  E-value=0.007  Score=42.52  Aligned_cols=25  Identities=24%  Similarity=0.385  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..-|.++|..|+|||+|...+.+..
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~~   42 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYANDA   42 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3467899999999999999987653

>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=96.14  E-value=0.0034  Score=45.84  Aligned_cols=22  Identities=14%  Similarity=0.093  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .++.|+|.+|+|||||+..+..
T Consensus        25 ~~~~i~G~~GsGKTtl~~~l~~   46 (243)
T 1n0w_A           25 SITEMFGEFRTGKTQICHTLAV   46 (243)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            5889999999999999998876

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=96.13  E-value=0.0028  Score=44.44  Aligned_cols=22  Identities=32%  Similarity=0.416  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -|+|+|.+|+|||||.+.+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4679999999999999998763

>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=96.13  E-value=0.0044  Score=47.87  Aligned_cols=27  Identities=30%  Similarity=0.385  Sum_probs=22.5

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....++.|+|.+|+||||++..++...
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l  128 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMF  128 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHH
Confidence            346799999999999999998877543

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.12  E-value=0.013  Score=41.45  Aligned_cols=26  Identities=19%  Similarity=0.262  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|.+|+|||||...+.+..
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            34567899999999999999987654

>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=96.12  E-value=0.0032  Score=44.69  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+++.|.|..|+|||||+..+...
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHh
Confidence            568999999999999999888764

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.12  E-value=0.0031  Score=46.83  Aligned_cols=25  Identities=12%  Similarity=0.348  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl~~   56 (237)
T 2cbz_A           32 ALVAVVGQVGCGKSSLLSALLAEMD   56 (237)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTCSE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4889999999999999999976553

>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=96.11  E-value=0.0036  Score=42.34  Aligned_cols=23  Identities=17%  Similarity=0.560  Sum_probs=19.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|.++|.+|+|||||...+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47799999999999999987654

>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=96.11  E-value=0.0058  Score=49.53  Aligned_cols=21  Identities=29%  Similarity=0.354  Sum_probs=18.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .+.|.|.+|+|||+++..+..
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~   67 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIE   67 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            788999999999999877653

>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=96.11  E-value=0.015  Score=39.53  Aligned_cols=22  Identities=27%  Similarity=0.398  Sum_probs=19.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      --|+++|.+|+|||||...+..
T Consensus         3 ~ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            3 FKVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3578999999999999999864

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=96.10  E-value=0.012  Score=41.95  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+++|.+|+|||+|...+.+..
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~~   33 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSNK   33 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            4457899999999999999887543

>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=96.10  E-value=0.025  Score=38.78  Aligned_cols=25  Identities=24%  Similarity=0.486  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+.+..
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            4567899999999999999987543

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=96.09  E-value=0.0037  Score=46.08  Aligned_cols=26  Identities=15%  Similarity=-0.037  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...|+|.|..|+||||+++.+.....
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            35789999999999999999988763

>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=96.09  E-value=0.0051  Score=41.81  Aligned_cols=25  Identities=12%  Similarity=0.219  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.|.++|.+|+|||||...+.+..
T Consensus         5 ~~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            5 AIKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            4457799999999999999987643

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.09  E-value=0.0031  Score=47.52  Aligned_cols=26  Identities=35%  Similarity=0.270  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.+..-...
T Consensus        33 e~~~liG~nGsGKSTLlk~l~Gl~~p   58 (262)
T 1b0u_A           33 DVISIIGSSGSGKSTFLRCINFLEKP   58 (262)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            48899999999999999999876543

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.08  E-value=0.0037  Score=46.74  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+++|+|..|+|||||.+.+..-
T Consensus        30 e~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           30 EVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48899999999999999999985

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=96.08  E-value=0.011  Score=49.33  Aligned_cols=25  Identities=20%  Similarity=0.250  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       368 ~~~~ivG~sGsGKSTll~~l~g~~~  392 (578)
T 4a82_A          368 ETVAFVGMSGGGKSTLINLIPRFYD  392 (578)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             CEEEEECCCCChHHHHHHHHhcCCC
Confidence            4889999999999999998865543

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.07  E-value=0.0032  Score=47.88  Aligned_cols=24  Identities=25%  Similarity=0.177  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||.+.+..-.
T Consensus        35 e~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           35 EVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            488999999999999999997644

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.07  E-value=0.0037  Score=46.00  Aligned_cols=27  Identities=30%  Similarity=0.186  Sum_probs=22.4

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....+|+|.|+.|+||||+++.+....
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            345689999999999999999887643

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.06  E-value=0.0034  Score=46.65  Aligned_cols=26  Identities=23%  Similarity=0.380  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.++.-.+.
T Consensus        33 e~~~l~G~nGsGKSTLl~~l~Gl~~p   58 (240)
T 1ji0_A           33 QIVTLIGANGAGKTTTLSAIAGLVRA   58 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            48899999999999999999876543

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=96.06  E-value=0.0036  Score=44.49  Aligned_cols=25  Identities=20%  Similarity=0.399  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...++|+|..|+|||||.+.+....
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            4567899999999999999987653

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=96.05  E-value=0.024  Score=44.96  Aligned_cols=50  Identities=14%  Similarity=0.108  Sum_probs=38.7

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce---------------------------------------------EEEEEeCCCC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN---------------------------------------------FNFALDDTWK   85 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------------------~LlVlDdv~~   85 (162)
                      +.|.|..|+|||++|+.++......                                             =.|+||++..
T Consensus       163 vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~~~elfg~~~g~~tga~~~~~g~~~~a~~gtlfldei~~  242 (387)
T 1ny5_A          163 VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGE  242 (387)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSCBCCHHHHTTTSEEEEESGGG
T ss_pred             eEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHHHHhcCCCCCCCCCcccccCCceeeCCCcEEEEcChhh
Confidence            3799999999999999987543211                                             2678999988


Q ss_pred             CChhhHHHHHhhccc
Q 039127           86 EKYVDWTNMRDLFAA  100 (162)
Q Consensus        86 ~~~~~~~~l~~~l~~  100 (162)
                      .+......|...+..
T Consensus       243 l~~~~q~~Ll~~l~~  257 (387)
T 1ny5_A          243 LSLEAQAKLLRVIES  257 (387)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhc
Confidence            788888888877653

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.05  E-value=0.0038  Score=46.47  Aligned_cols=25  Identities=20%  Similarity=0.153  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~Gl~~   53 (243)
T 1mv5_A           29 SIIAFAGPSGGGKSTIFSLLERFYQ   53 (243)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            5899999999999999999987654

>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=96.05  E-value=0.0041  Score=45.85  Aligned_cols=27  Identities=33%  Similarity=0.278  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .-..|+|.|+.|+||||+++.+.....
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            346889999999999999999887654

>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=96.05  E-value=0.0034  Score=46.08  Aligned_cols=26  Identities=31%  Similarity=0.147  Sum_probs=22.8

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..-.+++|.|..|+|||||++.+...
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            34578999999999999999998876

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.05  E-value=0.0034  Score=47.12  Aligned_cols=26  Identities=31%  Similarity=0.208  Sum_probs=22.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.+..-...
T Consensus        34 e~~~liG~nGsGKSTLlk~l~Gl~~p   59 (257)
T 1g6h_A           34 DVTLIIGPNGSGKSTLINVITGFLKA   59 (257)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            48899999999999999999876553

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.04  E-value=0.0034  Score=47.48  Aligned_cols=25  Identities=24%  Similarity=0.291  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||++.+..-.+
T Consensus        38 e~~~liG~nGsGKSTLl~~l~Gl~~   62 (266)
T 4g1u_C           38 EMVAIIGPNGAGKSTLLRLLTGYLS   62 (266)
T ss_dssp             CEEEEECCTTSCHHHHHHHHTSSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCC
Confidence            4889999999999999999986543

>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=96.04  E-value=0.0064  Score=42.53  Aligned_cols=26  Identities=19%  Similarity=0.281  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|.+|+|||||...+.+..
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~~   40 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASED   40 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCC
Confidence            34567899999999999999998664

>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=96.03  E-value=0.015  Score=39.29  Aligned_cols=24  Identities=17%  Similarity=0.516  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.|+++|.+|+|||||...+.+..
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            357899999999999998887543

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.03  E-value=0.002  Score=49.33  Aligned_cols=37  Identities=19%  Similarity=0.186  Sum_probs=23.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC---ce-EEEEEeCCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT---VN-FNFALDDTW   84 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~---~~-~LlVlDdv~   84 (162)
                      ..+|+|.|..|+||||+|+.+.....   .. ..+-.|++.
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   45 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchhh
Confidence            45899999999999999999876432   11 344456654

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.03  E-value=0.004  Score=47.07  Aligned_cols=23  Identities=30%  Similarity=0.382  Sum_probs=21.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+++|+|..|+|||||.+.++.-
T Consensus        47 e~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           47 EVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            48899999999999999999986

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=96.02  E-value=0.026  Score=47.17  Aligned_cols=24  Identities=25%  Similarity=0.250  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++|+|..|+|||||++.+..-.
T Consensus       370 ~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          370 KTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            488999999999999999986543

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=96.01  E-value=0.0043  Score=48.44  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +++.|+|++|+|||+||.++..
T Consensus       124 sviLI~GpPGsGKTtLAlqlA~  145 (331)
T 2vhj_A          124 GMVIVTGKGNSGKTPLVHALGE  145 (331)
T ss_dssp             EEEEEECSCSSSHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4678999999999999998875

>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=96.01  E-value=0.025  Score=38.15  Aligned_cols=25  Identities=24%  Similarity=0.530  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..-|.++|.+|+|||||...+.+..
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCc
Confidence            3457799999999999999987654

>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=96.01  E-value=0.0085  Score=42.76  Aligned_cols=25  Identities=20%  Similarity=0.290  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+....
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKDE   49 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcCC
Confidence            3467899999999999999987654

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=96.00  E-value=0.045  Score=39.60  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ..-|+|+|.+|+|||+|...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            45678999999999999999874

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.00  E-value=0.0037  Score=47.25  Aligned_cols=25  Identities=28%  Similarity=0.228  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-.+
T Consensus        51 ei~~liG~NGsGKSTLlk~l~Gl~~   75 (263)
T 2olj_A           51 EVVVVIGPSGSGKSTFLRCLNLLED   75 (263)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEEcCCCCcHHHHHHHHHcCCC
Confidence            4889999999999999999987654

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=96.00  E-value=0.015  Score=48.73  Aligned_cols=25  Identities=20%  Similarity=0.240  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       370 e~~~ivG~sGsGKSTll~~l~g~~~  394 (587)
T 3qf4_A          370 SLVAVLGETGSGKSTLMNLIPRLID  394 (587)
T ss_dssp             CEEEEECSSSSSHHHHHHTTTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCcc
Confidence            4889999999999999999876543

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.00  E-value=0.0038  Score=46.09  Aligned_cols=25  Identities=16%  Similarity=0.381  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-.+
T Consensus        35 e~~~i~G~nGsGKSTLl~~l~Gl~~   59 (229)
T 2pze_A           35 QLLAVAGSTGAGKTSLLMMIMGELE   59 (229)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4889999999999999999987654

>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=96.00  E-value=0.0041  Score=47.21  Aligned_cols=23  Identities=22%  Similarity=0.083  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+++|.|.+|+|||||++.+...
T Consensus        36 ~~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           36 EVIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            48899999999999999887654

>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=95.99  E-value=0.0046  Score=48.07  Aligned_cols=26  Identities=15%  Similarity=0.217  Sum_probs=22.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .++++|.|+.|+|||+||..++....
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~~   28 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRLN   28 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhCc
Confidence            35789999999999999999987654

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=95.99  E-value=0.0038  Score=46.66  Aligned_cols=26  Identities=31%  Similarity=0.272  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.+..-...
T Consensus        36 e~~~i~G~nGsGKSTLl~~l~Gl~~p   61 (247)
T 2ff7_A           36 EVIGIVGRSGSGKSTLTKLIQRFYIP   61 (247)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            48899999999999999999876543

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.96  E-value=0.0048  Score=48.77  Aligned_cols=26  Identities=31%  Similarity=0.328  Sum_probs=22.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+++|+|..|+||||+++.++...
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            45799999999999999999887653

>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=95.95  E-value=0.0045  Score=46.69  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .++.|+|.+|+|||||+..+..
T Consensus        31 ~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           31 TVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4889999999999999988763

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.95  E-value=0.0077  Score=42.20  Aligned_cols=26  Identities=27%  Similarity=0.111  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|.+|+|||||...+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34577899999999999999987654

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.94  E-value=0.004  Score=47.16  Aligned_cols=26  Identities=31%  Similarity=0.304  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.++.-...
T Consensus        46 e~~~i~G~nGsGKSTLlk~l~Gl~~p   71 (271)
T 2ixe_A           46 KVTALVGPNGSGKSTVAALLQNLYQP   71 (271)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            48899999999999999999876543

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=95.94  E-value=0.0041  Score=46.80  Aligned_cols=25  Identities=24%  Similarity=0.267  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.++.-.+
T Consensus        42 ei~~l~G~NGsGKSTLlk~l~Gl~~   66 (256)
T 1vpl_A           42 EIFGLIGPNGAGKTTTLRIISTLIK   66 (256)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4889999999999999999976543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.94  E-value=0.0041  Score=46.81  Aligned_cols=25  Identities=28%  Similarity=0.348  Sum_probs=22.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        47 e~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           47 TTCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhccCC
Confidence            4889999999999999999987654

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=95.93  E-value=0.025  Score=43.75  Aligned_cols=96  Identities=6%  Similarity=-0.134  Sum_probs=62.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC-----Cc----e-----------------------EEEEEeCCCC-CChhhHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK-----TV----N-----------------------FNFALDDTWK-EKYVDWTNM   94 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~-----~~----~-----------------------~LlVlDdv~~-~~~~~~~~l   94 (162)
                      .+++.++|..|.||++.+..+.+..     ..    .                       -++|+|+++. .+...++.|
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~plf~~~kvvii~~~~~kl~~~~~~aL   97 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDPNTDWNAIFSLCQAMSLFASRQTLLLLLPENGPNAAINEQL   97 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCTTCCHHHHHHHHHHHHHCCSCEEEEEECCSSCCCTTHHHHH
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecCCCCHHHHHHHhcCcCCccCCeEEEEECCCCCCChHHHHHH
Confidence            4577788888888877766653311     00    0                       5899999986 566788888


Q ss_pred             HhhccccCCCcEEEEecCC-------hhhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127           95 RDLFAAVASRSKVIVTTRN-------QGVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        95 ~~~l~~~~~gs~iiiTTR~-------~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ...+..-.+++.+|+++-.       ..+...+ .....++..+++.++....+.+.
T Consensus        98 l~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~~~~l~~~l~~~  154 (343)
T 1jr3_D           98 LTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPEQAQLPRWVAAR  154 (343)
T ss_dssp             HHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCCTTHHHHHHHHH
T ss_pred             HHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCCHHHHHHHHHHH
Confidence            8888765567766665532       2333333 33347888889887777555543

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.92  E-value=0.003  Score=47.22  Aligned_cols=27  Identities=19%  Similarity=-0.024  Sum_probs=23.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ....|+|.|..|+||||+|+.+.....
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            457899999999999999999988763

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.92  E-value=0.0034  Score=45.99  Aligned_cols=26  Identities=23%  Similarity=0.165  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.++.-.+.
T Consensus        36 e~~~iiG~NGsGKSTLlk~l~Gl~~p   61 (214)
T 1sgw_A           36 NVVNFHGPNGIGKTTLLKTISTYLKP   61 (214)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            37899999999999999999876543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.91  E-value=0.005  Score=46.37  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -.+++|+|..|+|||||.+.+..
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g   47 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMID   47 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHH
T ss_pred             CCEEEEECCCCccHHHHHHHHHH
Confidence            46899999999999999988754

>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=95.91  E-value=0.0083  Score=43.68  Aligned_cols=25  Identities=24%  Similarity=0.361  Sum_probs=22.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +.+.|.|..|+|||+||..+..+..
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g~   59 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRGH   59 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTTC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhCC
Confidence            5688999999999999999988764

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.90  E-value=0.0064  Score=47.21  Aligned_cols=26  Identities=23%  Similarity=0.422  Sum_probs=21.9

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ....++.++|.+|+||||++..++..
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~  128 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANY  128 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            45679999999999999999877654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.90  E-value=0.0044  Score=46.80  Aligned_cols=26  Identities=23%  Similarity=0.109  Sum_probs=22.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.++.-...
T Consensus        34 e~~~liG~nGsGKSTLl~~i~Gl~~p   59 (266)
T 2yz2_A           34 ECLLVAGNTGSGKSTLLQIVAGLIEP   59 (266)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCC
Confidence            48899999999999999999876543

>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=95.89  E-value=0.0056  Score=43.93  Aligned_cols=26  Identities=27%  Similarity=0.111  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|.++|.+|+|||||...+.+..
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45577899999999999999987654

>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=95.88  E-value=0.0062  Score=42.74  Aligned_cols=26  Identities=23%  Similarity=0.321  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|.+|+|||||...+.+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35678899999999999999998764

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=95.88  E-value=0.01  Score=48.22  Aligned_cols=24  Identities=25%  Similarity=0.414  Sum_probs=20.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ...++.++|.+|+||||++..+..
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~  122 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLAR  122 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHH
Confidence            468999999999999999877764

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.87  E-value=0.0045  Score=47.16  Aligned_cols=26  Identities=19%  Similarity=0.143  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.++.-.+.
T Consensus        48 e~~~liG~NGsGKSTLlk~l~Gl~~p   73 (279)
T 2ihy_A           48 DKWILYGLNGAGKTTLLNILNAYEPA   73 (279)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCC
Confidence            38899999999999999999876543

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.87  E-value=0.0046  Score=46.33  Aligned_cols=25  Identities=16%  Similarity=0.312  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        27 e~~~liG~NGsGKSTLlk~l~Gl~~   51 (249)
T 2qi9_C           27 EILHLVGPNGAGKSTLLARMAGMTS   51 (249)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCC
Confidence            3789999999999999999986543

>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=95.86  E-value=0.027  Score=39.67  Aligned_cols=26  Identities=23%  Similarity=0.516  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+|+|.+|+|||||...+....
T Consensus        13 ~~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           13 ALHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCC
Confidence            34567899999999999999987554

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=95.85  E-value=0.0058  Score=41.63  Aligned_cols=24  Identities=21%  Similarity=0.556  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.|.++|.+|+|||||...+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKGT   27 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            356799999999999999997643

>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=95.85  E-value=0.0059  Score=47.21  Aligned_cols=26  Identities=27%  Similarity=0.360  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++++|.|+.|+|||||.+.+....
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            47899999999999999999998654

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=95.85  E-value=0.0065  Score=42.42  Aligned_cols=26  Identities=15%  Similarity=0.197  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|..|+|||||...+.+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            34567899999999999999998765

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.85  E-value=0.0047  Score=46.32  Aligned_cols=24  Identities=17%  Similarity=0.292  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||.+.++.-.
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           32 DILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             CEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            378999999999999999987654

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.83  E-value=0.0054  Score=47.39  Aligned_cols=24  Identities=13%  Similarity=0.112  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -..++|+|..|+|||||++.+..-
T Consensus       126 Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          126 KNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhhh
Confidence            358899999999999999988643

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.83  E-value=0.006  Score=45.47  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=18.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ++|+|.|-||+||||+|..+...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~   24 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSG   24 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEEecCCCCcHHHHHHHHHHH
Confidence            57778899999999998776543

>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=95.83  E-value=0.0056  Score=41.63  Aligned_cols=23  Identities=13%  Similarity=0.336  Sum_probs=19.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|.+|+|||||...+.+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46799999999999999887554

>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=95.83  E-value=0.0056  Score=41.56  Aligned_cols=23  Identities=17%  Similarity=0.432  Sum_probs=19.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||||...+.+..
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            47799999999999999987643

>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=95.83  E-value=0.0077  Score=41.47  Aligned_cols=26  Identities=31%  Similarity=0.433  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|.++|.+|+|||||...+.+..
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCc
Confidence            35567899999999999999887654

>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=95.82  E-value=0.0054  Score=47.58  Aligned_cols=26  Identities=23%  Similarity=0.158  Sum_probs=22.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++.|.|+.|+|||+||..++....
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhCC
Confidence            46889999999999999999987664

>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=95.82  E-value=0.028  Score=38.73  Aligned_cols=25  Identities=24%  Similarity=0.530  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|.++|.+|+|||||...+....
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            4567899999999999999987654

>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=95.81  E-value=0.0082  Score=41.28  Aligned_cols=26  Identities=15%  Similarity=0.342  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|..|+|||||...+.+..
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCc
Confidence            45678899999999999999987653

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=95.81  E-value=0.0066  Score=49.11  Aligned_cols=25  Identities=24%  Similarity=0.266  Sum_probs=21.0

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ...++|.++|.+|+||||++..+..
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA~  122 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLGK  122 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999999998877763

>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=95.81  E-value=0.026  Score=39.02  Aligned_cols=25  Identities=24%  Similarity=0.440  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|.++|.+|+|||||...+.+..
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4567899999999999999987554

>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=95.81  E-value=0.026  Score=38.10  Aligned_cols=21  Identities=24%  Similarity=0.370  Sum_probs=18.4

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+++|.+|+|||+|...+...
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            679999999999999998643

>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=95.80  E-value=0.01  Score=42.99  Aligned_cols=40  Identities=20%  Similarity=0.170  Sum_probs=26.9

Q ss_pred             EEEEEeCCCC---CChhhHHHHHhhccccCCCcEEEEecCChh
Q 039127           76 FNFALDDTWK---EKYVDWTNMRDLFAAVASRSKVIVTTRNQG  115 (162)
Q Consensus        76 ~LlVlDdv~~---~~~~~~~~l~~~l~~~~~gs~iiiTTR~~~  115 (162)
                      =|+|||++..   ...-..+.+...+........+|+|+|+..
T Consensus       122 DlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~ap  164 (196)
T 1g5t_A          122 DMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCH  164 (196)
T ss_dssp             SEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCC
T ss_pred             CEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCCc
Confidence            5899998731   123344556666666666778999999963

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.80  E-value=0.0053  Score=44.81  Aligned_cols=22  Identities=23%  Similarity=0.199  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .++.|.|.+|+||||||..+..
T Consensus        24 ~~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           24 NVVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4888999999999999877653

>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=95.79  E-value=0.0059  Score=41.65  Aligned_cols=25  Identities=28%  Similarity=0.462  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.|.++|.+|+|||||...+.+..
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3457899999999999999987553

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.78  E-value=0.0055  Score=46.39  Aligned_cols=22  Identities=23%  Similarity=0.464  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .++|+|..|+|||||.+.++..
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999998753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=95.77  E-value=0.01  Score=40.78  Aligned_cols=25  Identities=24%  Similarity=0.340  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+++|.+|+|||||...+.+..
T Consensus         6 ~~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            6 QLKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             eEEEEEECcCCCCHHHHHHHHHhCc
Confidence            4457799999999999999887543

>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=95.77  E-value=0.012  Score=40.79  Aligned_cols=24  Identities=13%  Similarity=0.517  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.|+++|.+|+|||||...+.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            357799999999999999997654

>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=95.76  E-value=0.0082  Score=41.70  Aligned_cols=24  Identities=13%  Similarity=0.201  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..|+|+|.+|+|||||...+....
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            457899999999999999998653

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=95.75  E-value=0.045  Score=38.09  Aligned_cols=24  Identities=13%  Similarity=0.227  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...|+++|.+|+|||||...+...
T Consensus        22 ~~~i~v~G~~~~GKssli~~l~~~   45 (189)
T 2x77_A           22 KIRVLMLGLDNAGKTSILYRLHLG   45 (189)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            345789999999999999998644

>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=95.75  E-value=0.0065  Score=42.30  Aligned_cols=23  Identities=22%  Similarity=0.258  Sum_probs=20.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+++|.+|+|||||...+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK   25 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC
Confidence            46799999999999999988754

>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=95.75  E-value=0.0059  Score=50.26  Aligned_cols=26  Identities=31%  Similarity=0.422  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+++|+|..|+|||||++.+....
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            45799999999999999999887543

>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=95.74  E-value=0.0065  Score=50.25  Aligned_cols=24  Identities=21%  Similarity=0.203  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+|.++|++|+||||+|+.+...
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~   58 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRY   58 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468889999999999999998654

>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=95.73  E-value=0.0068  Score=42.35  Aligned_cols=24  Identities=38%  Similarity=0.378  Sum_probs=19.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .--|+++|.+|+|||||.+.+.+.
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~   37 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSK   37 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhh
Confidence            345779999999999999877643

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.72  E-value=0.006  Score=48.52  Aligned_cols=26  Identities=23%  Similarity=-0.054  Sum_probs=21.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....++|+|+.|+|||||++.+....
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            34688999999999999999987543

>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=95.71  E-value=0.0079  Score=43.34  Aligned_cols=21  Identities=33%  Similarity=0.502  Sum_probs=17.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPV   68 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~   68 (162)
                      .-.|+++|.+|+|||||...+
T Consensus        15 ~~ki~v~G~~~~GKSsli~~~   35 (221)
T 3gj0_A           15 QFKLVLVGDGGTGKTTFVKRH   35 (221)
T ss_dssp             EEEEEEEECTTSSHHHHHTTB
T ss_pred             ceEEEEECCCCCCHHHHHHHH
Confidence            345789999999999999883

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=95.70  E-value=0.0081  Score=42.19  Aligned_cols=26  Identities=23%  Similarity=0.203  Sum_probs=21.8

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .....|+|+|.+|+|||||...+.+.
T Consensus        15 ~~~~ki~v~G~~~~GKSsl~~~l~~~   40 (199)
T 4bas_A           15 KTKLQVVMCGLDNSGKTTIINQVKPA   40 (199)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHSCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            45677889999999999999998754

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=95.70  E-value=0.034  Score=38.30  Aligned_cols=25  Identities=16%  Similarity=0.247  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+++|.+|+|||||...+.+..
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCC
Confidence            3457899999999999998887543

>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=95.70  E-value=0.0071  Score=46.33  Aligned_cols=26  Identities=27%  Similarity=0.231  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+++++|.+|+||||++..++...
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~  122 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999998876543

>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=95.69  E-value=0.0069  Score=41.17  Aligned_cols=24  Identities=17%  Similarity=0.349  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-.|+++|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            6 QFKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            345789999999999999998754

>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=95.68  E-value=0.036  Score=39.05  Aligned_cols=25  Identities=32%  Similarity=0.428  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..-|+|+|.+|+|||||...+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567899999999999999987654

>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=95.68  E-value=0.0074  Score=45.63  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=19.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .++|+|.|-||+||||+|..+...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~   25 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAA   25 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHH
Confidence            367888899999999998776544

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=95.67  E-value=0.0069  Score=42.57  Aligned_cols=25  Identities=16%  Similarity=0.158  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4467799999999999998776543

>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=95.67  E-value=0.0098  Score=40.45  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.|+++|.+|+|||||...+.+..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            457899999999999999987544

>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=95.66  E-value=0.012  Score=47.54  Aligned_cols=46  Identities=22%  Similarity=0.313  Sum_probs=29.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCc---eEEEEEeCCCCCChhhHHHH
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTV---NFNFALDDTWKEKYVDWTNM   94 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~---~~LlVlDdv~~~~~~~~~~l   94 (162)
                      ...++.++|.+|+||||++..+......   +.++|==|..  ....++.+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~--r~~a~eqL  144 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVY--RPAAYDQL  144 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCS--CHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCcc--chhHHHHH
Confidence            4689999999999999998877644322   2444333454  44444443

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.64  E-value=0.0063  Score=45.95  Aligned_cols=24  Identities=29%  Similarity=0.246  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||.+.++.-.
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            378999999999999999998765

>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=95.64  E-value=0.0059  Score=42.18  Aligned_cols=25  Identities=12%  Similarity=0.186  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+++|.+|+|||+|...+.+..
T Consensus         7 ~~ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            7 ELRLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEEEECCGGGCHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3457799999999999999987643

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.63  E-value=0.013  Score=41.77  Aligned_cols=32  Identities=19%  Similarity=0.320  Sum_probs=26.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDT   83 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv   83 (162)
                      .-+.|.|.+|+||||||..+..+-   +-+|=||.
T Consensus        17 ~gvli~G~SGaGKStlal~L~~rG---~~lvaDD~   48 (181)
T 3tqf_A           17 MGVLITGEANIGKSELSLALIDRG---HQLVCDDV   48 (181)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHTT---CEEEESSE
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC---CeEecCCE
Confidence            467799999999999999998865   66777775

>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=95.62  E-value=0.035  Score=39.61  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...|+++|.+|+|||||...+.+.
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456789999999999999988654

>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=95.61  E-value=0.0065  Score=44.41  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=17.9

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+|.|-||+||||+|..+....
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~l   24 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIM   24 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHH
T ss_pred             EEEecCCCCCHHHHHHHHHHHH
Confidence            5668999999999998776543

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=95.61  E-value=0.0072  Score=47.46  Aligned_cols=26  Identities=15%  Similarity=0.082  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...++|+|..|+|||||++.+.....
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            46789999999999999998876544

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.61  E-value=0.028  Score=46.38  Aligned_cols=39  Identities=28%  Similarity=0.284  Sum_probs=27.5

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC---CceEEEEEeCCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK---TVNFNFALDDTW   84 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~---~~~~LlVlDdv~   84 (162)
                      ....+|.|+|.+|+||||++..+....   ..+.++|=.|..
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~  140 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTF  140 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCS
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEecccc
Confidence            456799999999999999998887432   222666666665

>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=95.59  E-value=0.0076  Score=42.51  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..|+++|.+|+|||||...+.+.
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            36789999999999999998864

>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=95.58  E-value=0.0082  Score=47.10  Aligned_cols=26  Identities=23%  Similarity=0.120  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.++.|+|..|+|||||+..+....
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999887543

>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=95.58  E-value=0.0079  Score=41.29  Aligned_cols=23  Identities=22%  Similarity=0.326  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -.|+++|..|+|||||...+.+.
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~   37 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYD   37 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998754

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.57  E-value=0.0076  Score=47.63  Aligned_cols=24  Identities=29%  Similarity=0.272  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||.+.+..-.
T Consensus        31 e~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           31 EILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCchHHHHHHHHhcCC
Confidence            488999999999999999997543

>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=95.57  E-value=0.008  Score=41.81  Aligned_cols=24  Identities=17%  Similarity=0.267  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...|+|+|.+|+|||||...+.+.
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456789999999999999998753

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.56  E-value=0.0086  Score=41.90  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +.+|+|..|+|||||+.+++.
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            788999999999999999864

>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=95.55  E-value=0.0051  Score=49.78  Aligned_cols=26  Identities=35%  Similarity=0.376  Sum_probs=21.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+|.++|.+|+||||++..+....
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999998877643

>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=95.54  E-value=0.0082  Score=41.42  Aligned_cols=25  Identities=20%  Similarity=0.332  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|.++|.+|+|||||...+....
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            3457899999999999999987543

>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=95.54  E-value=0.011  Score=41.43  Aligned_cols=25  Identities=16%  Similarity=0.379  Sum_probs=20.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+++|.+|+|||+|...+.+..
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhCC
Confidence            4467799999999999998887544

>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=95.54  E-value=0.01  Score=43.05  Aligned_cols=26  Identities=15%  Similarity=0.011  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|.+|+|||||...+....
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~~   53 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRAN   53 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678899999999999999987653

>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=95.54  E-value=0.0082  Score=42.11  Aligned_cols=25  Identities=24%  Similarity=0.400  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..-|+|+|..|+|||||...+....
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4567899999999999999887643

>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=95.51  E-value=0.0097  Score=41.17  Aligned_cols=25  Identities=16%  Similarity=0.282  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+.+..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            4567899999999999999988543

>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=95.50  E-value=0.031  Score=39.08  Aligned_cols=24  Identities=21%  Similarity=0.463  Sum_probs=20.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..-|+++|.+|+|||||...+...
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~~   31 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVKG   31 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCcHHHHHHHHHcC
Confidence            345779999999999999998754

>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=95.50  E-value=0.012  Score=43.09  Aligned_cols=27  Identities=19%  Similarity=0.391  Sum_probs=22.6

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ....|+|+|.+|+|||||...+.....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~~   54 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRKV   54 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSCC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCCc
Confidence            456788999999999999999886543

>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=95.50  E-value=0.0079  Score=48.93  Aligned_cols=24  Identities=17%  Similarity=0.181  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+|.++|++|+||||+++.+...
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~   62 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRY   62 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            457889999999999999998765

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=95.49  E-value=0.0067  Score=43.76  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+|+|.|+.|+||||+++.+....
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            368899999999999999887654

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=95.49  E-value=0.0076  Score=46.16  Aligned_cols=25  Identities=16%  Similarity=0.381  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        65 e~~~i~G~NGsGKSTLlk~l~Gl~~   89 (290)
T 2bbs_A           65 QLLAVAGSTGAGKTSLLMMIMGELE   89 (290)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCC
Confidence            4889999999999999999976554

>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=95.49  E-value=0.0089  Score=41.19  Aligned_cols=25  Identities=20%  Similarity=0.347  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.|+++|.+|+|||||...+.+..
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            4467899999999999999987544

>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=95.48  E-value=0.012  Score=41.60  Aligned_cols=26  Identities=27%  Similarity=0.340  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+|+|.+|+|||||...+.+..
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            7 VLLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCC
Confidence            35567899999999999999987654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.47  E-value=0.011  Score=46.42  Aligned_cols=24  Identities=21%  Similarity=0.126  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ...+++|+|.+|+|||||...+..
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            468999999999999999999875

>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=95.47  E-value=0.05  Score=38.53  Aligned_cols=26  Identities=15%  Similarity=0.206  Sum_probs=21.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+|+|.+|+|||||...+.+..
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~~   53 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTGA   53 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhCC
Confidence            34567899999999999999987544

>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=95.46  E-value=0.0094  Score=42.36  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..|+++|.+|+|||||...+.+.
T Consensus        26 ~ki~lvG~~~vGKSsLi~~l~~~   48 (198)
T 1f6b_A           26 GKLVFLGLDNAGKTTLLHMLKDD   48 (198)
T ss_dssp             EEEEEEEETTSSHHHHHHHHSCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999998753

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.46  E-value=0.0089  Score=47.15  Aligned_cols=25  Identities=24%  Similarity=0.276  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.++.-..
T Consensus        42 e~~~llGpnGsGKSTLLr~iaGl~~   66 (355)
T 1z47_A           42 EMVGLLGPSGSGKTTILRLIAGLER   66 (355)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCC
Confidence            4889999999999999999976543

>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=95.45  E-value=0.0087  Score=42.22  Aligned_cols=25  Identities=16%  Similarity=0.343  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+++|.+|+|||||...+.+..
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3457799999999999999987653

>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=95.44  E-value=0.0094  Score=42.59  Aligned_cols=25  Identities=16%  Similarity=0.238  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+.+..
T Consensus         7 ~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            7 QRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             -CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4567899999999999999987654

>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=95.42  E-value=0.0092  Score=47.28  Aligned_cols=25  Identities=24%  Similarity=0.246  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-.+
T Consensus        55 ei~~IiGpnGaGKSTLlr~i~GL~~   79 (366)
T 3tui_C           55 QIYGVIGASGAGKSTLIRCVNLLER   79 (366)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CEEEEEcCCCchHHHHHHHHhcCCC
Confidence            4889999999999999999976543

>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=95.42  E-value=0.0097  Score=49.17  Aligned_cols=28  Identities=7%  Similarity=-0.094  Sum_probs=24.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ...+|.+.|+.|+||||+|+.+......
T Consensus       394 ~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          394 QGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            3478889999999999999999988653

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.41  E-value=0.0073  Score=50.35  Aligned_cols=25  Identities=24%  Similarity=0.341  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.++.|+|+.|+|||||++.+....
T Consensus       369 G~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          369 GFTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             CEEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCChHHHHHHHHHHhh
Confidence            4689999999999999999998764

>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=95.40  E-value=0.0087  Score=48.04  Aligned_cols=25  Identities=24%  Similarity=0.325  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+|+|.|+.|+||||||..++....
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            5789999999999999999876543

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=95.39  E-value=0.0054  Score=43.70  Aligned_cols=25  Identities=16%  Similarity=0.251  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...++|+|..|+|||||.+.+....
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g~~   50 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTNQK   50 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC-
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4578999999999999999887654

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=95.38  E-value=0.0097  Score=46.99  Aligned_cols=25  Identities=24%  Similarity=0.316  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.++.-..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl~~   54 (359)
T 2yyz_A           30 EFVALLGPSGCGKTTTLLMLAGIYK   54 (359)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CEEEEEcCCCchHHHHHHHHHCCCC
Confidence            4889999999999999999976543

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=95.38  E-value=0.01  Score=41.95  Aligned_cols=25  Identities=16%  Similarity=0.214  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|.++|.+|+|||||...+.+..
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4457799999999999999887654

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=95.37  E-value=0.0097  Score=47.39  Aligned_cols=25  Identities=20%  Similarity=0.231  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        30 e~~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           30 EFVVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CEEEEEcCCCchHHHHHHHHHcCCC
Confidence            4889999999999999999976554

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.37  E-value=0.013  Score=43.39  Aligned_cols=23  Identities=17%  Similarity=0.174  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -.|.+.|.||+||||+|..+...
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~   29 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHA   29 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHH
Confidence            34668899999999997666543

>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=95.37  E-value=0.021  Score=40.95  Aligned_cols=25  Identities=20%  Similarity=0.125  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -.+..++|..|.||||.+....++.
T Consensus         8 g~i~v~~G~mgsGKTT~ll~~a~r~   32 (191)
T 1xx6_A            8 GWVEVIVGPMYSGKSEELIRRIRRA   32 (191)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHH
Confidence            4688999999999999886665443

>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=95.37  E-value=0.01  Score=42.12  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=19.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHH
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      ....|+++|.+|+|||||...+.
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~   44 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFG   44 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHH
Confidence            35567899999999999999985

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=95.35  E-value=0.01  Score=47.12  Aligned_cols=23  Identities=22%  Similarity=0.248  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+++|+|..|+|||||.+.++.-
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           30 EFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCcHHHHHHHHHHcC
Confidence            48899999999999999998643

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=95.35  E-value=0.015  Score=40.63  Aligned_cols=24  Identities=17%  Similarity=0.343  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-.|+++|.+|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            345779999999999999998765

>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=95.35  E-value=0.012  Score=45.17  Aligned_cols=26  Identities=23%  Similarity=0.192  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+|+|.+|+|||||...+....
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~   32 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQK   32 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCC
Confidence            35689999999999999999987653

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.35  E-value=0.01  Score=46.96  Aligned_cols=25  Identities=20%  Similarity=0.288  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.++.-..
T Consensus        30 e~~~llGpnGsGKSTLLr~iaGl~~   54 (362)
T 2it1_A           30 EFMALLGPSGSGKSTLLYTIAGIYK   54 (362)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CEEEEECCCCchHHHHHHHHhcCCC
Confidence            4889999999999999999976543

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=95.34  E-value=0.026  Score=39.63  Aligned_cols=25  Identities=28%  Similarity=0.340  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|.++|..|+|||||...+.+..
T Consensus        26 ~~ki~vvG~~~~GKSsLi~~l~~~~   50 (192)
T 2il1_A           26 KLQVIIIGSRGVGKTSLMERFTDDT   50 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHCC--
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            3457899999999999999987554

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=95.34  E-value=0.01  Score=42.02  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=19.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .--|+|+|.+|+|||+|...+..
T Consensus         6 ~~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            6 YYRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999998874

>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=95.34  E-value=0.0094  Score=45.77  Aligned_cols=25  Identities=32%  Similarity=0.388  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++.++|.+|+||||++..+....
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~  122 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFY  122 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999998876443

>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=95.32  E-value=0.011  Score=41.55  Aligned_cols=25  Identities=28%  Similarity=0.433  Sum_probs=20.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|.++|..|+|||||...+.+..
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            4457799999999999999987554

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.32  E-value=0.0095  Score=44.18  Aligned_cols=26  Identities=19%  Similarity=0.252  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -..++|.|++|+||||+|+.+.....
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~~g   33 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEKFG   33 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             ccceeeECCCCCCHHHHHHHHHHHhC
Confidence            45789999999999999999877654

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=95.31  E-value=0.01  Score=47.03  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.++.-..
T Consensus        38 e~~~llGpnGsGKSTLLr~iaGl~~   62 (372)
T 1v43_A           38 EFLVLLGPSGCGKTTTLRMIAGLEE   62 (372)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCC
Confidence            4889999999999999999976543

>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=95.30  E-value=0.014  Score=40.64  Aligned_cols=25  Identities=16%  Similarity=0.283  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+.+..
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567899999999999999988654

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.30  E-value=0.0087  Score=47.05  Aligned_cols=25  Identities=20%  Similarity=0.105  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.++.-..
T Consensus        27 e~~~llGpnGsGKSTLLr~iaGl~~   51 (348)
T 3d31_A           27 EYFVILGPTGAGKTLFLELIAGFHV   51 (348)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             CEEEEECCCCccHHHHHHHHHcCCC
Confidence            4889999999999999999976543

>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=95.29  E-value=0.011  Score=42.00  Aligned_cols=25  Identities=24%  Similarity=0.473  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIENK   49 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            4567899999999999999887543

>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=95.29  E-value=0.012  Score=49.84  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=22.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...+|.+.|+.|+||||+|+.+....
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998764

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.28  E-value=0.013  Score=45.71  Aligned_cols=24  Identities=21%  Similarity=0.259  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ...+++|+|.+|+|||||.+.+..
T Consensus        54 ~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           54 RAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999874

>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=95.28  E-value=0.015  Score=44.70  Aligned_cols=28  Identities=18%  Similarity=0.151  Sum_probs=24.0

Q ss_pred             CCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           45 DGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        45 ~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+....|+|+|.+|+|||||...+....
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~~   34 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGTK   34 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3567899999999999999999987654

>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=95.27  E-value=0.012  Score=49.32  Aligned_cols=27  Identities=22%  Similarity=0.137  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ...+|.|.|+.|+||||+|+.+.....
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~  421 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLN  421 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhc
Confidence            457899999999999999999987643

>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=95.25  E-value=0.012  Score=43.04  Aligned_cols=25  Identities=16%  Similarity=0.165  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -..|++.|+.|+||||+++.+....
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l   30 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERL   30 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4688999999999999999987654

>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=95.24  E-value=0.015  Score=43.60  Aligned_cols=25  Identities=16%  Similarity=0.189  Sum_probs=21.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+....
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578899999999999999998654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.23  E-value=0.015  Score=42.92  Aligned_cols=28  Identities=29%  Similarity=0.361  Sum_probs=23.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ....|++.|..|+||||+++.+.+....
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4578899999999999999998765443

>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=95.22  E-value=0.012  Score=41.79  Aligned_cols=25  Identities=28%  Similarity=0.510  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|.++|.+|+|||||...+.+..
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            8 LFKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            4567899999999999999987543

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.22  E-value=0.008  Score=47.34  Aligned_cols=24  Identities=25%  Similarity=0.189  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||.+.++.-.
T Consensus        32 e~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           32 ERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCC
Confidence            488999999999999999987543

>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=95.22  E-value=0.014  Score=45.57  Aligned_cols=24  Identities=17%  Similarity=0.166  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +..+++|+|.+|+|||||+..+..
T Consensus        55 ~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           55 NTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             CSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            467899999999999999988864

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=95.21  E-value=0.013  Score=46.24  Aligned_cols=36  Identities=22%  Similarity=0.266  Sum_probs=26.3

Q ss_pred             HHHHhhc-CCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           32 TVELVLK-DDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        32 i~~~l~~-~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -++.++. ..    -+.-+++.|.|.+|+||||||..+...
T Consensus        48 ~LD~~Lg~GG----i~~G~i~~I~GppGsGKSTLal~la~~   84 (356)
T 3hr8_A           48 AIDIATGVGG----YPRGRIVEIFGQESSGKTTLALHAIAE   84 (356)
T ss_dssp             HHHHHTSSSS----EETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHhccCC----ccCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3566665 32    123468999999999999999888654

>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=95.21  E-value=0.017  Score=40.36  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|.++|..|+|||||...+....
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCC
Confidence            4567899999999999999987543

>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=95.21  E-value=0.012  Score=42.34  Aligned_cols=24  Identities=21%  Similarity=0.401  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-.|+++|.+|+|||||...+.+.
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~   57 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADG   57 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC-
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcC
Confidence            446789999999999999998754

>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=95.20  E-value=0.015  Score=41.13  Aligned_cols=25  Identities=12%  Similarity=0.291  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+|+|.+|+|||||...+....
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhCC
Confidence            4567899999999999999987554

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=95.16  E-value=0.016  Score=47.07  Aligned_cols=33  Identities=24%  Similarity=0.223  Sum_probs=25.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCceEEEEEe
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALD   81 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlD   81 (162)
                      .+-+.++|++|+|||++|+.++......+ +.+|
T Consensus        50 ~~~iLl~GppGtGKT~lar~lA~~l~~~~-~~v~   82 (444)
T 1g41_A           50 PKNILMIGPTGVGKTEIARRLAKLANAPF-IKVE   82 (444)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCCE-EEEE
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHcCCCc-eeec
Confidence            34578999999999999999988765543 4455

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=95.15  E-value=0.0099  Score=42.70  Aligned_cols=26  Identities=23%  Similarity=0.194  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+|+|..|+|||||...+....
T Consensus        28 ~~~~i~v~G~~~~GKSslin~l~~~~   53 (223)
T 4dhe_A           28 VQPEIAFAGRSNAGKSTAINVLCNQK   53 (223)
T ss_dssp             CSCEEEEEESCHHHHHHHHHHHTTCS
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            35577899999999999999998775

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=95.14  E-value=0.011  Score=45.44  Aligned_cols=21  Identities=19%  Similarity=0.409  Sum_probs=18.0

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+|+|..|+|||||.+.++..
T Consensus        21 I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           21 LMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            489999999999999997653

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=95.14  E-value=0.013  Score=42.82  Aligned_cols=22  Identities=27%  Similarity=0.224  Sum_probs=18.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -.++.|.|.+|+|||+||..+.
T Consensus        30 G~l~~i~G~pG~GKT~l~l~~~   51 (251)
T 2zts_A           30 GTTVLLTGGTGTGKTTFAAQFI   51 (251)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHH
Confidence            3588899999999999997754

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=95.12  E-value=0.078  Score=41.01  Aligned_cols=23  Identities=22%  Similarity=0.326  Sum_probs=20.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+|+|.+|+|||||...+....
T Consensus       167 kI~ivG~~~vGKSsLl~~l~~~~  189 (329)
T 3o47_A          167 RILMVGLDAAGKTTILYKLKLGE  189 (329)
T ss_dssp             EEEEEESTTSSHHHHHHHTCSSC
T ss_pred             eEEEECCCCccHHHHHHHHhCCC
Confidence            57899999999999999987654

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.12  E-value=0.012  Score=46.30  Aligned_cols=35  Identities=26%  Similarity=0.339  Sum_probs=26.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce-EEEEEeCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN-FNFALDDT   83 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~-~LlVlDdv   83 (162)
                      ..++|+|..|+|||||++.+....... -.+.+||.
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~~~~g~I~ie~~  211 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIPFDQRLITIEDV  211 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSCTTSCEEEEESS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCCCCceEEEECCc
Confidence            488899999999999999998765432 33444554

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=95.11  E-value=0.039  Score=50.48  Aligned_cols=25  Identities=16%  Similarity=0.266  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       445 ~~vaivG~sGsGKSTll~ll~~~~~  469 (1321)
T 4f4c_A          445 QTVALVGSSGCGKSTIISLLLRYYD  469 (1321)
T ss_dssp             CEEEEEECSSSCHHHHHHHHTTSSC
T ss_pred             cEEEEEecCCCcHHHHHHHhccccc
Confidence            4889999999999999999976554

>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=95.11  E-value=0.013  Score=41.54  Aligned_cols=25  Identities=28%  Similarity=0.436  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+|+|.+|+|||||...+....
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~~   44 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVEDK   44 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4567899999999999999987543

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=95.10  E-value=0.013  Score=46.76  Aligned_cols=25  Identities=20%  Similarity=0.215  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        48 e~~~llGpsGsGKSTLLr~iaGl~~   72 (390)
T 3gd7_A           48 QRVGLLGRTGSGKSTLLSAFLRLLN   72 (390)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTCSE
T ss_pred             CEEEEECCCCChHHHHHHHHhCCCC
Confidence            4889999999999999999986543

>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=95.10  E-value=0.014  Score=46.21  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -.+++|+|..|+|||||++.+..
T Consensus       136 g~~i~ivG~~GsGKTTll~~l~~  158 (372)
T 2ewv_A          136 MGLILVTGPTGSGKSTTIASMID  158 (372)
T ss_dssp             SEEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            46899999999999999988764

>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=95.09  E-value=0.018  Score=42.69  Aligned_cols=26  Identities=15%  Similarity=0.374  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+|+|.+|+|||||...+....
T Consensus        21 ~~~~I~lvG~~g~GKStl~n~l~~~~   46 (260)
T 2xtp_A           21 SELRIILVGKTGTGKSAAGNSILRKQ   46 (260)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCC
Confidence            34578899999999999999987543

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=95.09  E-value=0.014  Score=42.04  Aligned_cols=28  Identities=21%  Similarity=0.130  Sum_probs=24.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ..+|+|.|+.|+||||+|+.+.......
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~lg~~   33 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEHYNIP   33 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHTTCC
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            3589999999999999999998876544

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=95.08  E-value=0.056  Score=49.33  Aligned_cols=25  Identities=16%  Similarity=0.268  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus       417 ~~~~ivG~sGsGKSTl~~ll~g~~~  441 (1284)
T 3g5u_A          417 QTVALVGNSGCGKSTTVQLMQRLYD  441 (1284)
T ss_dssp             CEEEEECCSSSSHHHHHHHTTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4889999999999999999865543

>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=95.08  E-value=0.014  Score=41.40  Aligned_cols=25  Identities=24%  Similarity=0.305  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+....
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~   49 (201)
T 2gco_A           25 RKKLVIVGDGACGKTCLLIVFSKDQ   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            3467899999999999999987643

>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=95.07  E-value=0.012  Score=46.21  Aligned_cols=23  Identities=43%  Similarity=0.326  Sum_probs=19.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -+++.|+|.+|+||||||..+..
T Consensus        61 G~iv~I~G~pGsGKTtLal~la~   83 (349)
T 2zr9_A           61 GRVIEIYGPESSGKTTVALHAVA   83 (349)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45889999999999999988764

>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=95.07  E-value=0.015  Score=41.58  Aligned_cols=25  Identities=24%  Similarity=0.328  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.|.|+|..|+|||||...+....
T Consensus        25 ~~ki~vvG~~~~GKSsLi~~l~~~~   49 (217)
T 2f7s_A           25 LIKLLALGDSGVGKTTFLYRYTDNK   49 (217)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            4457899999999999999987643

>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=95.03  E-value=0.0097  Score=41.68  Aligned_cols=25  Identities=20%  Similarity=0.193  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|..|+|||||...+.+..
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~~   45 (190)
T 2h57_A           21 EVHVLCLGLDNSGKTTIINKLKPSN   45 (190)
T ss_dssp             CEEEEEEECTTSSHHHHHHHTSCGG
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            3467799999999999999987665

>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=94.99  E-value=0.021  Score=43.78  Aligned_cols=26  Identities=19%  Similarity=0.106  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+|+|.+|+|||||...+....
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~   31 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVK   31 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45679999999999999999987653

>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=94.96  E-value=0.0081  Score=41.65  Aligned_cols=25  Identities=28%  Similarity=0.469  Sum_probs=10.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+.+..
T Consensus         8 ~~ki~v~G~~~~GKssl~~~l~~~~   32 (183)
T 2fu5_C            8 LFKLLLIGDSGVGKTCVLFRFSEDA   32 (183)
T ss_dssp             EEEEEEECCCCC-------------
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            4567899999999999998886543

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.94  E-value=0.012  Score=43.38  Aligned_cols=25  Identities=24%  Similarity=0.186  Sum_probs=18.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -..|++.|+.|+||||+++.+.+..
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578899999999999999887654

>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=94.93  E-value=0.018  Score=46.54  Aligned_cols=26  Identities=27%  Similarity=0.231  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...++.++|.+|+||||++..+....
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999998876543

>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=94.92  E-value=0.016  Score=41.06  Aligned_cols=23  Identities=35%  Similarity=0.530  Sum_probs=17.9

Q ss_pred             EEEEEE-cCCCcchHHHHHHHHcc
Q 039127           49 FVIPII-GMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~-G~gGiGKTtLa~~~~~~   71 (162)
                      ++|+|+ +-||+||||+|..+...
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~   25 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATA   25 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHH
Confidence            577888 57999999998776543

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.92  E-value=0.036  Score=41.48  Aligned_cols=26  Identities=19%  Similarity=0.520  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|.+|+|||||...+.+..
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~   63 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGER   63 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            35678899999999999999998765

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=94.91  E-value=0.069  Score=47.20  Aligned_cols=21  Identities=19%  Similarity=0.071  Sum_probs=19.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPV   68 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~   68 (162)
                      -.+++|.|+.|.||||+.+.+
T Consensus       662 g~i~~ItGpNGsGKSTlLr~i  682 (934)
T 3thx_A          662 QMFHIITGPNMGGKSTYIRQT  682 (934)
T ss_dssp             BCEEEEECCTTSSHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHH
Confidence            468999999999999999988

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=94.86  E-value=0.034  Score=42.30  Aligned_cols=25  Identities=16%  Similarity=0.304  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+.+..
T Consensus       155 ~~~i~i~G~~~~GKssli~~~~~~~  179 (332)
T 2wkq_A          155 LIKCVVVGDGAVGKTCLLISYTTNA  179 (332)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCChHHHHHHHHhCC
Confidence            3467799999999999998887543

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=94.86  E-value=0.05  Score=49.63  Aligned_cols=25  Identities=16%  Similarity=0.232  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus      1060 e~v~ivG~sGsGKSTl~~~l~g~~~ 1084 (1284)
T 3g5u_A         1060 QTLALVGSSGCGKSTVVQLLERFYD 1084 (1284)
T ss_dssp             SEEEEECSSSTTHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCcC
Confidence            4789999999999999999976543

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=94.86  E-value=0.021  Score=41.67  Aligned_cols=25  Identities=20%  Similarity=0.186  Sum_probs=19.3

Q ss_pred             CeEEEEEEc-CCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIG-MGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G-~gGiGKTtLa~~~~~~   71 (162)
                      ..++|++++ -||+||||+|..+...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~   28 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFA   28 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHH
Confidence            357888885 6999999998776543

>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=94.84  E-value=0.017  Score=46.25  Aligned_cols=22  Identities=9%  Similarity=0.042  Sum_probs=19.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -.++.|+|.+|+|||||+..++
T Consensus       178 Gei~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          178 GSITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEEcCCCCChHHHHHHHH
Confidence            3588999999999999999664

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.83  E-value=0.016  Score=45.44  Aligned_cols=35  Identities=23%  Similarity=0.146  Sum_probs=26.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce-EEEEEeC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN-FNFALDD   82 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-~LlVlDd   82 (162)
                      -.+++|+|..|+|||||.+.+.+..... ..+.+++
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~~~~~~g~i~~~G  106 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNGASADIIVLALIG  106 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCCSEEEEEEES
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCEEEEEEec
Confidence            3589999999999999999998876544 3344444

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.82  E-value=0.013  Score=47.81  Aligned_cols=24  Identities=17%  Similarity=0.192  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||++.+..-.
T Consensus       139 e~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          139 PRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCcc
Confidence            478999999999999999987654

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.82  E-value=0.039  Score=41.10  Aligned_cols=26  Identities=15%  Similarity=0.475  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....|+++|..|+|||||...+....
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~   60 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQ   60 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678899999999999999998765

>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=94.82  E-value=0.018  Score=42.80  Aligned_cols=25  Identities=28%  Similarity=0.307  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+|.|+.|+||||+++.+....
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3588999999999999999886654

>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=94.79  E-value=0.024  Score=44.64  Aligned_cols=27  Identities=22%  Similarity=0.213  Sum_probs=21.3

Q ss_pred             CCCeEEEEEEc-CCCcchHHHHHHHHcc
Q 039127           45 DGGFFVIPIIG-MGGSGNTTPALPVYND   71 (162)
Q Consensus        45 ~~~~~vv~I~G-~gGiGKTtLa~~~~~~   71 (162)
                      ....++|+|++ -||+||||+|..+...
T Consensus       140 ~~~~kvIav~s~KGGvGKTT~a~nLA~~  167 (373)
T 3fkq_A          140 NDKSSVVIFTSPCGGVGTSTVAAACAIA  167 (373)
T ss_dssp             TTSCEEEEEECSSTTSSHHHHHHHHHHH
T ss_pred             CCCceEEEEECCCCCChHHHHHHHHHHH
Confidence            35678999986 8999999988776543

>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=94.79  E-value=0.021  Score=41.41  Aligned_cols=24  Identities=38%  Similarity=0.400  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..|+|-|.-|+||||+++.+....
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L   26 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL   26 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            468899999999999998887654

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=94.78  E-value=0.021  Score=45.04  Aligned_cols=24  Identities=13%  Similarity=0.209  Sum_probs=21.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +++|+|..|+|||||.+.+.....
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCccHHHHHHHHhcccc
Confidence            789999999999999999987654

>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=94.76  E-value=0.057  Score=43.64  Aligned_cols=24  Identities=21%  Similarity=0.225  Sum_probs=21.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...|+|+|.+|+|||||...+...
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~~   46 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAGE   46 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            468999999999999999998654

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=94.75  E-value=0.012  Score=45.73  Aligned_cols=25  Identities=24%  Similarity=0.161  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+.....
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCc
Confidence            3789999999999999999876543

>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=94.73  E-value=0.02  Score=42.63  Aligned_cols=26  Identities=27%  Similarity=0.281  Sum_probs=20.0

Q ss_pred             CeEEEEEEc-CCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIG-MGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G-~gGiGKTtLa~~~~~~~   72 (162)
                      ..++|+|++ -||+||||+|..+....
T Consensus        26 ~~~vI~v~s~kGGvGKTT~a~~LA~~l   52 (267)
T 3k9g_A           26 KPKIITIASIKGGVGKSTSAIILATLL   52 (267)
T ss_dssp             CCEEEEECCSSSSSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCchHHHHHHHHHHHH
Confidence            467888875 79999999987765443

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=94.73  E-value=0.023  Score=43.57  Aligned_cols=23  Identities=17%  Similarity=0.341  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++++|..|+|||||.+.+. ..
T Consensus       166 ~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          166 FICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             CEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             cEEEEECCCCCCHHHHHHHHH-Hh
Confidence            478999999999999999988 54

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=94.71  E-value=0.017  Score=45.49  Aligned_cols=24  Identities=33%  Similarity=0.324  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -+++.|.|.+|+||||||..+...
T Consensus        63 G~ii~I~G~pGsGKTtLal~la~~   86 (356)
T 1u94_A           63 GRIVEIYGPESSGKTTLTLQVIAA   86 (356)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            358889999999999999887643

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=94.69  E-value=0.0093  Score=42.21  Aligned_cols=26  Identities=27%  Similarity=0.425  Sum_probs=21.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..-.|+++|..|+|||||...+....
T Consensus        32 ~~~ki~vvG~~~~GKSsli~~l~~~~   57 (199)
T 3l0i_B           32 YLFKLLLIGDSGVGKSCLLLRFADDT   57 (199)
T ss_dssp             EEEEEEEECCTTSCCTTTTTSSBCCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCC
Confidence            34567899999999999998876544

>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=94.68  E-value=0.022  Score=44.45  Aligned_cols=25  Identities=12%  Similarity=0.106  Sum_probs=21.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-.++.|+|.+|+|||+||..+...
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~  145 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVT  145 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4568899999999999999887754

>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=94.68  E-value=0.022  Score=43.74  Aligned_cols=23  Identities=26%  Similarity=0.143  Sum_probs=20.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -.++.|+|.+|+|||+||..+..
T Consensus        98 g~i~~i~G~~gsGKT~la~~la~  120 (322)
T 2i1q_A           98 QSVTEFAGVFGSGKTQIMHQSCV  120 (322)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46889999999999999988774

>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=94.67  E-value=0.033  Score=44.81  Aligned_cols=37  Identities=22%  Similarity=0.164  Sum_probs=26.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc---eEEEEEeCCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV---NFNFALDDTW   84 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~---~~LlVlDdv~   84 (162)
                      -.++.|+|..|+|||||.+.+......   +++++=|++.
T Consensus       167 ggii~I~GpnGSGKTTlL~allg~l~~~~g~I~~~ed~ie  206 (418)
T 1p9r_A          167 HGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIE  206 (418)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhhcCCCCCEEEEecccch
Confidence            458999999999999999988654322   2444445553

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=94.66  E-value=0.018  Score=46.49  Aligned_cols=23  Identities=30%  Similarity=0.460  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..++|+|..|+|||||.+.++..
T Consensus        43 ~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           43 FNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEEEECSTTSSSHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCc
Confidence            33899999999999999999764

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=94.65  E-value=0.027  Score=40.92  Aligned_cols=24  Identities=17%  Similarity=0.115  Sum_probs=21.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ...+|+|+|++|+||+++|..+.+
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~   33 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQS   33 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHH
Confidence            457999999999999999988765

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=94.65  E-value=0.02  Score=41.26  Aligned_cols=25  Identities=24%  Similarity=0.417  Sum_probs=20.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|+|+|.+|+|||||...+.+..
T Consensus        13 ~~ki~v~G~~~vGKSsli~~l~~~~   37 (223)
T 3cpj_B           13 LFKIVLIGDSGVGKSNLLSRFTKNE   37 (223)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHHCC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            4467899999999999999987654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.65  E-value=0.021  Score=44.01  Aligned_cols=24  Identities=21%  Similarity=0.083  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -.++.|.|.+|+|||+||..+...
T Consensus        68 G~l~li~G~pG~GKTtl~l~ia~~   91 (315)
T 3bh0_A           68 RNFVLIAARPSMGKTAFALKQAKN   91 (315)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHH
Confidence            358889999999999999887643

>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=94.65  E-value=0.019  Score=40.95  Aligned_cols=21  Identities=29%  Similarity=0.362  Sum_probs=19.1

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      +.|+|.+|+|||++|..+...
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            578999999999999999876

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.60  E-value=0.017  Score=42.39  Aligned_cols=26  Identities=27%  Similarity=0.330  Sum_probs=22.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..|++.|..|+||||+++.+.+....
T Consensus         6 ~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            6 KLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            57889999999999999999877653

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=94.58  E-value=0.025  Score=45.50  Aligned_cols=24  Identities=17%  Similarity=0.246  Sum_probs=21.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..+++|+|..|+|||||.+.+...
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCC
Confidence            458999999999999999999873

>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=94.56  E-value=0.02  Score=44.28  Aligned_cols=24  Identities=21%  Similarity=0.158  Sum_probs=20.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -.++.|+|.+|+|||+||..+...
T Consensus       107 G~i~~i~G~~GsGKT~la~~la~~  130 (324)
T 2z43_A          107 RTMTEFFGEFGSGKTQLCHQLSVN  130 (324)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHhHHHHHHHHH
Confidence            358889999999999999888754

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=94.52  E-value=0.024  Score=44.46  Aligned_cols=24  Identities=33%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ..+++.+.|.||+||||+|..+..
T Consensus        17 ~~~i~~~~gkGGvGKTt~a~~lA~   40 (348)
T 3io3_A           17 SLKWIFVGGKGGVGKTTTSSSVAV   40 (348)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHH
Confidence            457888899999999999877653

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=94.52  E-value=0.023  Score=41.44  Aligned_cols=24  Identities=33%  Similarity=0.332  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..|++.|..|+||||+++.+....
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999998887654

>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=94.51  E-value=0.025  Score=42.29  Aligned_cols=24  Identities=25%  Similarity=0.170  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|+++|.+|+|||||...+....
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~   25 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNAN   25 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC
Confidence            468899999999999999998663

>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=94.51  E-value=0.028  Score=42.46  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=21.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...|+++|.+|+|||||...+...
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~   26 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGH   26 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCC
Confidence            356889999999999999999864

>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=94.49  E-value=0.049  Score=41.33  Aligned_cols=27  Identities=15%  Similarity=0.174  Sum_probs=23.3

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .....|+|+|..|+|||||...+....
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~   48 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRD   48 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSC
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCC
Confidence            456789999999999999999997654

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=94.48  E-value=0.024  Score=43.39  Aligned_cols=25  Identities=12%  Similarity=0.246  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++++|..|+|||||.+.+.....
T Consensus       170 eiv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          170 KISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             CeEEEECCCCCcHHHHHHHhccccc
Confidence            4789999999999999999886553

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=94.47  E-value=0.024  Score=40.89  Aligned_cols=20  Identities=35%  Similarity=0.511  Sum_probs=15.8

Q ss_pred             EEEEE-cCCCcchHHHHHHHH
Q 039127           50 VIPII-GMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~-G~gGiGKTtLa~~~~   69 (162)
                      +|+++ +-||+||||+|..+.
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA   22 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLS   22 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHH
Confidence            56665 579999999887765

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.46  E-value=0.027  Score=46.75  Aligned_cols=24  Identities=33%  Similarity=0.292  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||++.++.-.
T Consensus       313 e~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          313 EVIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            488999999999999999998654

>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=94.45  E-value=0.032  Score=41.71  Aligned_cols=25  Identities=16%  Similarity=0.222  Sum_probs=21.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+....
T Consensus         5 ~~kI~lvG~~nvGKTsL~n~l~g~~   29 (258)
T 3a1s_A            5 MVKVALAGCPNVGKTSLFNALTGTK   29 (258)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTTC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCC
Confidence            4568899999999999999997643

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.44  E-value=0.023  Score=47.12  Aligned_cols=22  Identities=27%  Similarity=0.507  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .+++|+|..|+|||||++.+..
T Consensus        48 e~~~LvG~NGaGKSTLlk~l~G   69 (538)
T 1yqt_A           48 MVVGIVGPNGTGKSTAVKILAG   69 (538)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4889999999999999998764

>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=94.44  E-value=0.024  Score=44.77  Aligned_cols=27  Identities=22%  Similarity=0.182  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++++|+|.+|+|||||...+.....
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~  204 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQ  204 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC--
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCc
Confidence            456799999999999999999987653

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=94.42  E-value=0.029  Score=44.28  Aligned_cols=23  Identities=26%  Similarity=0.390  Sum_probs=19.0

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHH
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPV   68 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~   68 (162)
                      .....|.|.|.||+||||+++.+
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            34556779999999999999875

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.41  E-value=0.025  Score=46.99  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||++.++.-.
T Consensus       295 ei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          295 EIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            378999999999999999997654

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=94.41  E-value=0.022  Score=42.83  Aligned_cols=22  Identities=23%  Similarity=0.496  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -.|+++|.+|+|||||...++.
T Consensus         9 ~~I~vvG~~g~GKSTLin~L~~   30 (274)
T 3t5d_A            9 FTLMVVGESGLGKSTLINSLFL   30 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhC
Confidence            4578999999999999988754

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.39  E-value=0.023  Score=45.95  Aligned_cols=36  Identities=8%  Similarity=-0.042  Sum_probs=27.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce-EEEEEeCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN-FNFALDDT   83 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-~LlVlDdv   83 (162)
                      -..++|+|..|+|||||.+.+.+..... --+.+++.
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~~~~~~G~i~~~G~  193 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARYTRADVIVVGLIGE  193 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCCSEEEEEEESC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcccCCCeEEEEEece
Confidence            3588999999999999999998766544 33444543

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=94.38  E-value=0.024  Score=45.66  Aligned_cols=22  Identities=18%  Similarity=0.398  Sum_probs=19.4

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+|+|..|+|||||.+.++...
T Consensus        34 I~lvG~sGaGKSTLln~L~g~~   55 (418)
T 2qag_C           34 LMVVGESGLGKSTLINSLFLTD   55 (418)
T ss_dssp             EEEECCTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            4899999999999999998653

>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=94.32  E-value=0.032  Score=41.05  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=17.8

Q ss_pred             EEEEEEc-CCCcchHHHHHHHHcc
Q 039127           49 FVIPIIG-MGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G-~gGiGKTtLa~~~~~~   71 (162)
                      ++|+|++ -||+||||+|..+...
T Consensus         3 ~vi~v~s~kgGvGKTt~a~~LA~~   26 (260)
T 3q9l_A            3 RIIVVTSGKGGVGKTTSSAAIATG   26 (260)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHH
Confidence            5777875 6999999998776543

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=94.29  E-value=0.027  Score=46.22  Aligned_cols=24  Identities=21%  Similarity=0.310  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++|+|..|+|||||.+.+..-.
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCC
Confidence            689999999999999999887543

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=94.29  E-value=0.028  Score=41.33  Aligned_cols=28  Identities=18%  Similarity=0.189  Sum_probs=23.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ..+|+|.|+.|+||||+|+.+.......
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg~~   41 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELGIH   41 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHTCE
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcCCc
Confidence            3689999999999999999998765544

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=94.26  E-value=0.086  Score=48.24  Aligned_cols=25  Identities=16%  Similarity=0.224  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus      1106 e~vaIVG~SGsGKSTL~~lL~rl~~ 1130 (1321)
T 4f4c_A         1106 QTLALVGPSGCGKSTVVALLERFYD 1130 (1321)
T ss_dssp             CEEEEECSTTSSTTSHHHHHTTSSC
T ss_pred             CEEEEECCCCChHHHHHHHHhcCcc
Confidence            4789999999999999999976544

>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=94.26  E-value=0.084  Score=38.63  Aligned_cols=63  Identities=16%  Similarity=-0.009  Sum_probs=41.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce-----------------------------------------------EEEEE
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------------------------------FNFAL   80 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------------------------------~LlVl   80 (162)
                      -.+..++|..|.||||.+.....+....                                               -++++
T Consensus        28 G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d~R~ge~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~dvViI  107 (214)
T 2j9r_A           28 GWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAVPVSASKDIFKHITEEMDVIAI  107 (214)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC-----------------CCEEECSSGGGGGGGCCSSCCEEEE
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCCcchHHHHHhhcCCeeEEeecCCHHHHHHHHhcCCCEEEE
Confidence            4688899999999999886654433221                                               27778


Q ss_pred             eCCCCCChhhHHHHHhhccccCCCcEEEEecCC
Q 039127           81 DDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN  113 (162)
Q Consensus        81 Ddv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~  113 (162)
                      |.+...+.+.++.+...-+   .|-.||+|.+.
T Consensus       108 DEaQF~~~~~V~~l~~l~~---~~~~Vi~~Gl~  137 (214)
T 2j9r_A          108 DEVQFFDGDIVEVVQVLAN---RGYRVIVAGLD  137 (214)
T ss_dssp             CCGGGSCTTHHHHHHHHHH---TTCEEEEEECS
T ss_pred             ECcccCCHHHHHHHHHHhh---CCCEEEEEecc
Confidence            8776545555544433222   26789999985

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.20  E-value=0.032  Score=46.32  Aligned_cols=25  Identities=20%  Similarity=0.320  Sum_probs=21.6

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-.+++|+|..|+|||||.+.+..-
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl   48 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGE   48 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3468999999999999999998753

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=94.19  E-value=0.01  Score=41.84  Aligned_cols=23  Identities=9%  Similarity=0.170  Sum_probs=4.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -.|+++|..|+|||||...+...
T Consensus        21 ~~i~v~G~~~~GKssli~~l~~~   43 (208)
T 2yc2_C           21 CKVAVVGEATVGKSALISMFTSK   43 (208)
T ss_dssp             EEEEEC-----------------
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46789999999999999887765

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=94.16  E-value=0.029  Score=43.89  Aligned_cols=26  Identities=19%  Similarity=0.174  Sum_probs=22.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....++++|.+|+|||||...+....
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~~  191 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTAK  191 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45688999999999999999987654

---

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	162
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	5e-06
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	4e-04

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 42.9 bits (100), Expect = 5e-06
 Identities = 15/79 (18%), Positives = 26/79 (32%), Gaps = 9/79 (11%)

Query: 80  LDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQGVA-SIMGTMPAYELKKLVNDNCLL 138
            DD  +E+ + W            R + +VTTR+  ++ +   T    E+  L  D C  
Sbjct: 141 FDDVVQEETIRWAQ--------ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYD 192

Query: 139 IFSQHPSGTREIVHWRKCL 157
               +             L
Sbjct: 193 FLEAYGMPMPVGEKEEDVL 211

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score = 37.1 bits (85), Expect = 4e-04
 Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 1/55 (1%)

Query: 27 GREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFALD 81
           RE   V+ V+K   E  D   F + + G  GSG +  A    +          D
Sbjct: 24 IREY-HVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYD 77

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	162
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.95
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.99
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.99
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.96
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.94
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.87
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.86
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.81
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.81
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.74
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.62
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.61
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.61
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.6
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.56
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.55
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.38
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.33
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.29
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.1
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.05
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	98.02
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.01
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.97
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.93
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.89
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.83
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.81
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.77
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.74
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.74
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.73
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	97.73
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.71
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.67
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.65
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	97.61
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.6
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.59
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.58
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.58
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.54
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.53
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.53
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.53
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.51
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.49
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.49
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.47
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.46
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.45
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	97.44
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.42
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.35
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.33
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.3
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.26
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.24
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	97.22
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.22
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.22
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.21
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.17
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.17
d1okkd2	207	GTPase domain of the signal recognition particle r	97.16
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.14
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.12
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.11
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	97.1
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.1
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.08
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	97.07
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.06
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.05
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.05
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	97.05
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	97.04
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.04
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.03
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	97.02
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.02
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.02
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.02
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.01
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	97.01
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	96.96
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	96.95
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.94
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.93
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.93
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	96.92
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.92
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.91
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.91
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.91
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.88
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.88
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	96.85
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.85
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.84
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	96.81
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.81
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.79
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	96.77
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.76
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.76
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.76
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	96.75
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	96.75
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	96.73
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.72
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	96.7
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	96.69
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	96.67
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	96.65
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	96.65
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.64
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.64
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	96.64
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	96.63
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.63
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	96.62
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	96.62
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.62
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.59
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	96.56
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	96.56
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.55
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	96.54
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.54
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.52
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	96.51
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	96.51
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	96.5
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	96.5
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.5
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.5
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	96.49
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	96.49
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	96.48
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.48
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	96.47
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	96.46
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	96.45
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.45
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.43
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	96.43
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	96.42
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	96.39
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	96.39
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	96.39
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.39
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.38
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.36
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	96.33
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	96.33
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	96.33
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	96.32
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.29
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.27
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	96.23
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	96.22
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.21
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.2
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	96.19
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.18
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.14
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.12
d1nrjb_	209	Signal recognition particle receptor beta-subunit	96.11
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.11
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	96.1
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.07
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.06
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.05
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.04
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.04
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.04
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	96.03
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.99
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.97
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.94
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.94
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.93
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.85
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.83
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.77
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.72
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	95.72
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	95.71
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.67
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.67
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.66
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.64
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.62
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.62
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.61
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.58
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	95.55
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.53
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.49
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.48
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	95.38
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	95.34
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.27
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.26
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.25
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.23
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.16
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	95.12
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.99
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.97
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	94.88
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	94.76
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	94.63
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	94.36
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	94.26
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	94.09
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	93.98
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	93.76
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.76
d1tuea_	205	Replication protein E1 helicase domain {Human papi	93.69
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	93.67
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	93.67
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	93.34
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.3
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	93.27
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	93.17
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	93.08
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	92.96
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	92.61
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.33
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	92.3
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	92.09
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	92.04
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	92.03
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	92.0
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	91.87
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	91.82
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	91.78
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	91.7
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	91.64
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	91.57
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	91.47
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.38
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	91.22
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	90.4
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	90.28
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	90.06
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	90.03
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	89.88
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	89.61
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	89.51
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	89.12
d1p3da1	96	UDP-N-acetylmuramate-alanine ligase MurC {Haemophi	88.85
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	87.64
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	86.32
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	85.99
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	85.96
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	85.58
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	84.77
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	84.07
d1j6ua1	89	UDP-N-acetylmuramate-alanine ligase MurC {Thermoto	83.61
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.27
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	82.75
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.32
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.01
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	80.84
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	80.7

>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=99.95  E-value=6.8e-28  Score=184.05  Aligned_cols=127  Identities=18%  Similarity=0.118  Sum_probs=101.7

Q ss_pred             cccCCCCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc--e---------------
Q 039127           16 QTVVPSVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV--N---------------   75 (162)
Q Consensus        16 ~~~~~~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~--~---------------   75 (162)
                      ....|..+.+|||+.   +|+++|....    +.+.++|+|+||||+||||||+++|++...  .               
T Consensus        13 ~~~~p~~~~~~gR~~~~~~i~~~L~~~~----~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~   88 (277)
T d2a5yb3          13 LGNVPKQMTCYIREYHVDRVIKKLDEMC----DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTA   88 (277)
T ss_dssp             HTTCBCCCCSCCCHHHHHHHHHHHHHHT----TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCS
T ss_pred             ccCCCCCCceeCcHHHHHHHHHHHHhcc----CCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCC
Confidence            345677888999999   7888887533    245789999999999999999999876431  1               


Q ss_pred             ------------------------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEE
Q 039127           76 ------------------------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKV  107 (162)
Q Consensus        76 ------------------------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  107 (162)
                                                                      +|+||||+|  +...|..+.      ..||+|
T Consensus        89 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~--~~~~~~~~~------~~~sri  160 (277)
T d2a5yb3          89 PKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVV--QEETIRWAQ------ELRLRC  160 (277)
T ss_dssp             TTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEEC--CHHHHHHHH------HTTCEE
T ss_pred             CHHHHHHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhh--HHhhhhhhc------ccCceE
Confidence                                                            899999999  888876553      248999


Q ss_pred             EEecCChhhHhhhCCC-CeeeCCCCCHHHHHHHHhhCCCCCCCCCCcc
Q 039127          108 IVTTRNQGVASIMGTM-PAYELKKLVNDNCLLIFSQHPSGTREIVHWR  154 (162)
Q Consensus       108 iiTTR~~~v~~~~~~~-~~~~l~~L~~~~~~~lf~~~af~~~~~~~~~  154 (162)
                      |||||+..++..+... +.|++++|+.++||+||++++|....+...+
T Consensus       161 lvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~  208 (277)
T d2a5yb3         161 LVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEE  208 (277)
T ss_dssp             EEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHH
T ss_pred             EEEeehHHHHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCchhhH
Confidence            9999999999876554 5799999999999999999999776554433

>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=98.99  E-value=1.1e-09  Score=80.45  Aligned_cols=44  Identities=14%  Similarity=0.107  Sum_probs=32.8

Q ss_pred             CCCceeeehHHHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           21 SVKLWLGREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        21 ~~~~~vGr~~~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +...|+||++++- .|.+..       .+.+.|+|++|+|||+|++++.+..
T Consensus        10 ~~~~f~GR~~el~-~l~~~~-------~~~i~i~G~~G~GKTsLl~~~~~~~   53 (283)
T d2fnaa2          10 NRKDFFDREKEIE-KLKGLR-------APITLVLGLRRTGKSSIIKIGINEL   53 (283)
T ss_dssp             SGGGSCCCHHHHH-HHHHTC-------SSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             ChhhCCChHHHHH-HHHhcc-------CCEEEEEcCCCCcHHHHHHHHHHHC
Confidence            4579999999443 333333       3578899999999999999887543

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.99  E-value=1.8e-09  Score=78.85  Aligned_cols=117  Identities=9%  Similarity=0.081  Sum_probs=79.0

Q ss_pred             CCceeeehH--HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           22 VKLWLGREE--GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        22 ~~~~vGr~~--~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      ..+++|+++  +.+..+....     ....-+.++|++|+||||+|+.+++.....                        
T Consensus        10 ~~diig~~~~~~~L~~~~~~~-----~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (252)
T d1sxje2          10 LNALSHNEELTNFLKSLSDQP-----RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNV   84 (252)
T ss_dssp             GGGCCSCHHHHHHHHTTTTCT-----TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CC
T ss_pred             HHHccCcHHHHHHHHHHHHcC-----CCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhh
Confidence            467999888  3332233222     234457799999999999999987652100                        


Q ss_pred             ------------------------------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEE
Q 039127           76 ------------------------------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKV  107 (162)
Q Consensus        76 ------------------------------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~i  107 (162)
                                                                      -++++|+++......+..++..+.......++
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~  164 (252)
T d1sxje2          85 VSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRL  164 (252)
T ss_dssp             EECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEE
T ss_pred             ccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccccchhhhcccccccccccc
Confidence                                                            38899999977777788887777766666776


Q ss_pred             EEecCChh-hH-hhhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          108 IVTTRNQG-VA-SIMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       108 iiTTR~~~-v~-~~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      |+||.+.. +. ........+++.+++.++..+++.+.
T Consensus       165 Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i  202 (252)
T d1sxje2         165 IMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDV  202 (252)
T ss_dssp             EEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHH
T ss_pred             eeeeccccchhhhhhcchheeeecccchhhHHHHHHHH
Confidence            66665432 22 22222246889999999988888653

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.96  E-value=2e-09  Score=77.79  Aligned_cols=117  Identities=10%  Similarity=0.136  Sum_probs=83.7

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ...+++|.++   .+.+++....       .+.+.++|++|+||||+|+.+++.....                      
T Consensus        12 ~~~divg~~~~~~~L~~~i~~~~-------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~   84 (227)
T d1sxjc2          12 TLDEVYGQNEVITTVRKFVDEGK-------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRN   84 (227)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTTC-------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHT
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-------CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccCCeeeeec
Confidence            3478999888   5555554433       3346699999999999999887642111                      


Q ss_pred             ----------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHh-hhCCCCeeeCCCCCHHHHH
Q 039127           76 ----------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVAS-IMGTMPAYELKKLVNDNCL  137 (162)
Q Consensus        76 ----------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~-~~~~~~~~~l~~L~~~~~~  137 (162)
                                      -++|+|+++.........++..+....+.+.++++|.+. .+.. .......+++.+++.++-.
T Consensus        85 ~~~~~~~~~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~  164 (227)
T d1sxjc2          85 QIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIE  164 (227)
T ss_dssp             HHHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHH
T ss_pred             chhhccccccccCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHHHhhhccccccccccc
Confidence                            489999999777777778888887777777777777653 3322 2333447899999999988


Q ss_pred             HHHhhCC
Q 039127          138 LIFSQHP  144 (162)
Q Consensus       138 ~lf~~~a  144 (162)
                      ..+.+.+
T Consensus       165 ~~l~~I~  171 (227)
T d1sxjc2         165 RRIANVL  171 (227)
T ss_dssp             HHHHHHH
T ss_pred             ccccccc
Confidence            8887643

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.94  E-value=1.9e-09  Score=77.93  Aligned_cols=117  Identities=14%  Similarity=0.122  Sum_probs=82.6

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ...+++|.++   .+.+++....       .+-+.++|++|+||||+|+.+.+.....                      
T Consensus        13 ~~~d~ig~~~~~~~L~~~~~~~~-------~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~   85 (224)
T d1sxjb2          13 VLSDIVGNKETIDRLQQIAKDGN-------MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRN   85 (224)
T ss_dssp             SGGGCCSCTHHHHHHHHHHHSCC-------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHT
T ss_pred             CHHHhcCCHHHHHHHHHHHHcCC-------CCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccCCceehhh
Confidence            4578999988   6666665544       3346799999999999998776442211                      


Q ss_pred             -----------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHh-hhCCCCeeeCCCCCHHHH
Q 039127           76 -----------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVAS-IMGTMPAYELKKLVNDNC  136 (162)
Q Consensus        76 -----------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~-~~~~~~~~~l~~L~~~~~  136 (162)
                                       -++|+|+++.........++..+.......+++++|.+ ..+.. .......+++.+++.++-
T Consensus        86 ~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~~~~i  165 (224)
T d1sxjb2          86 QIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDV  165 (224)
T ss_dssp             HHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHH
T ss_pred             HHHHHHHhhccCCCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHHHHHHhhhcccchhhh
Confidence                             48899999977777777777777665666666666555 33322 234445799999999998


Q ss_pred             HHHHhhCC
Q 039127          137 LLIFSQHP  144 (162)
Q Consensus       137 ~~lf~~~a  144 (162)
                      ...+.+.+
T Consensus       166 ~~~l~~i~  173 (224)
T d1sxjb2         166 LKRLLQII  173 (224)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887544

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=98.87  E-value=5.2e-09  Score=75.79  Aligned_cols=117  Identities=14%  Similarity=0.122  Sum_probs=82.4

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      ...+++|.+.   .+.+++-...       .+-+.++|++|+||||+|+.+.+.....                      
T Consensus        22 ~~~diig~~~~~~~l~~~i~~~~-------~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~   94 (231)
T d1iqpa2          22 RLDDIVGQEHIVKRLKHYVKTGS-------MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIRE   94 (231)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHTC-------CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHH
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-------CCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcccchhHHHH
Confidence            4578999988   6666665544       4457799999999999999887542110                      


Q ss_pred             ----------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCC-hhhHhh-hCCCCeeeCCCCCHHHHH
Q 039127           76 ----------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRN-QGVASI-MGTMPAYELKKLVNDNCL  137 (162)
Q Consensus        76 ----------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~-~~~~~~~~l~~L~~~~~~  137 (162)
                                      .++++|+++......+..++..+........+|.+|.. ..+... ......+.+.+.+.++..
T Consensus        95 ~~~~~~~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~~~~~~~  174 (231)
T d1iqpa2          95 KVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIA  174 (231)
T ss_dssp             HHHHHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHH
T ss_pred             HHHHHHhhhhccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCccccccccccchhhHH
Confidence                            78899999877788888887777655444555555544 333222 223346899999999988


Q ss_pred             HHHhhCC
Q 039127          138 LIFSQHP  144 (162)
Q Consensus       138 ~lf~~~a  144 (162)
                      ..+++.+
T Consensus       175 ~~l~~~~  181 (231)
T d1iqpa2         175 KRLRYIA  181 (231)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887654

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.86  E-value=2.9e-09  Score=77.10  Aligned_cols=118  Identities=9%  Similarity=0.084  Sum_probs=80.4

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCc------e----------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTV------N----------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------~----------------   75 (162)
                      ...+++|.+.   .+..++-...       .+.+.++|++|+||||+|+.+++....      .                
T Consensus        10 ~~~diig~~~~~~~l~~~i~~~~-------~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   82 (237)
T d1sxjd2          10 NLDEVTAQDHAVTVLKKTLKSAN-------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVR   82 (237)
T ss_dssp             STTTCCSCCTTHHHHHHHTTCTT-------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHT
T ss_pred             CHHHccCcHHHHHHHHHHHHcCC-------CCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHH
Confidence            3467899988   4444544332       344779999999999999988765210      0                


Q ss_pred             ---------------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhH-hhhCCCCee
Q 039127           76 ---------------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVA-SIMGTMPAY  126 (162)
Q Consensus        76 ---------------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~-~~~~~~~~~  126 (162)
                                                 -++|+|+++......+..+...+........+++++.+. ... ........+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i  162 (237)
T d1sxjd2          83 EKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKF  162 (237)
T ss_dssp             THHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             HHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccchhhhh
Confidence                                       279999998777777777776666555566666665542 222 222222468


Q ss_pred             eCCCCCHHHHHHHHhhCCC
Q 039127          127 ELKKLVNDNCLLIFSQHPS  145 (162)
Q Consensus       127 ~l~~L~~~~~~~lf~~~af  145 (162)
                      ++.+++.++...++.+.+.
T Consensus       163 ~f~~~~~~~~~~~L~~i~~  181 (237)
T d1sxjd2         163 RFKALDASNAIDRLRFISE  181 (237)
T ss_dssp             ECCCCCHHHHHHHHHHHHH
T ss_pred             ccccccccccchhhhhhhh
Confidence            9999999999999887643

>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=98.81  E-value=2.9e-09  Score=76.99  Aligned_cols=119  Identities=17%  Similarity=0.112  Sum_probs=75.1

Q ss_pred             CCCceeeehH----HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce---------------------
Q 039127           21 SVKLWLGREE----GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~----~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------   75 (162)
                      ....++|...    ..+..+....    +.....+.|||..|+|||.|++++++....+                     
T Consensus         9 FdnF~vg~~N~~a~~~~~~~~~~~----~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (213)
T d1l8qa2           9 LENFIVGEGNRLAYEVVKEALENL----GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLK   84 (213)
T ss_dssp             SSSCCCCTTTHHHHHHHHHHHHTT----TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHH
T ss_pred             hhhccCCCcHHHHHHHHHHHHhCc----CCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHH
Confidence            3455667544    3334443332    1223346799999999999999988764321                     


Q ss_pred             --------------EEEEEeCCCCC-ChhhHHH-HHhhccc-cCCCcEEEEecCCh---------hhHhhhCCCCeeeCC
Q 039127           76 --------------FNFALDDTWKE-KYVDWTN-MRDLFAA-VASRSKVIVTTRNQ---------GVASIMGTMPAYELK  129 (162)
Q Consensus        76 --------------~LlVlDdv~~~-~~~~~~~-l~~~l~~-~~~gs~iiiTTR~~---------~v~~~~~~~~~~~l~  129 (162)
                                    -++++||++.. ....|+. +...+.. ...|.++|+||+..         ++.+.+.....++++
T Consensus        85 ~~~~~~~~~~~~~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~  164 (213)
T d1l8qa2          85 KGTINEFRNMYKSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE  164 (213)
T ss_dssp             HTCHHHHHHHHHTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC
T ss_pred             ccchhhHHHHHhhccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHHHHHhhCceEEEEC
Confidence                          58999999743 2345554 4343333 34677899999863         234445555678886


Q ss_pred             CCCHHHHHHHHhhCC
Q 039127          130 KLVNDNCLLIFSQHP  144 (162)
Q Consensus       130 ~L~~~~~~~lf~~~a  144 (162)
                       ++.++...++++.+
T Consensus       165 -p~d~~~~~iL~~~a  178 (213)
T d1l8qa2         165 -LDNKTRFKIIKEKL  178 (213)
T ss_dssp             -CCHHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHH
Confidence             57777778887665

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.81  E-value=2.1e-08  Score=73.18  Aligned_cols=117  Identities=11%  Similarity=0.101  Sum_probs=81.4

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCC------------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKT------------------------   73 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~------------------------   73 (162)
                      .-.+++|.++   .+.+++....      -...+.++|..|+|||++|+.+.+...                        
T Consensus        10 ~~~dlig~~~~~~~L~~~i~~~~------~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~   83 (239)
T d1njfa_          10 TFADVVGQEHVLTALANGLSLGR------IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRF   83 (239)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHTTC------CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCC
T ss_pred             CHHHccChHHHHHHHHHHHHcCC------CCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHHHHHcCCC
Confidence            3478999888   4555554433      234577999999999999998753210                        


Q ss_pred             -----------ce--------------------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHhhh-
Q 039127           74 -----------VN--------------------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVASIM-  120 (162)
Q Consensus        74 -----------~~--------------------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~~~-  120 (162)
                                 ..                    -++|+|+++..+.+....|+..+......+.+|++|.+. .+...+ 
T Consensus        84 ~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~  163 (239)
T d1njfa_          84 VDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTIL  163 (239)
T ss_dssp             TTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHH
T ss_pred             CeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCccccChhHh
Confidence                       00                    589999999877778888888887656667777766553 332222 


Q ss_pred             CCCCeeeCCCCCHHHHHHHHhhC
Q 039127          121 GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       121 ~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ..-..+.+.+++.++....+...
T Consensus       164 SRc~~i~~~~~~~~~i~~~l~~i  186 (239)
T d1njfa_         164 SRCLQFHLKALDVEQIRHQLEHI  186 (239)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHH
T ss_pred             hhhcccccccCcHHHhhhHHHHH
Confidence            33347899999999988777654

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.74  E-value=3.5e-08  Score=73.49  Aligned_cols=112  Identities=16%  Similarity=0.176  Sum_probs=75.4

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      +.++||++   +++..|....       -.-+.++|.+|+|||+++..++++....                        
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~-------k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~   90 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRR-------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTK   90 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS-------SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCC
T ss_pred             CcccChHHHHHHHHHHHhcCc-------cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCc
Confidence            46899998   6667676544       2355699999999999988877542111                        


Q ss_pred             ---------------------EEEEEeCCCCC--------ChhhHHHHHhhccccCCCcEEEEecCChhhHhhhCCC---
Q 039127           76 ---------------------FNFALDDTWKE--------KYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGTM---  123 (162)
Q Consensus        76 ---------------------~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~~~~---  123 (162)
                                           .++++|+++..        +......+..++.. ...-++|.+|..+........+   
T Consensus        91 ~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~~~~e~d~al  169 (268)
T d1r6bx2          91 YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSNIFEKDRAL  169 (268)
T ss_dssp             CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHCCCCCTTSS
T ss_pred             cchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh-CCCCeEEEeCCHHHHHHHHhhcHHH
Confidence                                 88999998742        11223334333332 2234788888887776554432   


Q ss_pred             ----CeeeCCCCCHHHHHHHHhh
Q 039127          124 ----PAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       124 ----~~~~l~~L~~~~~~~lf~~  142 (162)
                          +.+++.+++.+++..++..
T Consensus       170 ~rrF~~I~V~Eps~e~t~~IL~~  192 (268)
T d1r6bx2         170 ARRFQKIDITEPSIEETVQIING  192 (268)
T ss_dssp             GGGEEEEECCCCCHHHHHHHHHH
T ss_pred             HhhhcccccCCCCHHHHHHHHHH
Confidence                2688999999999998864

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.62  E-value=1.8e-07  Score=66.83  Aligned_cols=96  Identities=8%  Similarity=0.019  Sum_probs=73.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc----e------------------------------------------------
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV----N------------------------------------------------   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~----~------------------------------------------------   75 (162)
                      ...+.++|..|+||||+|+.+.+..--    .                                                
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~~~ir~l~~~~~~~  103 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEH  103 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTCSSBCHHHHHHHHHHTTSC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhcccccccchhhHHhhhhhhc
Confidence            446889999999999999987653200    0                                                


Q ss_pred             ------EEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh-hhHhhh-CCCCeeeCCCCCHHHHHHHHhhC
Q 039127           76 ------FNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ-GVASIM-GTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus        76 ------~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~-~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                            -++|+|+++..+.+.+..|+..+........+|.||++. .+...+ .....+.+.+++.++....+...
T Consensus       104 ~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~~~~~~~~~L~~~  179 (207)
T d1a5ta2         104 ARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWLSRE  179 (207)
T ss_dssp             CTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHH
T ss_pred             cccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcceeEEEecCCCCHHHHHHHHHHc
Confidence                  589999999888888999998888777778877777664 343333 33457999999999999888764

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.61  E-value=9.1e-08  Score=69.25  Aligned_cols=122  Identities=15%  Similarity=0.039  Sum_probs=71.7

Q ss_pred             CCCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce----------------------
Q 039127           21 SVKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN----------------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~----------------------   75 (162)
                      .-.+++|.+.   .+..++....  ..+...+-+.++|++|+|||++|+.+.+.....                      
T Consensus         7 ~~~divGqe~~~~~l~~~i~~~~--~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (238)
T d1in4a2           7 SLDEFIGQENVKKKLSLALEAAK--MRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQGDMAAILTSL   84 (238)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHH--HHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHHHHHC
T ss_pred             cHHHcCChHHHHHHHHHHHHHHH--hcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccHHHHHHHHHhh
Confidence            3478999998   4444543211  011234457799999999999999998765533                      


Q ss_pred             ---EEEEEeCCCCCChhhHHHHHhhcccc------------------CCCcEEEE-ecCChhhHhh--hCCCCeeeCCCC
Q 039127           76 ---FNFALDDTWKEKYVDWTNMRDLFAAV------------------ASRSKVIV-TTRNQGVASI--MGTMPAYELKKL  131 (162)
Q Consensus        76 ---~LlVlDdv~~~~~~~~~~l~~~l~~~------------------~~gs~iii-TTR~~~v~~~--~~~~~~~~l~~L  131 (162)
                         ..+++|.++..+....+.+.......                  .+...+|. |++.......  ......+.+...
T Consensus        85 ~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~~~~~~~~~  164 (238)
T d1in4a2          85 ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFY  164 (238)
T ss_dssp             CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCC
T ss_pred             ccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCccccccceeeeeEEEEecCC
Confidence               66778888755443333333322211                  11223444 4444433221  222335789999


Q ss_pred             CHHHHHHHHhhCC
Q 039127          132 VNDNCLLIFSQHP  144 (162)
Q Consensus       132 ~~~~~~~lf~~~a  144 (162)
                      +.++...++...+
T Consensus       165 ~~~~~~~~l~~~~  177 (238)
T d1in4a2         165 TVKELKEIIKRAA  177 (238)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhh
Confidence            9999888887543

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.61  E-value=3.7e-07  Score=66.31  Aligned_cols=122  Identities=11%  Similarity=0.100  Sum_probs=73.8

Q ss_pred             CCCceeeehH---HHHHHhhc----------CCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------
Q 039127           21 SVKLWLGREE---GTVELVLK----------DDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------   75 (162)
Q Consensus        21 ~~~~~vGr~~---~i~~~l~~----------~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------   75 (162)
                      ...+++|.+.   ++.+++..          ..........+.+.++|++|+||||+|+.+++.....            
T Consensus        12 ~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~~~~   91 (253)
T d1sxja2          12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSK   91 (253)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSCCCH
T ss_pred             CHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccchhh
Confidence            3578999888   66666532          0000123345678899999999999999998865433            


Q ss_pred             ---------------------------------EEEEEeCCCCCC---hhhHHHHHhhccccCCCcEEEEec-CCh-hhH
Q 039127           76 ---------------------------------FNFALDDTWKEK---YVDWTNMRDLFAAVASRSKVIVTT-RNQ-GVA  117 (162)
Q Consensus        76 ---------------------------------~LlVlDdv~~~~---~~~~~~l~~~l~~~~~gs~iiiTT-R~~-~v~  117 (162)
                                                       .++++|++....   ...+..+........ ...+++++ .+. .+.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~~-~~ii~i~~~~~~~~~~  170 (253)
T d1sxja2          92 TLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTS-TPLILICNERNLPKMR  170 (253)
T ss_dssp             HHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHCS-SCEEEEESCTTSSTTG
T ss_pred             HHHHHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhcccc-cccccccccccccccc
Confidence                                             578889876432   233444443332222 22333333 222 223


Q ss_pred             hhhCCCCeeeCCCCCHHHHHHHHhhC
Q 039127          118 SIMGTMPAYELKKLVNDNCLLIFSQH  143 (162)
Q Consensus       118 ~~~~~~~~~~l~~L~~~~~~~lf~~~  143 (162)
                      ........+++.+++.++....+...
T Consensus       171 ~l~~~~~~i~f~~~~~~~i~~~l~~i  196 (253)
T d1sxja2         171 PFDRVCLDIQFRRPDANSIKSRLMTI  196 (253)
T ss_dssp             GGTTTSEEEECCCCCHHHHHHHHHHH
T ss_pred             cccceeeeeeccccchhHHHHHHHHH
Confidence            22233347999999999988887653

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.60  E-value=5.1e-08  Score=69.26  Aligned_cols=109  Identities=12%  Similarity=0.103  Sum_probs=71.0

Q ss_pred             CceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce------------------------
Q 039127           23 KLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------------   75 (162)
                      +.++||++   ++++.|....       -.-+.++|.+|+|||+++..++++....                        
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~-------k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~   94 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRT-------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAK   94 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS-------SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTC
T ss_pred             CCCcCcHHHHHHHHHHHhccC-------CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCC
Confidence            46889998   6666666544       2345699999999999987776533211                        


Q ss_pred             ----------------------EEEEEeCCCCC--------ChhhHHHHHhhccccCCCcEEEEecCChhhHhhhCC---
Q 039127           76 ----------------------FNFALDDTWKE--------KYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIMGT---  122 (162)
Q Consensus        76 ----------------------~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~~~---  122 (162)
                                            .+|++|+++..        ..+.-+-|++++..  ..-++|.||-.+........   
T Consensus        95 ~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r--g~l~~IgatT~eey~~~~e~d~a  172 (195)
T d1jbka_          95 YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR--GELHCVGATTLDEYRQYIEKDAA  172 (195)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT--TSCCEEEEECHHHHHHHTTTCHH
T ss_pred             ccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHhC--CCceEEecCCHHHHHHHHHcCHH
Confidence                                  79999998742        11222334444442  23467777776665554332   


Q ss_pred             ----CCeeeCCCCCHHHHHHHH
Q 039127          123 ----MPAYELKKLVNDNCLLIF  140 (162)
Q Consensus       123 ----~~~~~l~~L~~~~~~~lf  140 (162)
                          -+.+++.+.+.+++..++
T Consensus       173 L~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         173 LERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHhcCCEeecCCCCHHHHHHHh
Confidence                236889999999887654

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.56  E-value=4.6e-07  Score=65.80  Aligned_cols=46  Identities=17%  Similarity=0.161  Sum_probs=33.4

Q ss_pred             CceeeehH---HHHHHhhc---CCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           23 KLWLGREE---GTVELVLK---DDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~~---~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..++||+.   .+.++|..   ..    +...+.+.|+|++|+|||++|+.+++..
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~----~~~~~~lll~GppGtGKT~l~~~l~~~l   67 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNP----GHHYPRATLLGRPGTGKTVTLRKLWELY   67 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHST----TSSCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCC----CCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            46899998   44554432   11    1345678899999999999999998654

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.55  E-value=2.2e-07  Score=67.26  Aligned_cols=121  Identities=14%  Similarity=0.071  Sum_probs=71.3

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-----------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-----------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-----------------------   75 (162)
                      -.+++|.+.   ++..++....  ......+-+.++|++|+||||+|+.+++.....                       
T Consensus         8 ~ddivGq~~~~~~L~~~i~~~~--~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (239)
T d1ixsb2           8 LDEYIGQERLKQKLRVYLEAAK--ARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKPGDLAAILANSL   85 (239)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHT--TSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHHHHH--hcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccchhhHHHHHhhc
Confidence            467899988   3333432211  112335567799999999999999998766543                       


Q ss_pred             ---EEEEEeCCCCCChhhHHHHHhhccc------------------cCCCcEEE-EecCChhh--HhhhCCCCeeeCCCC
Q 039127           76 ---FNFALDDTWKEKYVDWTNMRDLFAA------------------VASRSKVI-VTTRNQGV--ASIMGTMPAYELKKL  131 (162)
Q Consensus        76 ---~LlVlDdv~~~~~~~~~~l~~~l~~------------------~~~gs~ii-iTTR~~~v--~~~~~~~~~~~l~~L  131 (162)
                         .++++|.++.......+.+......                  ..+...++ .|++....  .........+.+...
T Consensus        86 ~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~  165 (239)
T d1ixsb2          86 EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYY  165 (239)
T ss_dssp             CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCSCGGGGGCSEEEECCCC
T ss_pred             cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCEEEEeeccCcccccchhhcccceeeEeecc
Confidence               4777898886555544444433211                  01122233 34443322  222233446888889


Q ss_pred             CHHHHHHHHhhCC
Q 039127          132 VNDNCLLIFSQHP  144 (162)
Q Consensus       132 ~~~~~~~lf~~~a  144 (162)
                      +.++...++.+.+
T Consensus       166 ~~~~~~~i~~~~~  178 (239)
T d1ixsb2         166 TPEELAQGVMRDA  178 (239)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             ChhhhhHHHHHHH
Confidence            9888877766543

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.38  E-value=8.4e-07  Score=65.05  Aligned_cols=122  Identities=16%  Similarity=0.063  Sum_probs=71.5

Q ss_pred             CceeeehH------HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-------------------
Q 039127           23 KLWLGREE------GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------   75 (162)
Q Consensus        23 ~~~vGr~~------~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------   75 (162)
                      .+++|.++      +++..+......  .+....+-+.++|++|+|||+||+.+++.....                   
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~~g~~~~   88 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAA   88 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTTHHHH
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhhhccccHHHH
Confidence            57889887      344333221100  011224467899999999999999999776554                   


Q ss_pred             --------------EEEEEeCCCCC-----------Ch---hhHHHHHhhcccc-C-CCcEEEEecCChh-hHhhh---C
Q 039127           76 --------------FNFALDDTWKE-----------KY---VDWTNMRDLFAAV-A-SRSKVIVTTRNQG-VASIM---G  121 (162)
Q Consensus        76 --------------~LlVlDdv~~~-----------~~---~~~~~l~~~l~~~-~-~gs~iiiTTR~~~-v~~~~---~  121 (162)
                                    ++|++||++..           +.   .....+...+... . .+--+|.||...+ +-..+   +
T Consensus        89 ~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~~  168 (247)
T d1ixza_          89 RVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPG  168 (247)
T ss_dssp             HHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTT
T ss_pred             HHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCccccCHhHcCCC
Confidence                          79999998520           00   0122333333321 2 2222334665533 22222   1


Q ss_pred             C-CCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 T-MPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 ~-~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      . .+.+++.+.+.++...+|+...
T Consensus       169 Rf~~~i~~~~P~~~eR~~il~~~l  192 (247)
T d1ixza_         169 RFDRQIAIDAPDVKGREQILRIHA  192 (247)
T ss_dssp             SSCEEEECCSCCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCcCHHHHHHHHHHHh
Confidence            2 3478999999999999998664

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.33  E-value=6.4e-07  Score=69.81  Aligned_cols=112  Identities=13%  Similarity=0.132  Sum_probs=67.3

Q ss_pred             CCceeeehH---HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc----CCce-------------------
Q 039127           22 VKLWLGREE---GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND----KTVN-------------------   75 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~----~~~~-------------------   75 (162)
                      .+.++||+.   ++++.|....       -.-+.++|.+|+|||+|+..++++    .-..                   
T Consensus        21 ld~~~gr~~ei~~~~~~L~r~~-------k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~   93 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILLRRT-------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGA   93 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSS-------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------
T ss_pred             CCCCcCcHHHHHHHHHHHhcCC-------CCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhccc
Confidence            356889998   7777777544       123358899999999988655542    1110                   


Q ss_pred             -----------------------EEEEEeCCCCC--------ChhhHHHHHhhccccCCCcEEEEecCChhhHhhh----
Q 039127           76 -----------------------FNFALDDTWKE--------KYVDWTNMRDLFAAVASRSKVIVTTRNQGVASIM----  120 (162)
Q Consensus        76 -----------------------~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~gs~iiiTTR~~~v~~~~----  120 (162)
                                             ++|++|+++..        +.+.-+-|+++|..+  .-++|.+|-.......-    
T Consensus        94 ~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg--~~~~I~~tT~~ey~~~e~d~a  171 (387)
T d1qvra2          94 KYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARG--ELRLIGATTLDEYREIEKDPA  171 (387)
T ss_dssp             ----CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHTT--CCCEEEEECHHHHHHHTTCTT
T ss_pred             CcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhCC--CcceeeecCHHHHHHhcccHH
Confidence                                   78999999842        112223344444322  23566666565554321    


Q ss_pred             --CCCCeeeCCCCCHHHHHHHHhh
Q 039127          121 --GTMPAYELKKLVNDNCLLIFSQ  142 (162)
Q Consensus       121 --~~~~~~~l~~L~~~~~~~lf~~  142 (162)
                        ..-+.+.+.+.+.+++..++..
T Consensus       172 l~rrF~~v~v~ep~~~~~~~il~~  195 (387)
T d1qvra2         172 LERRFQPVYVDEPTVEETISILRG  195 (387)
T ss_dssp             TCSCCCCEEECCCCHHHHHHHHHH
T ss_pred             HHHhcccccCCCCcHHHHHHHHHH
Confidence              1224789999999999999864

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.29  E-value=1.6e-06  Score=63.94  Aligned_cols=122  Identities=15%  Similarity=-0.002  Sum_probs=72.8

Q ss_pred             CceeeehH------HHHHHhhcCCCC--CCCCCeEEEEEEcCCCcchHHHHHHHHccCCce-------------------
Q 039127           23 KLWLGREE------GTVELVLKDDSE--TIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------   75 (162)
Q Consensus        23 ~~~vGr~~------~i~~~l~~~~~~--~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------   75 (162)
                      .+++|.++      +++.++......  .+....+.+.++|++|+|||++|+.+++.....                   
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~~~~g~~~~   91 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGAS   91 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCCCCCHH
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhhcchhHHHH
Confidence            68889888      445554322100  012234567799999999999999998765433                   


Q ss_pred             --------------EEEEEeCCCCC----------Chhh----HHHHHhhccc--cCCCcEEEEecCChhhH-h-hhC--
Q 039127           76 --------------FNFALDDTWKE----------KYVD----WTNMRDLFAA--VASRSKVIVTTRNQGVA-S-IMG--  121 (162)
Q Consensus        76 --------------~LlVlDdv~~~----------~~~~----~~~l~~~l~~--~~~gs~iiiTTR~~~v~-~-~~~--  121 (162)
                                    ++|++||++..          ....    ...+...+..  ...+--+|.||.+.+.. . ...  
T Consensus        92 ~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~g  171 (256)
T d1lv7a_          92 RVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPG  171 (256)
T ss_dssp             HHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTT
T ss_pred             HHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeCCCcccCCHhHcCCC
Confidence                          78889998520          0112    2233333332  22233455577664332 2 222  


Q ss_pred             -CCCeeeCCCCCHHHHHHHHhhCC
Q 039127          122 -TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus       122 -~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                       -.+.+.+...+.++-..+|+.+.
T Consensus       172 Rfd~~i~i~~P~~~~R~~il~~~l  195 (256)
T d1lv7a_         172 RFDRQVVVGLPDVRGREQILKVHM  195 (256)
T ss_dssp             SSCEEEECCCCCHHHHHHHHHHHH
T ss_pred             CCCEEEECCCcCHHHHHHHHHHhc
Confidence             13478999999999888887653

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=98.10  E-value=3e-06  Score=61.91  Aligned_cols=27  Identities=19%  Similarity=0.220  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..+.|.++|++|+|||++|+.+++...
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~~~   65 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEESN   65 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhccc
Confidence            456788999999999999999987644

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.05  E-value=1.9e-05  Score=57.85  Aligned_cols=97  Identities=15%  Similarity=0.037  Sum_probs=63.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCC-------C
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKE-------K   87 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~-------~   87 (162)
                      .+-+.++|++|+|||++|+.+.+.....                                 ++|++||++..       +
T Consensus        38 ~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~  117 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH  117 (258)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCC
T ss_pred             CceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCC
Confidence            4567899999999999999998866554                                 89999999742       1


Q ss_pred             hhhH----HHHHhhccc--cCCCcEEEEecCChhhH-hhh-C---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           88 YVDW----TNMRDLFAA--VASRSKVIVTTRNQGVA-SIM-G---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        88 ~~~~----~~l~~~l~~--~~~gs~iiiTTR~~~v~-~~~-~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                      .+..    ..+...+..  ...+.-+|.||.+..-. ..+ .   -...+++...+.++...+|....
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l  185 (258)
T d1e32a2         118 GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHT  185 (258)
T ss_dssp             CTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTT
T ss_pred             CchHHHHHHHhccccccccccCCccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhc
Confidence            1111    122222222  22333456688775432 112 1   23478999999999999998764

>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=98.02  E-value=7.4e-06  Score=55.15  Aligned_cols=25  Identities=20%  Similarity=0.215  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ++|.|.|++|+||||+|+.+.....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcC
Confidence            5788999999999999999986654

>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=98.01  E-value=1.2e-05  Score=60.64  Aligned_cols=76  Identities=13%  Similarity=0.107  Sum_probs=53.3

Q ss_pred             CceeeehH---HHHHHh---hcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCce---------------------
Q 039127           23 KLWLGREE---GTVELV---LKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l---~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------   75 (162)
                      ..++|.++   .+...+   ...-. ..+....++.++|+.|+|||.||+.+.......                     
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~-~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l~g~  100 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLG-HEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGA  100 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCS-CTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCC
T ss_pred             CeecChHHHHHHHHHHHHHHHccCC-CCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhhccc
Confidence            57889988   333322   21110 122345678899999999999999986544322                     


Q ss_pred             ----------------------EEEEEeCCCCCChhhHHHHHhhcc
Q 039127           76 ----------------------FNFALDDTWKEKYVDWTNMRDLFA   99 (162)
Q Consensus        76 ----------------------~LlVlDdv~~~~~~~~~~l~~~l~   99 (162)
                                            ..+.||+++....+.|..+...+.
T Consensus       101 ~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa~~~V~~~lLqild  146 (315)
T d1r6bx3         101 PPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMD  146 (315)
T ss_dssp             CSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGSCHHHHHHHHHHHH
T ss_pred             CCCccccccCChhhHHHHhCccchhhhcccccccchHhhhhHHhhc
Confidence                                  788899999888888888887774

>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=97.97  E-value=1e-05  Score=59.56  Aligned_cols=98  Identities=11%  Similarity=0.004  Sum_probs=62.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce---------------------------------EEEEEeCCCCCC------
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN---------------------------------FNFALDDTWKEK------   87 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------~LlVlDdv~~~~------   87 (162)
                      ..+-+.++|++|.|||+||+.+++.....                                 +++++||++..-      
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~  119 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGN  119 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHC
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCc
Confidence            34567799999999999999998876554                                 899999986321      


Q ss_pred             ----hhh----HHHHHhhccc--cCCCcEEEEecCChhhH-hhh-C---CCCeeeCCCCCHHHHHHHHhhCC
Q 039127           88 ----YVD----WTNMRDLFAA--VASRSKVIVTTRNQGVA-SIM-G---TMPAYELKKLVNDNCLLIFSQHP  144 (162)
Q Consensus        88 ----~~~----~~~l~~~l~~--~~~gs~iiiTTR~~~v~-~~~-~---~~~~~~l~~L~~~~~~~lf~~~a  144 (162)
                          ...    ...+...+..  ...+--+|.||...+-. ..+ .   -...+++...+.++-..+|+.+.
T Consensus       120 ~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l  191 (265)
T d1r7ra3         120 IGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL  191 (265)
T ss_dssp             CCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHT
T ss_pred             CCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHh
Confidence                011    1223333322  12233556677654322 222 1   13478999999999999998653

>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=97.93  E-value=1e-05  Score=55.15  Aligned_cols=22  Identities=32%  Similarity=0.326  Sum_probs=19.5

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.|+|..|+|||||++.+....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhcC
Confidence            7899999999999999997644

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.89  E-value=1.2e-05  Score=56.75  Aligned_cols=86  Identities=9%  Similarity=-0.065  Sum_probs=61.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce--------------------------------------EEEEEeCCCCCCh
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN--------------------------------------FNFALDDTWKEKY   88 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~--------------------------------------~LlVlDdv~~~~~   88 (162)
                      ..+.+.++|.+|+|||++|..+.+.....                                      -++|+|+++..+.
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR~i~~~~~~~~~~~~~KviIId~ad~l~~   93 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQ   93 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCcCCCCHHHHHHHHHHHhhCcccCCCEEEEEeCccccch
Confidence            47788899999999999998765422100                                      4899999999999


Q ss_pred             hhHHHHHhhccccCCCcEEEEecCC-hhhHhhhCC-CCeeeCCCCC
Q 039127           89 VDWTNMRDLFAAVASRSKVIVTTRN-QGVASIMGT-MPAYELKKLV  132 (162)
Q Consensus        89 ~~~~~l~~~l~~~~~gs~iiiTTR~-~~v~~~~~~-~~~~~l~~L~  132 (162)
                      ..+..|+..+..-.+.+.+|++|.+ ..+...+.+ -..+.+.+..
T Consensus        94 ~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p~  139 (198)
T d2gnoa2          94 QAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPK  139 (198)
T ss_dssp             HHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCH
T ss_pred             hhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCch
Confidence            9999999998876667766666555 444433333 2356666443

>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=97.83  E-value=4.4e-06  Score=56.87  Aligned_cols=29  Identities=14%  Similarity=0.020  Sum_probs=25.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      -.+.|+|.|+.|+||||||+.+.......
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~~~~~~   34 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAAVFNTT   34 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHHHTTCE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            46789999999999999999998876543

>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=97.81  E-value=3.5e-05  Score=52.96  Aligned_cols=28  Identities=18%  Similarity=0.144  Sum_probs=23.6

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +...+|.++|++|+||||+|+.+.....
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~   39 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAG   39 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcC
Confidence            4567999999999999999999876543

>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=97.77  E-value=4.3e-06  Score=55.75  Aligned_cols=27  Identities=19%  Similarity=0.225  Sum_probs=23.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +.|.+.|++|+||||+|+.+.......
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~~   29 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNME   29 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            357788999999999999999887644

>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=97.74  E-value=7.5e-06  Score=54.44  Aligned_cols=25  Identities=32%  Similarity=0.327  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ++|.|.|++|+||||||+.+.....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~~   27 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKNP   27 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHST
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhCC
Confidence            4778999999999999999876544

>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=97.74  E-value=2e-05  Score=57.00  Aligned_cols=46  Identities=15%  Similarity=0.192  Sum_probs=33.1

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCceEEE
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNF   78 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~~Ll   78 (162)
                      +.++.+....  ......+.|.++|++|+|||+||+.+++.....++.
T Consensus        17 ~~~~~~~~~~--~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~   62 (273)
T d1gvnb_          17 DNLEELIQGK--KAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIV   62 (273)
T ss_dssp             HHHHHHHTTC--CCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEE
T ss_pred             HHHHHHHhcc--cCCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEE
Confidence            4455555544  233456778899999999999999999887655443

>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=97.73  E-value=7.8e-06  Score=55.39  Aligned_cols=26  Identities=23%  Similarity=0.135  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.+|.|+|++|+||||+|+.+....
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34688899999999999999998664

>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=97.73  E-value=8.6e-06  Score=59.13  Aligned_cols=49  Identities=18%  Similarity=0.066  Sum_probs=32.4

Q ss_pred             CCceeeehH---HHHHHh----hcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           22 VKLWLGREE---GTVELV----LKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        22 ~~~~vGr~~---~i~~~l----~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++.+.||+.   ++.+.+    ....  .......++.++|++|+|||++++.+++..
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~~~--~~~~~~~~l~l~GppGtGKT~l~~~l~~~l   70 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLSGA--GLSDVNMIYGSIGRVGIGKTTLAKFTVKRV   70 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSS--CBCCEEEEEECTTCCSSSHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHcCC--CCCCcceEEEeECCCCCCHHHHHHHHHHHH
Confidence            357889987   454443    2322  112223456678999999999999998753

>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=97.71  E-value=1.1e-05  Score=54.54  Aligned_cols=31  Identities=19%  Similarity=0.348  Sum_probs=26.0

Q ss_pred             CCCeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           45 DGGFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        45 ~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +...+++.|.|++|+||||+|+.+.......
T Consensus         3 ~~~~~iivl~G~~GsGKsT~a~~La~~l~~~   33 (171)
T d1knqa_           3 NHDHHIYVLMGVSGSGKSAVASEVAHQLHAA   33 (171)
T ss_dssp             CTTSEEEEEECSTTSCHHHHHHHHHHHHTCE
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            3467899999999999999999998876543

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.67  E-value=9.7e-06  Score=54.61  Aligned_cols=25  Identities=16%  Similarity=0.193  Sum_probs=21.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+++.|+|..|+|||||++.+.+..
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999997653

>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=97.65  E-value=1e-05  Score=54.61  Aligned_cols=27  Identities=22%  Similarity=0.230  Sum_probs=22.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +.|.|.|++|+||||+|+.+.......
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~~~   31 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSGLK   31 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCc
Confidence            457799999999999999998776543

>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=97.61  E-value=0.0001  Score=53.55  Aligned_cols=63  Identities=13%  Similarity=0.125  Sum_probs=43.3

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce---------------------------------------------EEEEEeCCCC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN---------------------------------------------FNFALDDTWK   85 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~---------------------------------------------~LlVlDdv~~   85 (162)
                      |.|.|..|+|||.+|+.++......                                             =.|+|||++.
T Consensus        26 vlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~l~~a~gGtL~l~~i~~  105 (247)
T d1ny5a2          26 VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGE  105 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSCBCCHHHHTTTSEEEEESGGG
T ss_pred             EEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHHhcCcccCCcCCcccccCCHHHccCCCEEEEeChHh
Confidence            5689999999999999997432221                                             1588999987


Q ss_pred             CChhhHHHHHhhcccc-----------CCCcEEEEecCC
Q 039127           86 EKYVDWTNMRDLFAAV-----------ASRSKVIVTTRN  113 (162)
Q Consensus        86 ~~~~~~~~l~~~l~~~-----------~~gs~iiiTTR~  113 (162)
                      .+......+...+...           ....++|.||..
T Consensus       106 L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~  144 (247)
T d1ny5a2         106 LSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNR  144 (247)
T ss_dssp             CCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESS
T ss_pred             CCHHHHHHHHHHHHhCCEEECCCCCceecCeEEEEecCC
Confidence            7777777776655421           012478877754

>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=97.60  E-value=1.9e-05  Score=54.92  Aligned_cols=29  Identities=24%  Similarity=0.306  Sum_probs=25.8

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      +..++|.|.|++|+||||+|+.++.....
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~g~   34 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDYSF   34 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            46889999999999999999999887753

>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=97.59  E-value=3.6e-05  Score=51.98  Aligned_cols=30  Identities=27%  Similarity=0.138  Sum_probs=25.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCceEE
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVNFN   77 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~~L   77 (162)
                      -++|.|.|++|+||||+|+.+.......++
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~lg~~~~   33 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLPGVPKV   33 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSSSCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            468999999999999999999887665543

>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=97.58  E-value=1.4e-05  Score=55.11  Aligned_cols=26  Identities=19%  Similarity=0.267  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.+|.++|++|+||||+|+.+....
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45678899999999999999997644

>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=97.58  E-value=2e-05  Score=53.25  Aligned_cols=29  Identities=24%  Similarity=0.147  Sum_probs=24.2

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      +....|.|.|++|+||||+|+.+......
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~~   31 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELDG   31 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            34567889999999999999999887653

>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=97.54  E-value=2e-05  Score=53.20  Aligned_cols=28  Identities=11%  Similarity=-0.046  Sum_probs=24.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .++|.|.|.+|+||||+|+.+.......
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~   30 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEP   30 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            3589999999999999999999876544

>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=97.53  E-value=4.7e-05  Score=52.27  Aligned_cols=27  Identities=33%  Similarity=0.357  Sum_probs=23.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      +.-+|+|.|..|+||||||+.+.....
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            466899999999999999999876543

>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=97.53  E-value=2.3e-05  Score=54.58  Aligned_cols=25  Identities=16%  Similarity=0.146  Sum_probs=21.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+|.++|.+|+||||+|++++...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578899999999999999987543

>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=97.53  E-value=2.7e-05  Score=54.00  Aligned_cols=28  Identities=25%  Similarity=0.215  Sum_probs=24.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ...+|.|+|++|+||||+|+.++.....
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~g~   32 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDFGW   32 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHCC
Confidence            4679999999999999999999876543

>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=97.51  E-value=7e-05  Score=56.41  Aligned_cols=75  Identities=13%  Similarity=0.096  Sum_probs=51.2

Q ss_pred             CceeeehH---HHHHHhh---c-CCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC---Cce-----------------
Q 039127           23 KLWLGREE---GTVELVL---K-DDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK---TVN-----------------   75 (162)
Q Consensus        23 ~~~vGr~~---~i~~~l~---~-~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~---~~~-----------------   75 (162)
                      ..++|+++   .+.+.+.   . ..  .......++.++|+.|+|||.+|+.+....   ...                 
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l~--~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~~  100 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGLK--DPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSR  100 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCS--CSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGG
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCCC--CCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhhhh
Confidence            46789887   3333221   1 11  112334577899999999999998876542   111                 


Q ss_pred             --------------------------EEEEEeCCCCCChhhHHHHHhhcc
Q 039127           76 --------------------------FNFALDDTWKEKYVDWTNMRDLFA   99 (162)
Q Consensus        76 --------------------------~LlVlDdv~~~~~~~~~~l~~~l~   99 (162)
                                                .+++||+++....+.+..|...+.
T Consensus       101 L~g~~~gyvG~~~~~~l~~~~~~~p~~Vvl~DEieK~~~~v~~~ll~~l~  150 (315)
T d1qvra3         101 LIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILD  150 (315)
T ss_dssp             C--------------CHHHHHHHCSSEEEEESSGGGSCHHHHHHHHHHHT
T ss_pred             hcCCCCCCcCcccCChHHHHHHhCCCcEEEEehHhhcCHHHHHHHHHHhc
Confidence                                      789999999888888888887764

>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=97.49  E-value=0.00015  Score=52.56  Aligned_cols=25  Identities=32%  Similarity=0.307  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4789999999999999999976554

>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=97.49  E-value=2e-05  Score=53.37  Aligned_cols=24  Identities=21%  Similarity=0.077  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|.|.|.+|+|||||++.+....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            457899999999999999987654

>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=97.47  E-value=2.5e-05  Score=53.02  Aligned_cols=26  Identities=23%  Similarity=0.371  Sum_probs=21.8

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCceE
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVNF   76 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~~   76 (162)
                      |.++|++|+||||+++.++......|
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~f   29 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGL   29 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            55779999999999999998876553

>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=97.46  E-value=2.5e-05  Score=53.04  Aligned_cols=24  Identities=25%  Similarity=0.396  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++|+|.|+.|+||||+++.+....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999887653

>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=97.45  E-value=2.6e-05  Score=52.85  Aligned_cols=25  Identities=36%  Similarity=0.440  Sum_probs=21.9

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCce
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      |.|+|++|+||||+|+.++.+....
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~~   27 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDLV   27 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCC
Confidence            6788999999999999999887644

>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=97.44  E-value=0.00013  Score=53.29  Aligned_cols=26  Identities=23%  Similarity=0.284  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..++|+|..|+|||||++.+..-...
T Consensus        45 e~vaivG~sGsGKSTLl~ll~gl~~p   70 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPRFYDV   70 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTTSSCC
T ss_pred             CEEEEECCCCCcHHHHHHHHHhcCCc
Confidence            48899999999999999998655443

>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=97.42  E-value=0.00018  Score=52.44  Aligned_cols=25  Identities=24%  Similarity=0.292  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ..++|+|..|+|||||++.+..-..
T Consensus        42 e~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          42 KTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             CEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             CEEEEECCCCChHHHHHHHHhcccC
Confidence            4899999999999999999975544

>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=97.35  E-value=4.1e-05  Score=52.16  Aligned_cols=26  Identities=23%  Similarity=0.222  Sum_probs=22.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .|.++|++|+||||+|+.++......
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~~   29 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGYE   29 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            35688999999999999999887654

>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=97.33  E-value=0.00016  Score=52.38  Aligned_cols=26  Identities=19%  Similarity=0.107  Sum_probs=22.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      -..++|+|..|+|||||++.+..-.+
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhhC
Confidence            35899999999999999999975543

>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=97.30  E-value=6.2e-05  Score=51.23  Aligned_cols=24  Identities=21%  Similarity=0.158  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +++.|.|+.|+||||+++.+....
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            578899999999999999987654

>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=97.26  E-value=6.7e-05  Score=50.71  Aligned_cols=25  Identities=24%  Similarity=0.161  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      ++++|+|..|+|||||+.++....+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~   26 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAV   26 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            5889999999999999998876543

>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=97.24  E-value=7.4e-05  Score=55.97  Aligned_cols=26  Identities=27%  Similarity=0.138  Sum_probs=21.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+.+.++|++|+|||.||+.+++...
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CceEEEECCCCCCHHHHHHHHhhccc
Confidence            35667999999999999999976644

>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=97.22  E-value=0.00027  Score=47.33  Aligned_cols=22  Identities=23%  Similarity=0.317  Sum_probs=19.2

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|.+|+|||+|...+.+..
T Consensus         5 v~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999887654

>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=97.22  E-value=6.8e-05  Score=52.56  Aligned_cols=28  Identities=25%  Similarity=0.188  Sum_probs=24.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .++|+|-|++|+||||+|+.+.++....
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~gl~   30 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEALQWH   30 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHTCE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCc
Confidence            3589999999999999999998887644

>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=97.22  E-value=8.5e-05  Score=51.31  Aligned_cols=25  Identities=20%  Similarity=0.361  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+|.|.|++|+||||+|+.++....
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            5789999999999999999988664

>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=97.21  E-value=0.00019  Score=48.26  Aligned_cols=22  Identities=14%  Similarity=0.294  Sum_probs=18.7

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+++|.+|+|||+|+..+.+..
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5699999999999998877543

>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=97.17  E-value=0.00011  Score=50.99  Aligned_cols=28  Identities=21%  Similarity=0.332  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ...|.|.|++|+||||+|+.+..+....
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~g~~   33 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHFELK   33 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHBCCE
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHHCCe
Confidence            4456688999999999999998876543

>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=97.17  E-value=0.00068  Score=49.23  Aligned_cols=26  Identities=31%  Similarity=0.296  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..++|+|..|+|||||++.+..-.+.
T Consensus        41 e~vaivG~sGsGKSTLl~li~gl~~p   66 (251)
T d1jj7a_          41 EVTALVGPNGSGKSTVAALLQNLYQP   66 (251)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCC
T ss_pred             CEEEEECCCCCcHHHHHHHHhcccCC
Confidence            48999999999999999999765543

>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=97.16  E-value=0.00028  Score=49.89  Aligned_cols=24  Identities=25%  Similarity=0.322  Sum_probs=18.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +.+++.++|+.|+||||.+-+++.
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~   28 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGR   28 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999996555443

>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=97.14  E-value=7.6e-05  Score=51.53  Aligned_cols=26  Identities=19%  Similarity=0.206  Sum_probs=21.9

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..|.|.|++|+||||+|+.+.+....
T Consensus         4 m~I~i~GppGsGKsT~a~~La~~~~~   29 (189)
T d1zaka1           4 LKVMISGAPASGKGTQCELIKTKYQL   29 (189)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHCC
Confidence            45779999999999999999777653

>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=97.12  E-value=0.00091  Score=48.01  Aligned_cols=26  Identities=19%  Similarity=0.262  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|+.|+|||||.+.++.-.+.
T Consensus        27 ei~~liGpsGsGKSTLl~~i~Gl~~p   52 (232)
T d2awna2          27 EFVVFVGPSGCGKSTLLRMIAGLETI   52 (232)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             CEEEEECCCCChHHHHHHHHhcCCCC
Confidence            48999999999999999999765543

>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=97.11  E-value=0.00012  Score=49.85  Aligned_cols=25  Identities=20%  Similarity=0.381  Sum_probs=21.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .|.|.|++|+||||+|+.++.....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~   26 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGI   26 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
Confidence            3679999999999999999776643

>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=97.10  E-value=0.00061  Score=45.16  Aligned_cols=23  Identities=13%  Similarity=0.186  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||||..++....
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~~   25 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGRE   25 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            35699999999999999987543

>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=97.10  E-value=0.0015  Score=48.14  Aligned_cols=26  Identities=23%  Similarity=0.381  Sum_probs=22.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..++|+|..|+|||||++.+..-...
T Consensus        63 e~vaivG~nGsGKSTLl~~i~Gl~~p   88 (281)
T d1r0wa_          63 EMLAITGSTGSGKTSLLMLILGELEA   88 (281)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTSSCC
T ss_pred             CEEEEECCCCChHHHHHHHHhCCCcC
Confidence            47899999999999999999765543

>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=97.08  E-value=0.0012  Score=47.35  Aligned_cols=25  Identities=24%  Similarity=0.211  Sum_probs=21.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-.+
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~gl~~   56 (230)
T d1l2ta_          32 EFVSIMGPSGSGKSTMLNIIGCLDK   56 (230)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCcchhhHhccCCCC
Confidence            4889999999999999999876543

>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=97.07  E-value=0.00016  Score=52.50  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      +.|+|+|-||+||||+|..+...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~   24 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSG   24 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHHHHH
Confidence            67899999999999999765443

>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=97.06  E-value=0.00091  Score=48.17  Aligned_cols=27  Identities=22%  Similarity=0.236  Sum_probs=23.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+++|+|+.|+|||||.+.+..-....
T Consensus        29 ei~glvG~nGaGKSTLl~~l~G~~~p~   55 (238)
T d1vpla_          29 EIFGLIGPNGAGKTTTLRIISTLIKPS   55 (238)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            489999999999999999997766543

>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=97.05  E-value=0.00054  Score=48.56  Aligned_cols=25  Identities=32%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ....++.++|+.|+||||.+-+++.
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~   31 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLAR   31 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999996655543

>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=97.05  E-value=0.00046  Score=48.77  Aligned_cols=24  Identities=29%  Similarity=0.318  Sum_probs=19.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +.+++.++|+.|+||||.+-+++.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~   32 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLAL   32 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999996655543

>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=97.05  E-value=0.00045  Score=46.56  Aligned_cols=22  Identities=32%  Similarity=0.354  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            3679999999999999988654

>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=97.04  E-value=0.0016  Score=43.72  Aligned_cols=26  Identities=23%  Similarity=0.192  Sum_probs=22.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -+..|+|+|.+|+|||||..++.+..
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~~   29 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQK   29 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCCC
Confidence            35678999999999999999998653

>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=97.04  E-value=0.00015  Score=50.15  Aligned_cols=27  Identities=22%  Similarity=0.228  Sum_probs=23.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .++|.|.|++|+||||+|+.+......
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~g~   34 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKYGY   34 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHTCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            468999999999999999999887753

>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=97.03  E-value=0.00015  Score=49.61  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=21.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .|.|.|++|+||||+|+.++.....
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~   26 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGT   26 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
Confidence            4679999999999999999887653

>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=97.02  E-value=0.00048  Score=46.58  Aligned_cols=23  Identities=26%  Similarity=0.341  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|.+|+|||+|+..+.+..
T Consensus         5 KivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            36689999999999999887654

>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=97.02  E-value=0.0002  Score=50.58  Aligned_cols=26  Identities=23%  Similarity=0.276  Sum_probs=22.1

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +..+|-+.|++|+||||||+.+....
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999987543

>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=97.02  E-value=0.00014  Score=49.66  Aligned_cols=25  Identities=20%  Similarity=0.372  Sum_probs=21.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .|.|.|++|+||||+|+.++.....
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~   26 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGI   26 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
Confidence            4678899999999999999877653

>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=97.02  E-value=0.00044  Score=49.07  Aligned_cols=24  Identities=33%  Similarity=0.509  Sum_probs=19.1

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHH
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      ....++.++|+.|+||||.+-+++
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLA   32 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLA   32 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            456799999999999999654444

>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=97.01  E-value=0.0002  Score=50.14  Aligned_cols=26  Identities=19%  Similarity=0.209  Sum_probs=22.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .-+|+|.|..|+||||||+.+.....
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            35899999999999999998876653

>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=97.01  E-value=0.00059  Score=45.54  Aligned_cols=22  Identities=18%  Similarity=0.262  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+++|.+|+|||+|++.+.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987544

>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=97.00  E-value=0.001  Score=47.95  Aligned_cols=25  Identities=20%  Similarity=0.243  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||++.++.-..
T Consensus        30 e~~~liG~sGaGKSTll~~i~gl~~   54 (240)
T d1g2912          30 EFMILLGPSGCGKTTTLRMIAGLEE   54 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             CEEEEECCCCChHHHHHHHHhcCCC
Confidence            4899999999999999999976544

>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=96.96  E-value=0.00055  Score=46.07  Aligned_cols=22  Identities=14%  Similarity=0.362  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|.+|+|||+|+..+.+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999887554

>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=96.95  E-value=0.00085  Score=45.86  Aligned_cols=23  Identities=26%  Similarity=0.367  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.|+|.+|+|||+|...+.+..
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            36799999999999999877654

>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=96.94  E-value=0.0024  Score=43.10  Aligned_cols=25  Identities=20%  Similarity=0.163  Sum_probs=21.9

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+|+|.+|+|||||...+.+..
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~~   29 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGVK   29 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCC
Confidence            4579999999999999999998653

>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=96.93  E-value=0.0002  Score=50.23  Aligned_cols=26  Identities=31%  Similarity=0.267  Sum_probs=22.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      -+|+|-|++|+||||+|+.+..+...
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg~   29 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFGF   29 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            36789999999999999999887654

>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=96.93  E-value=0.00027  Score=48.62  Aligned_cols=24  Identities=33%  Similarity=0.318  Sum_probs=20.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +..+|+|.|..|+||||+|..+-.
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999988754

>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=96.92  E-value=0.00097  Score=45.06  Aligned_cols=23  Identities=17%  Similarity=0.303  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|..|+|||||+..+.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~~   28 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRNE   28 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46799999999999999886643

>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=96.92  E-value=0.0013  Score=47.40  Aligned_cols=27  Identities=22%  Similarity=0.374  Sum_probs=23.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+++|+|+.|.|||||.+.+..-.+..
T Consensus        33 ei~~liGpnGaGKSTl~~~i~Gl~~p~   59 (240)
T d1ji0a_          33 QIVTLIGANGAGKTTTLSAIAGLVRAQ   59 (240)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            489999999999999999997765443

>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=96.91  E-value=0.00069  Score=45.39  Aligned_cols=23  Identities=26%  Similarity=0.209  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+|+|.+|+|||+|+..+.+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46799999999999998887543

>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=96.91  E-value=0.00023  Score=48.93  Aligned_cols=27  Identities=26%  Similarity=0.407  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..++| |.|++|+||||+|+.+......
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~g~   29 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNFCV   29 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHHTC
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHhCC
Confidence            35555 7899999999999999877653

>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=96.91  E-value=0.00055  Score=46.02  Aligned_cols=22  Identities=23%  Similarity=0.560  Sum_probs=18.8

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+++|.+|+|||+|...+.+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            5689999999999999887644

>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=96.88  E-value=0.0015  Score=47.05  Aligned_cols=26  Identities=19%  Similarity=0.225  Sum_probs=22.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|+.|+|||||.+.+..-.+.
T Consensus        33 e~~~liGpsGaGKSTLl~~i~Gl~~p   58 (239)
T d1v43a3          33 EFLVLLGPSGCGKTTTLRMIAGLEEP   58 (239)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHTSSCC
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCCC
Confidence            48899999999999999999766543

>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=96.88  E-value=0.00025  Score=48.51  Aligned_cols=24  Identities=25%  Similarity=0.318  Sum_probs=20.3

Q ss_pred             EEEEcCCCcchHHHHHHHHccCCc
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      |.|.|++|+||||+|+.+......
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~g~   28 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERFHA   28 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            457799999999999999877644

>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=96.85  E-value=0.00064  Score=45.59  Aligned_cols=22  Identities=18%  Similarity=0.363  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+++|.+|+|||+|...+.+..
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999999987654

>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=96.85  E-value=0.00027  Score=48.10  Aligned_cols=25  Identities=20%  Similarity=0.227  Sum_probs=21.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .|.|.|++|+||||+|+.++.+...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~   26 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGI   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4668999999999999999877643

>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=96.84  E-value=0.00031  Score=48.37  Aligned_cols=29  Identities=31%  Similarity=0.141  Sum_probs=24.4

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ....+|+|-|.-|+||||+++.+......
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~l~~   35 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKYKND   35 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGGTTT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            34568999999999999999999877643

>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=96.81  E-value=0.00089  Score=45.23  Aligned_cols=23  Identities=17%  Similarity=0.432  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|.+|+|||+|...+.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46699999999999999887654

>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=96.81  E-value=0.0003  Score=48.18  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++|.|+|++|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            478899999999999999987653

>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=96.79  E-value=0.0017  Score=42.48  Aligned_cols=22  Identities=23%  Similarity=0.371  Sum_probs=19.2

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.|+|.+|+|||||...+....
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            5699999999999999987554

>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=96.77  E-value=0.0016  Score=47.19  Aligned_cols=26  Identities=19%  Similarity=0.520  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..-.|.++|..|+|||||...+..+.
T Consensus        31 ~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          31 NSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            44567799999999999999998764

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.76  E-value=0.00071  Score=49.04  Aligned_cols=22  Identities=36%  Similarity=0.525  Sum_probs=18.4

Q ss_pred             CeEEEEEEcCCCcchHHHHHHH
Q 039127           47 GFFVIPIIGMGGSGNTTPALPV   68 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~   68 (162)
                      ..++|.+.|-||+||||+|-.+
T Consensus        19 ~~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          19 EHGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4789999999999999976444

>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=96.76  E-value=0.00025  Score=49.18  Aligned_cols=22  Identities=18%  Similarity=0.466  Sum_probs=19.2

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+|+|+.|+|||||++.+....
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            6799999999999999987653

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=96.76  E-value=0.00041  Score=50.85  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=18.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      .+.|+|+|-||+||||+|..+.
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA   23 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLV   23 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHH
Confidence            3678899999999999776654

>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=96.75  E-value=0.0022  Score=43.92  Aligned_cols=27  Identities=26%  Similarity=0.390  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+.+.|+|+|.+|+|||||...+.+..
T Consensus        21 ~~~~~I~lvG~~n~GKSTLin~L~g~~   47 (195)
T d1svia_          21 GGLPEIALAGRSNVGKSSFINSLINRK   47 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC-
T ss_pred             CCCCEEEEECCCCCCHHHHHHHhcCCC
Confidence            456789999999999999999998654

>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=96.75  E-value=0.00079  Score=45.30  Aligned_cols=23  Identities=17%  Similarity=0.427  Sum_probs=19.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|.+|+|||+|...+.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            36699999999999999877643

>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=96.73  E-value=0.0011  Score=44.46  Aligned_cols=22  Identities=14%  Similarity=0.377  Sum_probs=18.8

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+++|..|+|||+|...+.+..
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999999887654

>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=96.72  E-value=0.00028  Score=48.67  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.1

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+|+|+.|+|||||++.+.++.
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            36799999999999999987664

>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=96.70  E-value=0.0031  Score=42.57  Aligned_cols=25  Identities=28%  Similarity=0.401  Sum_probs=19.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+ |.++|.+|+|||||...+....
T Consensus        17 ~~K-I~lvG~~~vGKTsLi~~l~~~~   41 (182)
T d1moza_          17 ELR-ILILGLDGAGKTTILYRLQIGE   41 (182)
T ss_dssp             CEE-EEEEEETTSSHHHHHHHTCCSE
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhcCC
Confidence            455 5599999999999999885443

>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=96.69  E-value=0.0022  Score=43.09  Aligned_cols=22  Identities=18%  Similarity=0.315  Sum_probs=18.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -|+++|.+|+|||+|+..+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3679999999999999987654

>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=96.67  E-value=0.0007  Score=45.67  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=16.9

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |.++|.+|+|||+|...+.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999887554

>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=96.65  E-value=0.001  Score=47.20  Aligned_cols=37  Identities=19%  Similarity=0.228  Sum_probs=28.5

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCc-eEEEEEeCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTV-NFNFALDDT   83 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~-~~LlVlDdv   83 (162)
                      .+++..|.|.-|+|||||.+.+...... ++-+|..|+
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~~~~riaVI~Ne~   39 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQHGYKIAVIENEF   39 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSCCCCCEEEECSSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcCCCCcEEEEEecc
Confidence            4789999999999999999998876433 355555554

>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=96.65  E-value=0.0015  Score=43.65  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|.+|+|||+|...+.+..
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46799999999999999887654

>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=96.64  E-value=0.0064  Score=40.43  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      ..|.++|.+|+|||||...+......
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~~~~   41 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMNEVV   41 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTTSCE
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            34669999999999999998766443

>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=96.64  E-value=0.0029  Score=42.40  Aligned_cols=28  Identities=21%  Similarity=0.328  Sum_probs=22.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      ..+ |.++|.+|+|||||...+.+.....
T Consensus        12 ~~k-IvlvG~~~vGKTSli~rl~~~~~~~   39 (173)
T d1e0sa_          12 EMR-ILMLGLDAAGKTTILYKLKLGQSVT   39 (173)
T ss_dssp             CEE-EEEEEETTSSHHHHHHHTTCCCCEE
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhcCCCCC
Confidence            455 5599999999999999987665443

>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=96.64  E-value=0.0016  Score=43.56  Aligned_cols=22  Identities=18%  Similarity=0.477  Sum_probs=18.9

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|-.|+|||+|...+....
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            5699999999999999887554

>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=96.63  E-value=0.0015  Score=43.59  Aligned_cols=22  Identities=18%  Similarity=0.611  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|.+|+|||+|...+.+..
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6689999999999999887653

>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=96.63  E-value=0.0015  Score=42.98  Aligned_cols=26  Identities=31%  Similarity=0.443  Sum_probs=21.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      -|+|+|.+|+|||||.+.+.+.....
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~~~~   32 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGEVVT   32 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSCCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCcc
Confidence            36799999999999999987765443

>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=96.62  E-value=0.0015  Score=43.74  Aligned_cols=23  Identities=17%  Similarity=0.309  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||+|+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~~   30 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDGA   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47799999999999999876543

>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=96.62  E-value=0.0015  Score=44.17  Aligned_cols=23  Identities=26%  Similarity=0.392  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.|+|.+|+|||+|...+.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46689999999999998887654

>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=96.62  E-value=0.0033  Score=41.67  Aligned_cols=22  Identities=18%  Similarity=0.380  Sum_probs=19.1

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|.+|+|||||...+.+..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEECCCCCCHHHHHHHHcCCC
Confidence            5699999999999999987654

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.59  E-value=0.00062  Score=51.22  Aligned_cols=23  Identities=22%  Similarity=0.313  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ++.++|.+|+|||.||+.++...
T Consensus       125 ~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHHHh
Confidence            45568999999999999998763

>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=96.56  E-value=0.0065  Score=40.52  Aligned_cols=25  Identities=20%  Similarity=0.349  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      --|.++|.+|+|||||...+.....
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~~~~   41 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLASEDI   41 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCCSCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3467999999999999999876554

>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=96.56  E-value=0.0013  Score=44.13  Aligned_cols=22  Identities=18%  Similarity=0.472  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|.+|+|||+|...+.+..
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            4689999999999999988654

>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=96.55  E-value=0.00063  Score=47.98  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=19.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      |++|.|+.|+|||||...+.+
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~   22 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGR   22 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            789999999999999988864

>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=96.54  E-value=0.0024  Score=42.61  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=19.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|-+|+|||+|...+.+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999887543

>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=96.54  E-value=0.001  Score=49.98  Aligned_cols=36  Identities=22%  Similarity=0.300  Sum_probs=27.6

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ++++.+....     .+..+|+|.|.+|+|||||...+...
T Consensus        39 ~~~~~~~~~~-----~~~~~igitG~pGaGKSTli~~l~~~   74 (323)
T d2qm8a1          39 DLIDAVLPQT-----GRAIRVGITGVPGVGKSTTIDALGSL   74 (323)
T ss_dssp             HHHHHHGGGC-----CCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHhhhcc-----CCceEEeeeCCCCCCHHHHHHHHHHH
Confidence            4555555433     46889999999999999999887653

>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=96.52  E-value=0.0015  Score=48.68  Aligned_cols=40  Identities=18%  Similarity=0.065  Sum_probs=30.0

Q ss_pred             CCCeEEEEEEcCCCcchHHHHHHHHccCC-----ce-EEEEEeCCC
Q 039127           45 DGGFFVIPIIGMGGSGNTTPALPVYNDKT-----VN-FNFALDDTW   84 (162)
Q Consensus        45 ~~~~~vv~I~G~gGiGKTtLa~~~~~~~~-----~~-~LlVlDdv~   84 (162)
                      ....-+|+|.|..|+||||+|+.+.....     .+ .++-+||..
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~  122 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeE
Confidence            45578999999999999999998876532     11 556668764

>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=96.51  E-value=0.0014  Score=44.05  Aligned_cols=22  Identities=18%  Similarity=0.572  Sum_probs=18.8

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|..|+|||+|...+.+..
T Consensus         7 i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5588999999999999987654

>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=96.51  E-value=0.004  Score=41.31  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=18.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||||...+....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            35688999999999999886544

>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=96.50  E-value=0.0055  Score=41.74  Aligned_cols=22  Identities=23%  Similarity=0.380  Sum_probs=18.6

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |+++|-+|+|||+|...+.+..
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            5689999999999998876554

>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=96.50  E-value=0.0015  Score=44.46  Aligned_cols=23  Identities=22%  Similarity=0.200  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|..|+|||+|...+.+..
T Consensus         4 KivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            35699999999999998887654

>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=96.50  E-value=0.00065  Score=46.61  Aligned_cols=24  Identities=13%  Similarity=0.232  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|+|+|+.|+|||||++.+..+.
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhC
Confidence            468899999999999999988654

>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=96.50  E-value=0.0059  Score=39.24  Aligned_cols=30  Identities=23%  Similarity=0.313  Sum_probs=22.9

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+.++..|++..|.|||+++-.++.....+
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~~~~~~~   35 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAYAAQGYK   35 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHHHTTTCC
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHHHHcCCc
Confidence            346788899999999999987766555444

>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=96.49  E-value=0.0061  Score=40.82  Aligned_cols=22  Identities=27%  Similarity=0.253  Sum_probs=18.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -|.++|.+|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3669999999999999988654

>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=96.49  E-value=0.005  Score=41.14  Aligned_cols=23  Identities=35%  Similarity=0.440  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||||...+.+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            47799999999999999887543

>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=96.48  E-value=0.0038  Score=41.71  Aligned_cols=23  Identities=26%  Similarity=0.274  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|.+|+|||+|.+.+.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46799999999999999887643

>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=96.48  E-value=0.0013  Score=49.55  Aligned_cols=35  Identities=14%  Similarity=0.180  Sum_probs=26.6

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ++++.+....     .+..+|+|.|.+|+|||||...+..
T Consensus        42 ~ll~~~~~~~-----~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          42 QLLDAIMPYC-----GNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             HHHHHHGGGC-----SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             HHHHHhhhcc-----CCceEEEeeCCCCCCHHHHHHHHHH
Confidence            4555554433     4688999999999999999987754

>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=96.47  E-value=0.0039  Score=42.18  Aligned_cols=25  Identities=16%  Similarity=0.247  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .--|.|+|.+|+|||+|...+....
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCC
Confidence            3347799999999999998887654

>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=96.46  E-value=0.0029  Score=42.11  Aligned_cols=23  Identities=17%  Similarity=0.465  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|-+|+|||+|...+.+..
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            35699999999999999887654

>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=96.45  E-value=0.0027  Score=42.46  Aligned_cols=23  Identities=17%  Similarity=0.232  Sum_probs=18.7

Q ss_pred             EEEEcCCCcchHHHHHHHHccCC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      |+++|.+|+|||+|++.+.+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~~~   26 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGVED   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC--
T ss_pred             EEEECCCCcCHHHHHHHHhCCcc
Confidence            67899999999999999876543

>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=96.45  E-value=0.002  Score=46.40  Aligned_cols=25  Identities=24%  Similarity=0.182  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        32 e~~~iiG~sGsGKSTll~~i~gl~~   56 (242)
T d1oxxk2          32 ERFGILGPSGAGKTTFMRIIAGLDV   56 (242)
T ss_dssp             CEEEEECSCHHHHHHHHHHHHTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCcC
Confidence            4899999999999999999976543

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.43  E-value=0.00086  Score=48.76  Aligned_cols=23  Identities=22%  Similarity=0.173  Sum_probs=18.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .+++.+.|-||+||||+|..+..
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCcChHHHHHHHHHH
Confidence            56888899999999997755543

>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=96.43  E-value=0.0024  Score=43.11  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|.+|+|||+|...+.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999886544

>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=96.42  E-value=0.0024  Score=43.81  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+|+|.+|+|||||...+.+..
T Consensus         8 KivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHhhCC
Confidence            36799999999999999887654

>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=96.39  E-value=0.002  Score=43.71  Aligned_cols=23  Identities=30%  Similarity=0.374  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||||+..+.+..
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36799999999999999887544

>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=96.39  E-value=0.0053  Score=40.94  Aligned_cols=23  Identities=22%  Similarity=0.277  Sum_probs=19.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+|+|.+|+|||||...+....
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~   24 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999997544

>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=96.39  E-value=0.0044  Score=41.17  Aligned_cols=23  Identities=17%  Similarity=0.325  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-|+|+|..|+|||+|...+.+.
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            45778999999999999987654

>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=96.39  E-value=0.0031  Score=43.53  Aligned_cols=24  Identities=17%  Similarity=0.284  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|+|+|.+|+|||||...+....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999987644

>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=96.38  E-value=0.00066  Score=47.91  Aligned_cols=26  Identities=19%  Similarity=-0.013  Sum_probs=23.3

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+.|+|-|+-|+||||+|+.+.....
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            47899999999999999999988764

>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=96.36  E-value=0.0011  Score=46.95  Aligned_cols=27  Identities=15%  Similarity=-0.059  Sum_probs=23.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+.|+|-|+-|+||||+++.+......
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            578999999999999999999876543

>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=96.33  E-value=0.0039  Score=41.67  Aligned_cols=24  Identities=25%  Similarity=0.524  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      --|.++|-+|+|||+|...+.+..
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            356799999999999999876543

>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=96.33  E-value=0.002  Score=43.38  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=8.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|-+|+|||||...+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSEDA   30 (173)
T ss_dssp             EEEEECCCCC-------------
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999998776544

>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=96.33  E-value=0.0019  Score=43.20  Aligned_cols=25  Identities=20%  Similarity=0.276  Sum_probs=20.0

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccC
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ...|+++|.+|+|||||...+....
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~~~   37 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKDDR   37 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSCC-
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3456799999999999999986654

>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=96.32  E-value=0.0055  Score=41.42  Aligned_cols=23  Identities=26%  Similarity=0.313  Sum_probs=19.5

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.|+|.+|+|||||+..+.+..
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~~   29 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDNK   29 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCSC
T ss_pred             EEEEECCCCcCHHHHHHHHhcCC
Confidence            36699999999999999987654

>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=96.29  E-value=0.0022  Score=45.24  Aligned_cols=24  Identities=29%  Similarity=0.411  Sum_probs=15.1

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHH
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      ....++.++|+.|+||||.+-+++
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA   33 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLA   33 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            356899999999999999654444

>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=96.27  E-value=0.001  Score=46.55  Aligned_cols=27  Identities=22%  Similarity=0.122  Sum_probs=23.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+++|+|+.|+|||||.+.++.-.+..
T Consensus        28 ei~~l~G~NGsGKSTLl~~i~gl~~p~   54 (200)
T d1sgwa_          28 NVVNFHGPNGIGKTTLLKTISTYLKPL   54 (200)
T ss_dssp             CCEEEECCTTSSHHHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCChHHHHHHHHhcccccC
Confidence            478999999999999999998766543

>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=96.23  E-value=0.0027  Score=43.09  Aligned_cols=23  Identities=13%  Similarity=0.229  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||+|...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            46699999999999999886654

>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=96.22  E-value=0.0035  Score=42.07  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|.++|.+|+|||+|...+.+..
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~~   30 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTNK   30 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            37799999999999998876543

>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=96.21  E-value=0.0012  Score=47.59  Aligned_cols=27  Identities=22%  Similarity=0.212  Sum_probs=23.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+++|+|..|+|||||++.++.-.+..
T Consensus        32 e~~~iiG~sGsGKSTLl~~i~Gl~~p~   58 (240)
T d3dhwc1          32 QIYGVIGASGAGKSTLIRCVNLLERPT   58 (240)
T ss_dssp             CEEEEEESTTSSHHHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCCCHHHHHHHHcCCcccc
Confidence            488999999999999999998766544

>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=96.20  E-value=0.0012  Score=46.32  Aligned_cols=24  Identities=8%  Similarity=0.195  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .++.|+|++|+|||||.+.+....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            478899999999999999887653

>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=96.19  E-value=0.0047  Score=41.22  Aligned_cols=26  Identities=12%  Similarity=0.188  Sum_probs=21.7

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .+...|+|+|.+++|||||..++...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34667889999999999999888654

>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=96.18  E-value=0.011  Score=41.32  Aligned_cols=34  Identities=12%  Similarity=0.089  Sum_probs=25.7

Q ss_pred             HHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           33 VELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        33 ~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ++.++...    -+.-+++.|+|.+|+|||+||.++..
T Consensus        26 LD~~lgGG----ip~G~~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          26 FDKLLGGG----IESMAITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             HHHHTTSS----BCSSEEEEEECCTTCTHHHHHHHHHH
T ss_pred             HHHhhcCC----CcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            44455433    34567999999999999999988864

>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=96.14  E-value=0.00077  Score=49.91  Aligned_cols=38  Identities=18%  Similarity=0.163  Sum_probs=25.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC---Cce-EEEEEeCCC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK---TVN-FNFALDDTW   84 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~---~~~-~LlVlDdv~   84 (162)
                      +.++|+|.|..|+||||+|+.+.+..   ... .++-.|+..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsfy   44 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   44 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCCC
Confidence            35699999999999999998765543   333 456668774

>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=96.12  E-value=0.0016  Score=44.95  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+|-|+-|+||||+++.+....
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999998887643

>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=96.11  E-value=0.0016  Score=44.75  Aligned_cols=24  Identities=29%  Similarity=0.212  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|+|+|.+|+|||||...+.+..
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            377899999999999999997654

>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=96.11  E-value=0.0014  Score=47.66  Aligned_cols=25  Identities=36%  Similarity=0.304  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||++.+..-.+
T Consensus        29 Ei~~iiG~sGsGKSTLl~~i~Gl~~   53 (258)
T d1b0ua_          29 DVISIIGSSGSGKSTFLRCINFLEK   53 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCcc
Confidence            4899999999999999999976543

>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=96.10  E-value=0.0092  Score=40.10  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=19.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .|+|+|..|+|||||..++.+..
T Consensus        10 kV~iiG~~~~GKSTLin~l~~~~   32 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLFNAILNKE   32 (186)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTST
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Confidence            47899999999999999987654

>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=96.07  E-value=0.0024  Score=48.64  Aligned_cols=30  Identities=20%  Similarity=-0.104  Sum_probs=25.2

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +..+.+.++|++|+|||++|..+++.....
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            456788999999999999999998776544

>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=96.06  E-value=0.0016  Score=45.68  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..|+|.|+-|+||||+++.+.+..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478899999999999998887654

>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=96.05  E-value=0.0019  Score=46.55  Aligned_cols=26  Identities=12%  Similarity=0.098  Sum_probs=22.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCce
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      +++|+|+.|+|||||.+.++.-.+..
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~~p~   51 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIVKPD   51 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCC
Confidence            77899999999999999998766543

>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=96.04  E-value=0.0018  Score=45.22  Aligned_cols=20  Identities=30%  Similarity=0.390  Sum_probs=18.2

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      +|+|+|+.|+||||+|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            78999999999999998764

>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=96.04  E-value=0.0023  Score=47.20  Aligned_cols=39  Identities=23%  Similarity=0.299  Sum_probs=28.4

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCc------e-EEEEEeCCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTV------N-FNFALDDTW   84 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~------~-~LlVlDdv~   84 (162)
                      ...-+|+|.|..|+||||||..+......      . .++=+||+.
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY   70 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFY   70 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGB
T ss_pred             CCCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCC
Confidence            45668999999999999999877543211      1 455689974

>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=96.04  E-value=0.0017  Score=44.27  Aligned_cols=24  Identities=13%  Similarity=0.014  Sum_probs=20.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -+++.|.|.+|+|||+||..+..+
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHH
Confidence            458889999999999999887654

>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=96.03  E-value=0.0021  Score=44.95  Aligned_cols=22  Identities=32%  Similarity=0.410  Sum_probs=18.1

Q ss_pred             EEEEEE-cCCCcchHHHHHHHHc
Q 039127           49 FVIPII-GMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~-G~gGiGKTtLa~~~~~   70 (162)
                      ++|+|+ |-||+||||+|..++.
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~   24 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGV   24 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHH
T ss_pred             EEEEEECCCCCChHHHHHHHHHH
Confidence            688888 6899999999976654

>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=95.99  E-value=0.0012  Score=49.36  Aligned_cols=42  Identities=14%  Similarity=0.196  Sum_probs=28.0

Q ss_pred             CCceeeehH--H-HHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHc
Q 039127           22 VKLWLGREE--G-TVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        22 ~~~~vGr~~--~-i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -++++|++.  . +.-.+....       ..-+.+.|.+|+|||+||+.+..
T Consensus         6 f~~I~Gq~~~kral~laa~~~~-------~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           6 FSAIVGQEDMKLALLLTAVDPG-------IGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGGSCSCHHHHHHHHHHHHCGG-------GCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhhccCcHHHHHHHHHHHhccC-------CCeEEEECCCCccHHHHHHHHHH
Confidence            467899988  2 222222111       12367999999999999998863

>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=95.97  E-value=0.0065  Score=46.06  Aligned_cols=20  Identities=30%  Similarity=0.263  Sum_probs=16.6

Q ss_pred             eEEEEEEcCCCcchHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALP   67 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~   67 (162)
                      -++..|.|.+|.||||++..
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHH
Confidence            35888999999999998744

>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=95.94  E-value=0.0018  Score=46.28  Aligned_cols=26  Identities=19%  Similarity=0.078  Sum_probs=22.5

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+++|+|..|+|||||.+.+..-...
T Consensus        27 e~~~liGpsGaGKSTll~~l~Gl~~p   52 (229)
T d3d31a2          27 EYFVILGPTGAGKTLFLELIAGFHVP   52 (229)
T ss_dssp             CEEEEECCCTHHHHHHHHHHHTSSCC
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCcCC
Confidence            38999999999999999999876543

>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=95.94  E-value=0.0023  Score=41.74  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=19.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||||...+.+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999987654

>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=95.93  E-value=0.0021  Score=45.34  Aligned_cols=26  Identities=23%  Similarity=0.132  Sum_probs=21.5

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      +.-+++.|+|.+|+|||+||.++...
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~~~   59 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLAVM   59 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHHHH
Confidence            34568899999999999999887643

>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=95.85  E-value=0.0025  Score=44.32  Aligned_cols=21  Identities=33%  Similarity=0.388  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHH
Q 039127           49 FVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -+|+|.|..|+||||+|+.+-
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            478999999999999998764

>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=95.83  E-value=0.0029  Score=44.19  Aligned_cols=22  Identities=36%  Similarity=0.578  Sum_probs=18.1

Q ss_pred             EEEEEE-cCCCcchHHHHHHHHc
Q 039127           49 FVIPII-GMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~-G~gGiGKTtLa~~~~~   70 (162)
                      ++|+|+ +-||+||||+|..+..
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~   25 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSV   25 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHHHH
Confidence            688999 4799999999877643

>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=95.77  E-value=0.0028  Score=42.63  Aligned_cols=22  Identities=18%  Similarity=0.222  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999864

>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=95.72  E-value=0.0031  Score=44.22  Aligned_cols=28  Identities=29%  Similarity=0.290  Sum_probs=23.8

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      -+.|+|-|+-|+||||+++.+......+
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            3578999999999999999998776554

>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=95.72  E-value=0.0023  Score=43.20  Aligned_cols=21  Identities=10%  Similarity=0.309  Sum_probs=19.0

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998754

>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=95.71  E-value=0.0028  Score=42.81  Aligned_cols=21  Identities=24%  Similarity=0.311  Sum_probs=17.7

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |.++|-+|+|||+|.+.+...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            569999999999999887543

>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=95.67  E-value=0.0029  Score=43.89  Aligned_cols=24  Identities=33%  Similarity=0.332  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      +.|+|-|+-|+||||+++.+....
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            468899999999999998887643

>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=95.67  E-value=0.0059  Score=41.78  Aligned_cols=32  Identities=28%  Similarity=0.388  Sum_probs=26.0

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDT   83 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv   83 (162)
                      .-+.|.|.+|+||||+|..+..+-   +-+|=||.
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G---~~lvaDD~   47 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKN---HLFVGDDA   47 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTT---CEEEEEEE
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcC---CceecCCe
Confidence            456799999999999999988765   56777774

>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=95.66  E-value=0.0055  Score=41.93  Aligned_cols=33  Identities=24%  Similarity=0.346  Sum_probs=26.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDTW   84 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv~   84 (162)
                      .-|.|.|.+|+||||+|..+..+-   +-+|=||..
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~g---~~lv~DD~~   47 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQRG---HRLIADDRV   47 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT---CEEEEEEEE
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC---CeEEecCeE
Confidence            457799999999999999888765   566667643

>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=95.64  E-value=0.0036  Score=45.29  Aligned_cols=27  Identities=30%  Similarity=0.228  Sum_probs=23.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+++|+|+.|+|||||++.+..-.+..
T Consensus        31 ei~~liG~nGaGKSTLl~~i~Gl~~p~   57 (254)
T d1g6ha_          31 DVTLIIGPNGSGKSTLINVITGFLKAD   57 (254)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSSCCS
T ss_pred             CEEEEECCCCCcHHHHHHHHHCCCcCC
Confidence            488999999999999999998776544

>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=95.62  E-value=0.0057  Score=46.50  Aligned_cols=26  Identities=31%  Similarity=0.236  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ....+-.+|+.|+|||.||+.++...
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcceeeeCCCCccHHHHHHHHHhhc
Confidence            34557788999999999999886543

>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=95.62  E-value=0.0031  Score=42.92  Aligned_cols=18  Identities=33%  Similarity=0.499  Sum_probs=16.5

Q ss_pred             EEEEcCCCcchHHHHHHH
Q 039127           51 IPIIGMGGSGNTTPALPV   68 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~   68 (162)
                      |.++|.+|+|||+|...+
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            569999999999999887

>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=95.61  E-value=0.0029  Score=44.20  Aligned_cols=25  Identities=8%  Similarity=-0.007  Sum_probs=20.9

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-+++.|.|.+|+|||+||..+...
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4468889999999999999887543

>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=95.58  E-value=0.017  Score=43.03  Aligned_cols=25  Identities=24%  Similarity=0.182  Sum_probs=20.9

Q ss_pred             EEEEEcCCCcchHHHHHHHHccCCc
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      .+.|.|..|+||||+.+.+......
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~~  192 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIPK  192 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSCT
T ss_pred             CEEEEeeccccchHHHHHHhhhccc
Confidence            4679999999999999998876543

>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=95.55  E-value=0.021  Score=41.41  Aligned_cols=22  Identities=27%  Similarity=0.481  Sum_probs=19.6

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      +|-|+|+|..|.|||||+..+.
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll   23 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALL   23 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHH
T ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Confidence            4779999999999999998773

>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=95.53  E-value=0.0044  Score=43.16  Aligned_cols=25  Identities=24%  Similarity=0.166  Sum_probs=21.3

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-.++.|.|.+|+|||+||..++.+
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            3468899999999999999988753

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.49  E-value=0.0033  Score=44.24  Aligned_cols=26  Identities=19%  Similarity=0.169  Sum_probs=21.7

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-.++.|+|.+|+|||+||.++....
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~   50 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA   50 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            45688899999999999998876553

>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=95.48  E-value=0.0042  Score=43.83  Aligned_cols=24  Identities=25%  Similarity=0.231  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .+|+|.|..|+||||+|+.+....
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            589999999999999999987654

>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=95.38  E-value=0.0026  Score=43.02  Aligned_cols=23  Identities=22%  Similarity=0.289  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+|+|.+++|||||...+.+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~   25 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAK   25 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEEC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999986543

>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=95.34  E-value=0.0042  Score=42.06  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=18.4

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |.++|.+|+|||+|...+....
T Consensus         5 iv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            5699999999999998885443

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=95.27  E-value=0.0047  Score=45.56  Aligned_cols=35  Identities=11%  Similarity=-0.068  Sum_probs=27.6

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ++++.++--.      .-..++|.|..|+|||+|+..+.+.
T Consensus        32 r~ID~l~Pig------rGQr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          32 RVLDLASPIG------RGQRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             HHHHHHSCCB------TTCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeeeccccc------CCCeeeEeCCCCCCHHHHHHHHHHH
Confidence            6788877644      3457889999999999999888753

>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=95.26  E-value=0.0066  Score=47.35  Aligned_cols=28  Identities=25%  Similarity=0.119  Sum_probs=23.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .+-|.++|+.|+|||.||+.++....+-
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l~VP   76 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLANAP   76 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCC
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            4567899999999999999999866554

>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=95.25  E-value=0.0038  Score=44.48  Aligned_cols=25  Identities=16%  Similarity=0.312  Sum_probs=21.6

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT   73 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~   73 (162)
                      .+++|+|..|+|||||.+.+..-..
T Consensus        26 ei~~iiG~nGaGKSTLl~~l~Gl~~   50 (231)
T d1l7vc_          26 EILHLVGPNGAGKSTLLARMAGMTS   50 (231)
T ss_dssp             CEEECBCCTTSSHHHHHHHHHTSCC
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCC
Confidence            4899999999999999999887543

>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=95.23  E-value=0.0097  Score=40.35  Aligned_cols=32  Identities=25%  Similarity=0.377  Sum_probs=25.7

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCceEEEEEeCC
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTVNFNFALDDT   83 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVlDdv   83 (162)
                      .-|.|.|.+|+||||+|..+..+-   +-+|=||.
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g---~~li~DD~   47 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRG---HRLVADDN   47 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTT---CEEEESSE
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC---CeEEeCCe
Confidence            456799999999999998888775   55666764

>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=95.16  E-value=0.0092  Score=40.04  Aligned_cols=28  Identities=18%  Similarity=0.145  Sum_probs=24.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      -.+|.+.|-=|+||||+++.+.+.....
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            4689999999999999999998877654

>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=95.12  E-value=0.0068  Score=41.57  Aligned_cols=24  Identities=13%  Similarity=0.126  Sum_probs=18.7

Q ss_pred             EEEEEEcCC-CcchHHHHHHHHccC
Q 039127           49 FVIPIIGMG-GSGNTTPALPVYNDK   72 (162)
Q Consensus        49 ~vv~I~G~g-GiGKTtLa~~~~~~~   72 (162)
                      +.+.|.|-| |+||||++-.+....
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHH
Confidence            467899997 999999876665443

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=94.99  E-value=0.0065  Score=42.00  Aligned_cols=22  Identities=18%  Similarity=0.185  Sum_probs=18.5

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -.++.|.|.+|+|||+||..+.
T Consensus        26 G~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          26 GRSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHH
T ss_pred             CeEEEEEeCCCCCHHHHHHHHH
Confidence            4588899999999999997643

>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=94.97  E-value=0.0065  Score=42.58  Aligned_cols=21  Identities=24%  Similarity=0.344  Sum_probs=18.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -|.++|.+|+|||+|.+.+..
T Consensus         8 KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            457999999999999988753

>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=94.88  E-value=0.0087  Score=43.77  Aligned_cols=24  Identities=21%  Similarity=0.120  Sum_probs=21.3

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHH
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      .++|-|+|+|.+|.|||||+.++.
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll   27 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERIL   27 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHH
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHH
Confidence            368889999999999999998874

>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=94.76  E-value=0.0091  Score=42.69  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=18.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .+..|+|.+|+|||+||..++.
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            3677999999999999977653

>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=94.63  E-value=0.0031  Score=41.44  Aligned_cols=23  Identities=22%  Similarity=0.315  Sum_probs=19.7

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      -|+++|.+|+|||||...+....
T Consensus         2 kI~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36899999999999999987543

>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=94.36  E-value=0.024  Score=40.13  Aligned_cols=23  Identities=13%  Similarity=0.313  Sum_probs=20.0

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+++|..|+|||||...+..+.
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCCHHHHHHhhcchh
Confidence            66799999999999999987654

>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=94.26  E-value=0.22  Score=33.89  Aligned_cols=41  Identities=24%  Similarity=0.166  Sum_probs=27.7

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccCCceEEEEE
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDKTVNFNFAL   80 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~~LlVl   80 (162)
                      +.++.++...        + ..|+...|.|||.+|-.+......+.|+|.
T Consensus        77 eav~~~~~~~--------~-~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~  117 (206)
T d2fz4a1          77 KALERWLVDK--------R-GCIVLPTGSGKTHVAMAAINELSTPTLIVV  117 (206)
T ss_dssp             HHHHHHTTTS--------E-EEEEESSSTTHHHHHHHHHHHSCSCEEEEE
T ss_pred             HHHHHHHhCC--------C-cEEEeCCCCCceehHHhHHHHhcCceeEEE
Confidence            6667666544        2 236778999999998888776655533333

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.09  E-value=0.062  Score=38.98  Aligned_cols=27  Identities=19%  Similarity=0.286  Sum_probs=24.2

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+.+|+|+|.-+.|||+|...++...
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            469999999999999999999998654

>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=93.98  E-value=0.094  Score=34.92  Aligned_cols=21  Identities=24%  Similarity=0.205  Sum_probs=19.2

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .|+|+|..++|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999999875

>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=93.76  E-value=0.021  Score=42.71  Aligned_cols=27  Identities=19%  Similarity=0.172  Sum_probs=22.7

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      +..|.|-|.=|+||||+++.+.+....
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhcc
Confidence            556778899999999999999987543

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=93.69  E-value=0.015  Score=40.52  Aligned_cols=39  Identities=13%  Similarity=-0.017  Sum_probs=30.0

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce-------------------EEEEEeCCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN-------------------FNFALDDTW   84 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~-------------------~LlVlDdv~   84 (162)
                      ++...+.++|+++.|||.+|..+.+-....                   -++++||+.
T Consensus        51 PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~vis~~N~~s~F~Lq~l~~~kv~l~dD~t  108 (205)
T d1tuea_          51 PKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNSTSHFWLEPLTDTKVAMLDDAT  108 (205)
T ss_dssp             TTCSEEEEESCGGGCHHHHHHHHHHHHTCEECCCCCSSSCGGGGGGTTCSSEEEEEEC
T ss_pred             CCceEEEEECCCCccHHHHHHHHHHHhCCEEEeccCCCCCcccccccCCeEEEEeccc
Confidence            456788899999999999998775544322                   678889984

>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=93.67  E-value=0.037  Score=40.29  Aligned_cols=35  Identities=23%  Similarity=0.233  Sum_probs=26.6

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..++.++.-.      .-..++|.|..|+|||+|+..+.+.
T Consensus        57 raID~l~pig------kGQr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          57 KVVDLLAPYA------KGGKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             HHHHHHSCEE------TTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eeeeeecccc------CCCEEEeeCCCCCCHHHHHHHHHHH
Confidence            6677776533      2346889999999999998888654

>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=93.67  E-value=0.019  Score=40.29  Aligned_cols=22  Identities=18%  Similarity=0.246  Sum_probs=19.2

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ++|+|+|-.++|||||+..+..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~   27 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRG   27 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEeCCCccHHHHHHHHHh
Confidence            4699999999999999988754

>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=93.34  E-value=0.028  Score=38.37  Aligned_cols=31  Identities=19%  Similarity=0.118  Sum_probs=21.3

Q ss_pred             eehHHHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHH
Q 039127           27 GREEGTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPAL   66 (162)
Q Consensus        27 Gr~~~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~   66 (162)
                      ..+.+.+..+....         -+.+.++.|.|||+.|.
T Consensus        28 ~~Q~~ai~~l~~~~---------~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          28 PPQAEAVEKVFSGK---------NLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             CCCHHHHHHHTTCS---------CEEEECSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCC---------CEEEEcCCCCchhHHHH
Confidence            33445566666544         24589999999998764

>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=93.30  E-value=0.027  Score=40.26  Aligned_cols=22  Identities=23%  Similarity=0.073  Sum_probs=18.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .++.|.|.+|+|||+|+..+..
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHH
Confidence            4778999999999999877653

>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=93.27  E-value=0.12  Score=36.45  Aligned_cols=22  Identities=18%  Similarity=0.052  Sum_probs=19.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHH
Q 039127           48 FFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -+++.|.|+...||||+.+.+.
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHH
Confidence            4678899999999999998873

>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=93.17  E-value=0.026  Score=35.44  Aligned_cols=18  Identities=22%  Similarity=0.156  Sum_probs=13.8

Q ss_pred             EEEEEEcCCCcchHHHHH
Q 039127           49 FVIPIIGMGGSGNTTPAL   66 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~   66 (162)
                      ..+.|++..|.|||..|-
T Consensus         8 ~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             CEEEECCCTTSSTTTTHH
T ss_pred             CcEEEEcCCCCChhHHHH
Confidence            355688899999996553

>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=93.08  E-value=0.025  Score=42.31  Aligned_cols=27  Identities=22%  Similarity=0.177  Sum_probs=20.4

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      +..|+|-|.=|+||||+++.+.+....
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l~~   30 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALGSR   30 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC----
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHhCC
Confidence            456888999999999999999766543

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=92.96  E-value=0.029  Score=40.87  Aligned_cols=22  Identities=27%  Similarity=0.107  Sum_probs=17.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      ..+.|.|..|+|||+|+.....
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~   89 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTIL   89 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHH
T ss_pred             ceEeeccCCCCChHHHHHHHHh
Confidence            4578999999999999976543

>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=92.61  E-value=0.033  Score=41.58  Aligned_cols=26  Identities=27%  Similarity=0.264  Sum_probs=21.8

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCCc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKTV   74 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~~   74 (162)
                      -.|+|-|.=|+||||+++.+.+....
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            45778899999999999999877543

>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=92.30  E-value=0.039  Score=39.83  Aligned_cols=38  Identities=24%  Similarity=0.189  Sum_probs=27.2

Q ss_pred             HHHHHhhc-CCCCCCCCCeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           31 GTVELVLK-DDSETIDGGFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        31 ~i~~~l~~-~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      .-++.++. ..    -+.-++.-|+|.+|+||||||..++...
T Consensus        40 ~~lD~~Lg~GG----i~~g~itei~G~~gsGKTtl~l~~~~~~   78 (263)
T d1u94a1          40 LSLDIALGAGG----LPMGRIVEIYGPESSGKTTLTLQVIAAA   78 (263)
T ss_dssp             HHHHHHTSSSS----EETTSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCC----ccCceEEEEecCCCcHHHHHHHHHHHHH
Confidence            45677775 32    1234588899999999999998776543

>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=92.09  E-value=0.037  Score=42.02  Aligned_cols=32  Identities=13%  Similarity=0.115  Sum_probs=22.2

Q ss_pred             EEEEcCCCcchHHHHHHHHccCC--ceEEEEEeC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDKT--VNFNFALDD   82 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~~--~~~LlVlDd   82 (162)
                      +.|+|..|+|||++++.+.....  ...++|+|-
T Consensus        53 ~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~   86 (433)
T d1e9ra_          53 LLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDP   86 (433)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred             EEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeC
Confidence            67999999999998765443221  126777774

>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=92.04  E-value=0.018  Score=41.00  Aligned_cols=23  Identities=13%  Similarity=0.212  Sum_probs=18.3

Q ss_pred             EEEEEcCCCcchHHHHHHHHccC
Q 039127           50 VIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+++|..|+|||||...+..+.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            44688999999999999887654

>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=92.03  E-value=0.19  Score=38.11  Aligned_cols=22  Identities=18%  Similarity=0.324  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCcchHHHHHHHHc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      --|+|+|.+|+|||||...+..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4578999999999999999875

>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=92.00  E-value=0.038  Score=40.05  Aligned_cols=15  Identities=33%  Similarity=0.445  Sum_probs=12.7

Q ss_pred             EEEEcCCCcchHHHH
Q 039127           51 IPIIGMGGSGNTTPA   65 (162)
Q Consensus        51 v~I~G~gGiGKTtLa   65 (162)
                      +.|.|.+|+||||.+
T Consensus        27 ~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          27 LLIMAGAGSGKTRVL   41 (318)
T ss_dssp             EEEEECTTSCHHHHH
T ss_pred             EEEEecCCccHHHHH
Confidence            558899999999865

>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=91.87  E-value=0.047  Score=37.65  Aligned_cols=20  Identities=25%  Similarity=0.240  Sum_probs=17.5

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -|+|+|-.+.|||||+.++.
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll   24 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALT   24 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            37899999999999998874

>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=91.82  E-value=0.016  Score=38.63  Aligned_cols=21  Identities=24%  Similarity=0.390  Sum_probs=17.6

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      +.+|+|..|+||||+..+++-
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~   46 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVT   46 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            446889999999999988863

>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=91.78  E-value=0.078  Score=38.31  Aligned_cols=38  Identities=29%  Similarity=0.135  Sum_probs=27.6

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..++.++...   +-+.-++.-|+|..|+|||+||..++..
T Consensus        46 ~~lD~~lg~g---G~~~g~i~e~~G~~~~GKT~l~l~~~~~   83 (269)
T d1mo6a1          46 IALDVALGIG---GLPRGRVIEIYGPESSGKTTVALHAVAN   83 (269)
T ss_dssp             HHHHHHTSSS---SBCSSSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             HHHHHhhccC---CcccceeEEEecCCCcHHHHHHHHHHHH
Confidence            4567677522   2345678899999999999999776644

>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=91.70  E-value=0.059  Score=40.35  Aligned_cols=24  Identities=13%  Similarity=0.094  Sum_probs=21.5

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHH
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      .++|-|+|+|-.|.|||||+..+.
T Consensus        15 ~~IRNI~iiGhvd~GKTTL~d~Ll   38 (341)
T d1n0ua2          15 TNVRNMSVIAHVDHGKSTLTDSLV   38 (341)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHH
T ss_pred             ccCcEEEEEeCCCCcHHHHHHHHH
Confidence            468899999999999999998774

>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=91.64  E-value=0.038  Score=39.64  Aligned_cols=15  Identities=27%  Similarity=0.355  Sum_probs=12.7

Q ss_pred             EEEEcCCCcchHHHH
Q 039127           51 IPIIGMGGSGNTTPA   65 (162)
Q Consensus        51 v~I~G~gGiGKTtLa   65 (162)
                      +.|.|.+|.||||.+
T Consensus        17 ~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEECCCTTSCHHHHH
T ss_pred             EEEEeeCCccHHHHH
Confidence            568899999999864

>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=91.57  E-value=0.26  Score=32.89  Aligned_cols=15  Identities=33%  Similarity=0.279  Sum_probs=11.8

Q ss_pred             EEcCCCcchHHHHHH
Q 039127           53 IIGMGGSGNTTPALP   67 (162)
Q Consensus        53 I~G~gGiGKTtLa~~   67 (162)
                      ++++.|.|||.++..
T Consensus        28 v~~pTGsGKT~i~~~   42 (200)
T d1wp9a1          28 IVLPTGLGKTLIAMM   42 (200)
T ss_dssp             EECCTTSCHHHHHHH
T ss_pred             EEeCCCCcHHHHHHH
Confidence            778999999985543

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=91.47  E-value=0.048  Score=39.85  Aligned_cols=33  Identities=21%  Similarity=0.110  Sum_probs=25.1

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHH
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      ..++.|+.-.      .-..++|.|.+|+|||+|+..+.
T Consensus        57 raID~l~pig------~GQr~~If~~~g~GKt~ll~~~~   89 (285)
T d2jdia3          57 KAVDSLVPIG------RGQRELIIGDRQTGKTSIAIDTI   89 (285)
T ss_dssp             HHHHHHSCCB------TTCBCEEEESTTSSHHHHHHHHH
T ss_pred             eEEecccCcc------CCCEEEeecCCCCChHHHHHHHH
Confidence            6777777644      23467899999999999987665

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

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: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=91.38  E-value=0.1  Score=37.56  Aligned_cols=39  Identities=15%  Similarity=0.095  Sum_probs=30.1

Q ss_pred             CCeEEEEEEcCCCcchHHHHHHHHccCCce------------------EEEEEeCCC
Q 039127           46 GGFFVIPIIGMGGSGNTTPALPVYNDKTVN------------------FNFALDDTW   84 (162)
Q Consensus        46 ~~~~vv~I~G~gGiGKTtLa~~~~~~~~~~------------------~LlVlDdv~   84 (162)
                      +.-..+.++|.|+.|||+++..+.+-....                  -++++||..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~~lg~~~~~~~~~~~f~l~~l~~k~~~~~~e~~  158 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNENFPFNDCVDKMVIWWEEGK  158 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHSSCEEECCTTCSSCTTGGGSSCSEEEECSCC
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHHHhcchhhccccCCCccccccCCCEEEEEeCCC
Confidence            445677899999999999998886644222                  678889875

>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=91.22  E-value=0.075  Score=38.20  Aligned_cols=28  Identities=18%  Similarity=0.179  Sum_probs=23.2

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHccCCce
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYNDKTVN   75 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~~~~~   75 (162)
                      .-.+.|+|++.+|||||...+.......
T Consensus       112 ~~~v~vvG~PNvGKSsliN~L~~~~~~~  139 (273)
T d1puja_         112 AIRALIIGIPNVGKSTLINRLAKKNIAK  139 (273)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCC-
T ss_pred             ceEEEEEecCccchhhhhhhhhccceEE
Confidence            4557899999999999999999876544

>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=90.40  E-value=0.078  Score=38.28  Aligned_cols=38  Identities=24%  Similarity=0.137  Sum_probs=27.1

Q ss_pred             HHHHHhhcCCCCCCCCCeEEEEEEcCCCcchHHHHHHHHcc
Q 039127           31 GTVELVLKDDSETIDGGFFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        31 ~i~~~l~~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ..++.++...   +-+.-++.-|+|.+|+|||+||..+...
T Consensus        43 ~~lD~~Lg~G---Gip~g~itei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1          43 LSLDLALGVG---GIPRGRITEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             HHHHHHTSSS---SEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HHHHHHhcCC---CccCceEEEEecCCccchHHHHHHHHHH
Confidence            4567777522   1234568899999999999999877644

>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=90.06  E-value=0.24  Score=34.52  Aligned_cols=20  Identities=20%  Similarity=0.169  Sum_probs=17.7

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      ++.|.|+...||||+.+.+.
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhH
Confidence            67899999999999998773

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal 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: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=90.03  E-value=0.085  Score=37.93  Aligned_cols=22  Identities=18%  Similarity=0.220  Sum_probs=19.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHcc
Q 039127           50 VIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      -++|+|++.+|||||-..+.+.
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHCC
Confidence            5799999999999999988754

>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=89.88  E-value=0.72  Score=30.71  Aligned_cols=21  Identities=24%  Similarity=0.270  Sum_probs=18.4

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      -|+|.|-...|||||+.++..
T Consensus         7 nIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           7 NIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHT
T ss_pred             EEEEEeccCCcHHHHHHHHHh
Confidence            478999999999999999864

>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=89.61  E-value=0.17  Score=38.41  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=20.1

Q ss_pred             eEEEEEEcCCCcchHHHHHHHHcc
Q 039127           48 FFVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        48 ~~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      ...|.|.|+.|+||||....+.+.
T Consensus       158 ~GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         158 HGIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             hceEEEEcCCCCCccHHHHHHhhh
Confidence            478899999999999988776553

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal 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: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=89.51  E-value=0.11  Score=37.67  Aligned_cols=23  Identities=22%  Similarity=0.288  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCcchHHHHHHHHcc
Q 039127           49 FVIPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~   71 (162)
                      .-++|+|.+.+|||||-.++.+.
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHCC
Confidence            45899999999999999998854

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {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 PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=89.12  E-value=0.12  Score=37.75  Aligned_cols=21  Identities=19%  Similarity=0.120  Sum_probs=18.4

Q ss_pred             EEEEcCCCcchHHHHHHHHcc
Q 039127           51 IPIIGMGGSGNTTPALPVYND   71 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~   71 (162)
                      |+|+|.+.+|||||-.++.+.
T Consensus         3 v~lvG~pn~GKStlfn~lt~~   23 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLV   23 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC-
T ss_pred             EeEECCCCCCHHHHHHHHHCC
Confidence            799999999999999998543

>d1p3da1 c.5.1.1 (A:11-106) UDP-N-acetylmuramate-alanine ligase MurC {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Haemophilus influenzae [TaxId: 727]

Probab=88.85  E-value=0.15  Score=30.82  Aligned_cols=26  Identities=31%  Similarity=0.421  Sum_probs=22.0

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHHccC
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      ..+-+-++|.||+|.+.||+.+.+.-
T Consensus         7 ~~~~ihfiGigG~GMs~LA~~L~~~G   32 (96)
T d1p3da1           7 RVQQIHFIGIGGAGMSGIAEILLNEG   32 (96)
T ss_dssp             TCCEEEEETTTSTTHHHHHHHHHHHT
T ss_pred             hCCEEEEEEECHHHHHHHHHHHHhCC
Confidence            35578899999999999999887765

>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=87.64  E-value=0.17  Score=34.59  Aligned_cols=20  Identities=25%  Similarity=0.262  Sum_probs=17.5

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -|+|+|-.+.|||||+.++.
T Consensus         5 ni~iiGHvd~GKSTL~~~l~   24 (196)
T d1d2ea3           5 NVGTIGHVDHGKTTLTAAIT   24 (196)
T ss_dssp             EEEEESSTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHH
Confidence            37899999999999998774

>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=86.32  E-value=0.19  Score=37.32  Aligned_cols=20  Identities=30%  Similarity=0.419  Sum_probs=17.4

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      +-+|+|.-|+|||++..++.
T Consensus        27 l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          27 FTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            55689999999999998874

>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=85.99  E-value=0.17  Score=36.18  Aligned_cols=20  Identities=30%  Similarity=0.449  Sum_probs=17.3

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      +-+|+|.-|+|||++..++.
T Consensus        26 lnvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          26 VTAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEEEECCTTTCSTHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHH
Confidence            66799999999999987773

>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=85.96  E-value=0.35  Score=33.57  Aligned_cols=23  Identities=13%  Similarity=0.065  Sum_probs=19.2

Q ss_pred             CeEEEEEEcCCCcchHHHHHHHH
Q 039127           47 GFFVIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        47 ~~~vv~I~G~gGiGKTtLa~~~~   69 (162)
                      +...++++|-...|||||+.++.
T Consensus         8 ~~~~i~viGHVd~GKSTL~~~Ll   30 (222)
T d1zunb3           8 EMLRFLTCGNVDDGKSTLIGRLL   30 (222)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHH
T ss_pred             CcceEEEEcCCCCCHHHHHHHHH
Confidence            34557889999999999998874

>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=85.58  E-value=0.24  Score=34.24  Aligned_cols=20  Identities=20%  Similarity=0.213  Sum_probs=17.1

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -|+|+|-.+.|||||+.++.
T Consensus         5 Ni~viGHVd~GKTTL~~~Ll   24 (224)
T d1jnya3           5 NLIVIGHVDHGKSTLVGRLL   24 (224)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEecCCCCHHHHHHHHH
Confidence            47789999999999997663

>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=84.77  E-value=0.32  Score=30.74  Aligned_cols=61  Identities=10%  Similarity=0.116  Sum_probs=34.1

Q ss_pred             EEEEEEcCCCcchHHHHHHHHccCC----ceEEEEEeCCCCCChhhHHHHHhhccccCCCcEEEEecCCh
Q 039127           49 FVIPIIGMGGSGNTTPALPVYNDKT----VNFNFALDDTWKEKYVDWTNMRDLFAAVASRSKVIVTTRNQ  114 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~~~~~~~~----~~~LlVlDdv~~~~~~~~~~l~~~l~~~~~gs~iiiTTR~~  114 (162)
                      -.|.+.|..|+||+|||.++.....    .+..=.||+=   +......+..-+  ...|+-+|+++-.+
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~---ni~ri~fva~e~--~k~G~~~iv~~~~p   71 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHN---NKTELLSLIQDF--IGSGSGLIIPDQWE   71 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCT---TCHHHHTTHHHH--HHTTCEEEESSCCC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecCC---CHHHHHHHHHHH--HhcCCEEEEecCCc
Confidence            4566889999999999998854431    2344444432   111111111111  23477788876543

>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=84.07  E-value=0.4  Score=32.40  Aligned_cols=21  Identities=24%  Similarity=0.300  Sum_probs=18.8

Q ss_pred             EEEEEcCCCcchHHHHHHHHc
Q 039127           50 VIPIIGMGGSGNTTPALPVYN   70 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~~   70 (162)
                      .|+|+|-...|||||+..+..
T Consensus        10 ni~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3          10 NIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             EEEEECSTTSSHHHHHHHHHS
T ss_pred             EEEEEEccCCcHHHHHHHHHh
Confidence            588999999999999999865

>d1j6ua1 c.5.1.1 (A:0-88) UDP-N-acetylmuramate-alanine ligase MurC {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: MurCD N-terminal domain
superfamily: MurCD N-terminal domain
family: MurCD N-terminal domain
domain: UDP-N-acetylmuramate-alanine ligase MurC
species: Thermotoga maritima [TaxId: 2336]

Probab=83.61  E-value=0.33  Score=28.82  Aligned_cols=22  Identities=32%  Similarity=0.647  Sum_probs=18.9

Q ss_pred             EEEEcCCCcchHHHHHHHHccC
Q 039127           51 IPIIGMGGSGNTTPALPVYNDK   72 (162)
Q Consensus        51 v~I~G~gGiGKTtLa~~~~~~~   72 (162)
                      |-++|.||+|.+.||+.+.+.-
T Consensus         4 ihfiGIgG~GMs~LA~~L~~~G   25 (89)
T d1j6ua1           4 IHFVGIGGIGMSAVALHEFSNG   25 (89)
T ss_dssp             EEEETTTSHHHHHHHHHHHHTT
T ss_pred             EEEEeECHHHHHHHHHHHHhCC
Confidence            5678999999999999877665

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=83.27  E-value=0.31  Score=35.84  Aligned_cols=16  Identities=38%  Similarity=0.665  Sum_probs=14.0

Q ss_pred             EEEEEcCCCcchHHHH
Q 039127           50 VIPIIGMGGSGNTTPA   65 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa   65 (162)
                      +-.+.|+.|.|||||.
T Consensus        16 ~alfFGLSGTGKTTLs   31 (313)
T d2olra1          16 VAVFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEEEECSTTSSHHHHH
T ss_pred             EEEEEccCCCCcccce
Confidence            4468999999999988

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=81.32  E-value=0.36  Score=35.50  Aligned_cols=18  Identities=33%  Similarity=0.484  Sum_probs=14.9

Q ss_pred             EEEEEEcCCCcchHHHHH
Q 039127           49 FVIPIIGMGGSGNTTPAL   66 (162)
Q Consensus        49 ~vv~I~G~gGiGKTtLa~   66 (162)
                      .+-...|+.|.|||||..
T Consensus        15 ~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             CEEEEEECTTSCHHHHTC
T ss_pred             CEEEEEccCCCCcccccc
Confidence            355788999999999874

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=81.01  E-value=0.41  Score=35.28  Aligned_cols=16  Identities=38%  Similarity=0.669  Sum_probs=14.0

Q ss_pred             EEEEEcCCCcchHHHH
Q 039127           50 VIPIIGMGGSGNTTPA   65 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa   65 (162)
                      +-.+.|+.|.|||||.
T Consensus        16 ~alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          16 VTVFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEEEECCTTSSHHHHH
T ss_pred             EEEEEccCCCCcccce
Confidence            3458899999999999

>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=80.84  E-value=0.48  Score=33.20  Aligned_cols=20  Identities=25%  Similarity=0.305  Sum_probs=17.6

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -|+|+|-.+.|||||+.++.
T Consensus         8 Ni~iiGHvD~GKsTl~~~ll   27 (239)
T d1f60a3           8 NVVVIGHVDSGKSTTTGHLI   27 (239)
T ss_dssp             EEEEEECTTSCHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            67899999999999997774

>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=80.70  E-value=0.4  Score=33.72  Aligned_cols=20  Identities=25%  Similarity=0.262  Sum_probs=17.4

Q ss_pred             EEEEEcCCCcchHHHHHHHH
Q 039127           50 VIPIIGMGGSGNTTPALPVY   69 (162)
Q Consensus        50 vv~I~G~gGiGKTtLa~~~~   69 (162)
                      -|+|.|-.+.|||||+.++.
T Consensus        26 Ni~iiGHVD~GKSTL~~~Ll   45 (245)
T d1r5ba3          26 NIVFIGHVDAGKSTLGGNIL   45 (245)
T ss_dssp             EEEEEECGGGTHHHHHHHHH
T ss_pred             EEEEEeeCCCCHHHHHHHHH
Confidence            37889999999999998773